TGAC ISPG - Developing Strategies for Big Data Bioinformatics

Lead Research Organisation: Earlham Institute
Department Name: UNLISTED

Abstract

This ISP proposal aims to develop bioinformatics tools to handle and process big genomics datasets. DNA sequencing has become an enabling technology at the heart of a revolution in life sciences. The objectives in this proposal focused on providing in the next 5 years the tools required to realise the value of big data bioinformatics. The mission of TGAC is to establish a centre of scientific excellence specialising in genomics technology, high throughput data generation and bioinformatics to work along side the UK scientific community around the BBSRC strategic research priorities for 2010-2015: food security, bioenergy and biology underpinning health. The implementation of this ISP will set up the foundations to fully develop the incipient bioinformatics groups at TGAC into a World-class research centre. The objectives for this proposal are organised in three themes: the processing of raw data into genomic information, the translation of this information into biological knowledge, and the development of an infrastructure to sustain these activities. The demands in terms of volume and data types are varied and require different skills sets and emphasis. The first objectives focus on the processing of large datasets with two concrete examples of application in genomics that are relevant to the BBSRC research community. The development of efficient assembly algorithms for large eukaryote genomes from short reads is still a topic of intensive research. In fact the product obtained from the high-throughout sequencing technologies although much cheaper is of lower quality than the assemblies generated by the previous technologies. This is a challenge that will particularly affect the development of genomics research for plant with complex and large genomes characterised by other features such as polyploidy and nested repeat structures that complicate the assembly process.

Organisations

Publications

10 25 50
 
Description We have developed and implemented enhanced protocols for sequencing in a cost-effective way. We have developed ability to generate sequence assemblies with increased contiguity and correct representation on heterozygous assemblies of complex crop species and pathogens. We have developed a data management and federation platform to enable researchers to gain easier access to large wheat datasets and analytical pathways capable of dealing with them. We deployed improved data tracking and analysis systems though platforms such as Cyverse UK, Galaxy and COPO. We have developed methods to identify variants in several species with complex genomes with a focus on induced variation (exome captures for bread wheat, barley and brassica) and diversity sets (e.g. rice, barley, ash tree and willow). we have developed tools for assembling and representing variation in viral metagenomics and to identify microbial and eucaryotic species using new sequencing technologies. Finally we have developed We have developed laboratory protocols and annotation approaches to improve the coding and non-coding annotation of complex crop species.
Exploitation Route The new methods and novel strategies developed for the application of high throughput sequencing technologies to plant, and animal health deliver have had direct impact on the the academic and industrial communities centered around the three BBSRC scientific priorities: food security, bioenegry and biology underpinning health. We have facilitated the access to complex crop genomes such as the wheat sequence and we have provided convenient and user-friendly tools to access the genomic features will have a direct impact on the way research is conducted on cereals and other food crops. We have generated and made accessible a wealth of information that breeders can use to rapidly select for varieties with favourable traits, and also for plant scientists to conduct basic research on crops. We have established long lasting partnerships with the UK and international scientific community, successfully implementing our developed strategies through collaborations and by providing training in emerging technologies and bioinformatics and access to data analysis platforms.
Sectors Agriculture, Food and Drink,Digital/Communication/Information Technologies (including Software),Environment

 
Description By improving the performance and capacity of assembly algorithms we have facilitated the access to complex crop genomes such as the wheat sequence by breeders, agri-tech industries and producers. Through the work in the work within the existing NC in Genomics we have established processes to address global food security concerns through responding to plant pathogen outbreaks worldwide e.g. ash dieback, yellow rust, wheat blast.
First Year Of Impact 2016
Sector Agriculture, Food and Drink,Digital/Communication/Information Technologies (including Software),Environment
Impact Types Economic,Policy & public services

 
Description Oral Evidence to House of Commons Science and Technology Committee enquiry on Balance and effectiveness of research and innovation spending
Geographic Reach National 
Policy Influence Type Gave evidence to a government review
URL https://parliamentlive.tv/Event/Index/4bdf3ff7-d1a6-4605-8b73-aca355bf9f89
 
Description 14 ERA-CAPS- Coordinating Action in Plant Sciences: INvestigating TRiticeae EPIgenomes for Domestication (INTREPID)
Amount £305,265 (GBP)
Funding ID BB/N005104/2 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2016 
End 03/2019
 
Description 15-IWYP Using Next Generation Genetic Approaches to Exploit Phenotypic Variation in Photosynthetic Efficiency to Increase Wheat Yield
Amount £431,101 (GBP)
Funding ID BB/N020871/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2016 
End 03/2019
 
Description BBR - COpenPlantOmics (COPO): a Collaborative Bioinformatics Plant Science Platform
Amount £590,564 (GBP)
Funding ID BB/L024055/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2014 
End 10/2017
 
Description BBR - CerealsDB: A community resource for wheat genomics
Amount £144,052 (GBP)
Funding ID BB/L024144/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 08/2014 
End 07/2018
 
Description BBR - RevGenUK the next generation: establishing a TILLING boutique for a UK-based reverse genetics community resource
Amount £187,788 (GBP)
Funding ID BB/I026030/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2012 
End 06/2015
 
Description BBR - Targeted gene knockouts in crops using RNA-guided Cas9 nuclease
Amount £12,252 (GBP)
Funding ID BB/N019466/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2016 
End 08/2019
 
Description BBRO Open - Discovering the source of sugar beet infection and re-infection by Erysiphe betae
Amount £83,580 (GBP)
Organisation British Beet Research Organisation 
Sector Charity/Non Profit
Country United Kingdom
Start 10/2015 
End 10/2016
 
Description BBSRC Big Data Strategic Investment 2014 - Big Data Infrastructure for Crop Genomics
Amount £1,001,143 (GBP)
Funding ID BB/M018458/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 12/2014 
End 06/2016
 
Description BBSRC Big Data Strategic Investment 2014 - Establishing the infrastructure for functional annotation of farmed animal genomes
Amount £695,240 (GBP)
Funding ID BB/M01844X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2015 
End 06/2016
 
Description BBSRC Big Data Strategic Investment 2014 - iPLANT
Amount £912,486 (GBP)
Funding ID BB/M018431/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2015 
End 03/2017
 
Description BBSRC DNA Synthesis - Building national hardware and software infrastructure for UK DNA Foundries
Amount £315,041 (GBP)
Funding ID BB/M025640/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2015 
End 11/2016
 
Description BBSRC ELIXIR European life science infrastructure for biological information - Delivering ELIXIR-UK
Amount £42,684 (GBP)
Funding ID BB/L005042/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 02/2014 
End 02/2017
 
Description BBSRC EPSRC Joint Call - OpenPlant: University of Cambridge-John Innes Centre for Synthetic Biology
Amount £311,737 (GBP)
Funding ID BB/L014130/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 05/2016 
End 09/2019
 
Description BBSRC/NERC Sustainable Aquaculture Initiative - Genomic approaches to identification and preservation of wild tilapia genetic resources for aquaculture
Amount £73,887 (GBP)
Funding ID BB/M026736/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2015 
End 03/2017
 
Description BSBEC-BioMASS - Willow Genome Sequencing & Bioinformatics Integration Project
Amount £124,230 (GBP)
Funding ID BBS/E/T/000GP017 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 11/2012 
End 03/2015
 
Description British Council Newton Institutional links - Bioinformatics training for next-generation rice genomics in Vietnam
Amount £51,863 (GBP)
Organisation British Council 
Sector Charity/Non Profit
Country United Kingdom
Start 04/2015 
End 09/2017
 
Description CRUK SC - Biomarker Project Award
Amount £287,096 (GBP)
Funding ID C27045/A21070 
Organisation Cancer Research UK 
Sector Charity/Non Profit
Country United Kingdom
Start 03/2016 
End 02/2019
 
Description Capital Grant contribution towards Seeds of Discovery Programme
Amount £1,000,000 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 11/2015 
End 10/2016
 
Description Defra Open - Oilseed Rape Genetic Improvement Network (OREGIN)
Amount £13,702 (GBP)
Funding ID CH0104 
Organisation Department For Environment, Food And Rural Affairs (DEFRA) 
Sector Public
Country United Kingdom
Start 01/2015 
End 01/2017
 
Description Defra/BBSRC An open consortium (Nornex1) for molecular understanding of ash dieback disease
Amount £2,302,345 (GBP)
Funding ID BBS/E/J/000CA523 
Organisation Research Councils UK (RCUK) 
Sector Public
Country United Kingdom
Start 03/2013 
End 08/2015
 
Description ELIXIR European life science infrastructure for biological information - ELIXIR-UK Coordination Office
Amount £767,420 (GBP)
Funding ID BB/P017193/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2016 
End 10/2020
 
Description Eastern Agri-Tech Growth Initiative Grant Proposal
Amount £49,075 (GBP)
Organisation Greater Cambridge Greater Peterborough LEP 
Start 04/2016 
End 03/2017
 
Description FP7 Collaborative Project - Wheat and barley Legacy for Breeding Improvement
Amount £268,645 (GBP)
Funding ID 613556 
Organisation European Commission 
Sector Public
Country European Union (EU)
Start 01/2014 
End 12/2018
 
Description FP7 MC International Research Staff Exchange Scheme - Developing an European American NGS Network
Amount £122,769 (GBP)
Funding ID 612583 
Organisation European Commission 
Sector Public
Country European Union (EU)
Start 01/2014 
End 12/2017
 
Description Federating access to wheat data services for efficient genome-specific marker design
Amount £119,193 (GBP)
Funding ID BB/N023420/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 08/2016 
End 07/2017
 
Description Follow On Fund - Utilising Illumina sequencing for high throughput genotyping of wheat
Amount £147,471 (GBP)
Funding ID BB/P004857/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2017 
End 06/2018
 
Description Follow On Fund Pathfinder - Air-seq: A method for early detection of any biological threats
Amount £9,900 (GBP)
Funding ID BB/N020251/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 03/2016 
End 08/2016
 
Description Follow On Fund Pathfinder - CropQuant - Next-generation cost-effective crop monitoring system for breeding, crop research and digital agriculture
Amount £10,936 (GBP)
Funding ID BB/P028160/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 03/2017 
End 08/2017
 
Description GCRF Impact Acceleration Account (IAA)
Amount £217,594 (GBP)
Funding ID BB/GCRF/IAA-05 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2016 
End 03/2017
 
Description Grand Challenges Research Fund (GCRF) Data & Resources (EI)
Amount £646,083 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2016 
End 07/2017
 
Description Grand Challenges Research Fund (GCRF) Data & Resources (IBERS)
Amount £161,563 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 12/2016 
End 07/2017
 
Description Grand Challenges Research Fund (GCRF) Data & Resources (JIC)
Amount £27,200 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2016 
End 07/2017
 
Description H2020 ERC Starting Grant - Mechanisms of Immune Receptor Diversification in Cereals
Amount £630,642 (GBP)
Funding ID 716233 
Organisation European Commission H2020 
Sector Public
Country Belgium
Start 09/2017 
End 10/2022
 
Description H2020 RIA - Research Innovation Action - ELIXIR-EXCELERATE: Fast-track ELIXIR implementation and drive early user exploitation across the life-sciences.
Amount £138,462 (GBP)
Funding ID 676559 
Organisation European Commission H2020 
Sector Public
Country Belgium
Start 09/2015 
End 08/2019
 
Description IPA Industrial Partnering Award - Colombia and Kenya Partnering Award: Skills sharing for genomic approaches to forage improvement
Amount £30,366 (GBP)
Funding ID BB/L027011/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 11/2014 
End 11/2016
 
Description IPA Industrial Partnering Award - Comparative population genomics of red clover domestication and improvement
Amount £131,567 (GBP)
Funding ID BB/L022257/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 08/2014 
End 08/2017
 
Description IPA Industrial Partnering Award - Controlling important diseases in potato by cloning functional NB-LRR-type resistance genes
Amount £204,473 (GBP)
Funding ID BB/L009757/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2014 
End 08/2017
 
Description IPA Industrial Partnering Award - EUROPEAN PARTNERING AWARD: ELIXIR - Broadening UK Participation
Amount £20,216 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 03/2017 
End 09/2018
 
Description IPA Industrial Partnering Award - Functional genomics of aphid adaption to plant defenses
Amount £276,863 (GBP)
Funding ID BB/L001985/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 03/2014 
End 03/2017
 
Description IPA Industrial Partnering Award - OctoSEQ- Sequencing the octoploid strawberry
Amount £525,192 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2016 
End 03/2018
 
Description IPA Industrial Partnering Award - Using field pathogenomics to study wheat yellow rust dispersal and population dynamics at a national and international scale
Amount £450,254 (GBP)
Funding ID BB/M025519/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 07/2015 
End 06/2018
 
Description NRP PhD Studentship - Next generation genomics tools for sustainable bread wheat production
Amount £91,432 (GBP)
Organisation Norwich Research Park 
Sector Private
Country United Kingdom
Start 10/2012 
End 09/2016
 
Description NRP Seed fund - Metagenomics of pollen for ecological applications
Amount £14,806 (GBP)
Organisation Norwich Research Park 
Sector Private
Country United Kingdom
Start 04/2016 
End 03/2017
 
Description NRP translational fund - CropQuant - The Next Generation Crop Monitoring Workstation for Precision Agriculture
Amount £50,000 (GBP)
Organisation Norwich Research Park 
Sector Private
Country United Kingdom
Start 04/2016 
End 03/2017
 
Description NRP translational fund - Façade: an Open Source library for visual exploration of genomic data
Amount £49,740 (GBP)
Organisation Norwich Research Park 
Sector Private
Country United Kingdom
Start 01/2016 
End 01/2017
 
Description NRP translational fund - NavigOmix - visualisation and data integration software for the life sciences
Amount £12,085 (GBP)
Organisation Norwich Research Park 
Sector Private
Country United Kingdom
Start 11/2016 
End 01/2017
 
Description NRP translational fund - Omix Navigator - A Visualisation and Data Integration Software for Life Sciences
Amount £45,779 (GBP)
Organisation Norwich Research Park 
Sector Private
Country United Kingdom
Start 06/2015 
End 03/2016
 
Description NRP translational fund - SeedGerm - The next generation phenotyping platform to quantify crop seed germination and seedling vigour for seed Industry and seed science research
Amount £49,658 (GBP)
Organisation Norwich Research Park 
Sector Private
Country United Kingdom
Start 05/2016 
End 05/2017
 
Description NRP translational fund - iSNP - A stratified medicine pipeline
Amount £24,384 (GBP)
Organisation Norwich Research Park 
Sector Private
Country United Kingdom
Start 02/2016 
End 11/2016
 
Description New Investigator Award: Rapid identification of genes and pathways that increase resistance to yellow rust disease of wheat
Amount £297,772 (GBP)
Funding ID BB/N016106/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2016 
End 08/2019
 
Description Newton Fund - 14CONFAP From Comparative genomics to Phylogenomics: uncovering the genomic complexity and evolutionary adaptations of twenty species of protozoa
Amount £21,775 (GBP)
Funding ID BB/M029239/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2016 
End 02/2017
 
Description Newton fund (Rice research) - Sequencing and exploitation of the genetic diversity in Vietnamese native rice lines to serve research and breeding programs
Amount £177,371 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2016 
End 03/2017
 
Description Newton fund - Bilateral BBSRC-Embrapa: Exploiting natural and induced variation to increase Fusarium head blight and brusone resistance in wheat
Amount £21,056 (GBP)
Funding ID BB/N019113/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 06/2016 
End 06/2019
 
Description Newton fund - Sequencing the genic portion of seeds of discovery advance pre-breeding germplasm to uncover the genetic variation
Amount £323,346 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2016 
End 09/2019
 
Description Open plant fund - Establishing Low Cost Microfluidic System for Single Cell Analysis
Amount £5,000 (GBP)
Organisation University of Cambridge 
Sector Academic/University
Country United Kingdom
Start 08/2016 
End 01/2017
 
Description Open plant fund - Facilitating synthetic biology literature mining and searching for the plant community
Amount £5,000 (GBP)
Organisation University of Cambridge 
Sector Academic/University
Country United Kingdom
Start 10/2015 
End 03/2016
 
Description RCUK Newton Fund - 14CONFAP From Comparative genomics to Phylogenomics: uncovering the genomic complexity and evolutionary adaptations of twenty species of protozoa
Amount £36,864 (GBP)
Funding ID BB/M029239/1 
Organisation Research Councils UK (RCUK) 
Sector Public
Country United Kingdom
Start 01/2015 
End 12/2016
 
Description RCUK Newton Fund - BBSRC-Embrapa Genomics and pathogenomics to improve FHB and brusone resistance in Brazilian wheat
Amount £12,246 (GBP)
Funding ID BB/N004442/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2015 
End 03/2016
 
Description RCUK-Growing global capacity
Amount £5,196,243 (GBP)
Funding ID BB/P028098/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2017 
End 12/2021
 
Description Research Grant, BBR Scheme
Amount £1,900,845 (GBP)
Funding ID BB/M01844X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 02/2015 
End 08/2017
 
Description Responsive Mode - Combining field phenotyping and next generation genetics to uncover markers, genes and biology underlying drought tolerance in wheat
Amount £316,971 (GBP)
Funding ID BB/L011786/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2016 
End 06/2018
 
Description Responsive Mode - Development of computational strategies for identification and characterisation of viruses in metagenomic samples
Amount £307,411 (GBP)
Funding ID BB/M004805/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 12/2014 
End 11/2017
 
Description Responsive Mode - Effect of Chromatin modification on meiosis:wheat, a model for polyploid crops
Amount £131,930 (GBP)
Funding ID BB/J009334/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2013 
End 06/2015
 
Description Responsive Mode - Investigating cellular plasticity in the avian primitive streak
Amount £31,763 (GBP)
Funding ID BB/N002326/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2016 
End 07/2016
 
Description Responsive Mode - Molecular basis of foodborne disease risk of variants of Salmonella Typhimurium DT193 and U288
Amount £52,058 (GBP)
Funding ID BB/M025411/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 11/2015 
End 10/2018
 
Description Responsive Mode - Use of a self-compatible diploid potato for mutagenesis and forward genetic studies.
Amount £140,317 (GBP)
Funding ID BB/K019090/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 03/2014 
End 03/2017
 
Description TGAC Galaxy Asset Development Project and Training
Amount £146,657 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 12/2014 
End 06/2017
 
Description TSB - Crop & Livetsock Disease Challenge - Development of magnetometer immunoassay technology to improve screening accuracy and user friendliness with sequencing and resistance information
Amount £200,155 (GBP)
Funding ID TS/M009009/1 BB/N00387X/1 
Organisation Innovate UK 
Sector Public
Country United Kingdom
Start 09/2015 
End 11/2017
 
Description TSB Energy Efficient Computing 2 (ECC II) - Project GENESYS - Energy Efficient DNA Sequence Searches Using a Revolutionary Optical Processor (Innovate UK ref 102260)
Amount £163,352 (GBP)
Funding ID TS/M012433/1 
Organisation Innovate UK 
Sector Public
Country United Kingdom
Start 06/2015 
End 05/2017
 
Description Tools & Resources - A computational cloud framework for the study of gene families
Amount £139,763 (GBP)
Funding ID BB/N023145/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 03/2017 
End 08/2018
 
Description Tools & Resources - PopSeqle: Software for Population Sequence data to Lower Errors
Amount £22,130 (GBP)
Funding ID BB/N02317X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 12/2016 
End 05/2018
 
Description Tools & Resources - Rapid in-field Nanopore-based identification of plant and animal pathogens
Amount £150,956 (GBP)
Funding ID BB/N023196/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 09/2016 
End 11/2017
 
Description iCASE - Living figures: reproducing published experiments in situ
Amount £95,042 (GBP)
Funding ID BB/M017176/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2015 
End 03/2020
 
Description iCASE - Towards genotype-based monitoring for fungicide resistance management
Amount £95,042 (GBP)
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2016 
End 02/2017
 
Description iCASE studentship - Integrating Visualization of Unreferenced Genomes
Amount £94,126 (GBP)
Funding ID BB/L017350/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 10/2014 
End 09/2018
 
Description sLoLa - Engineering Synthetic Microbial Communities for Biomethane Production
Amount £544,790 (GBP)
Funding ID BBS/E/T/000GP016 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2013 
End 04/2018
 
Description sLoLa - Renewable Industrial Products from Rapeseed (RIPR)
Amount £299,973 (GBP)
Funding ID BB/L002124/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2014 
End 12/2018
 
Description sLoLa - Triticeae Genomics for Sustainable Agriculture
Amount £2,667,351 (GBP)
Funding ID BB/J003743/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 08/2012 
End 01/2018
 
Description sLoLa - Triticeae Genomics for Sustainable Agriculture (additional funds)
Amount £749,867 (GBP)
Funding ID BBS/E/T/000GP034 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2015 
End 01/2017
 
Description sLola - Understanding influenza A virus: linking transmission, evolutionary dynamics, pathogenesis and immunity in pigs
Amount £341,158 (GBP)
Funding ID BB/L001330/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 04/2014 
End 03/2019
 
Title Experimental Lab Technique Development - ATAC-Seq 
Description ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing) is a technique used in molecular biology to study chromatin accessibility. Having first been described in 2013, it has not been extensively applied to teleost fish model systems, including cichlids. 
Type Of Material Technology assay or reagent 
Year Produced 2017 
Provided To Others? No  
Impact We worked towards developing the technique to study chromatin accessibility in cichlid tissues, enabling an added angle of epigentic study contributing towards speciation/adaptation events in these fish. As such, collaborators are now interested in including the approach to study cichlids in future grants and we have also included in current Core-Strategic Programme grants. Also, we plan to roll the technique out as a service for sequencing platform users. 
 
Title Plant R genes pipeline 
Description A set of scripts for identification of plant NLR immune receptors, including non-canonical domain architectures. 
Type Of Material Technology assay or reagent 
Year Produced 2016 
Provided To Others? Yes  
Impact We have used this tool to annotate plant immune receptors in over 150 plant genomes. This tool has been used by multiple other academic groups. Our open access publication (Sarris et al BMC Biology 2016) that originally described our approach and initial results has been cited 47 times, accessed 9,363 times and has an Almetric attention score of 103. It has been mentioned in 7 news outlets, 3 blogs and 52 tweeters. 
URL https://github.com/krasileva-group/plant_rgenes
 
Title Autophagy Regulatory Network 
Description A manually curated dataset of autophagy components and their interactions. Integrated resource with known protein regulators of autophagy. Contains possible transcriptional and post-transcriptional regulators (ie., transcription factors and miRNA) of autophagy and its protein regulators. Links all autophagy component and regulators to major signaling pathways. Predict novel regulators and interactions. Can be downloaded in a user-specified content and format. 
Type Of Material Database/Collection of data 
Year Produced 2015 
Provided To Others? Yes  
Impact Autophagy Regulatory Network - a systems-level bioinformatics resource for studying autophagy components and their regulation (2015). Türei D, Földvári-Nagy L, Fazekas D, Módos D, Kubisch J, Kadlecsik T, Demeter A, Lenti K, Csermely P, Vellai T, Korcsmáros T. Autophagy, 11(1):155-165. - 26 citations 
URL http://autophagyregulation.org
 
Title NRF2ome 
Description A manually curated dataset of regulatory connections of NRF2 Integrated resource with known protein regulators of NRF2 Contains possible transcriptional and post-transcriptional regulators (ie., transcription factors and miRNA) of NRF2 and its protein regulators. Links NRF2 and regulators to major signaling pathways. Predict novel regulators and interactions. Can be downloaded in a user-specified content and format. 
Type Of Material Database/Collection of data 
Year Produced 2013 
Provided To Others? Yes  
Impact NRF2-ome, an integrated web resource to discover protein interaction and regulatory networks of NRF2. Türei D, Papp D, Fazekas D, Földvári-Nagy L, Módos D, Lenti K, Csermely P, Korcsmáros T. (2013) - Oxidative Medicine and Cellular Longevity, 2013:737591 - 18 citations The NRF2-related interactome and regulome contain multifunctional proteins and fine-tuned autoregulatory loops. (2012) Papp D, Lenti K, Módos D, Fazekas D, Dúl Z, Türei D, Földvári-Nagy L, Nussinov R, Csermely P, Korcsmáros T. FEBS Letters 586, 13, 1795-1802. - 54 citations 
URL http://nrf2.elte.hu/
 
Title Recombination landscape of hexaploid bread wheat 
Description Sequence exchange between homologous chromosomes through crossing over and gene conversion is highly conserved among eukaryotes, contributing to genome stability and genetic diversity. Lack of recombination limits breeding efforts in crops, therefore increasing recombination rates can reduce linkage-drag and generate new genetic combinations. We use computational analysis of open access data from 13 recombinant inbred mapping populations to assess crossover and gene conversion frequency in the hexaploid genome of wheat (Triticum aestivum). We find that high frequency crossover sites are shared between populations and that closely related parental founders lead to populations with more similar crossover patterns. We have identified QTL for altered gene conversion and crossover frequency and confirm functionality for a novel candidate RecQ helicase gene that belongs to an ancient clade that is missing in some plant lineages. Harnessing the RecQ helicase has the potential to break linkage-drag utilizing widespread gene conversions conserved across recombination sparse centromeric regions. 
Type Of Material Database/Collection of data 
Year Produced 2019 
Provided To Others? Yes  
Impact Demonstrates high rates of recombination in wheat previously not seen 
URL https://www.ebi.ac.uk/ena/data/view/PRJEB28231
 
Title SalmoNet2.0 
Description An integrated network resource containing regulatory, metabolic and protein-protein interactions For multiple Salmonella strains classified as gastro-intestinal or extra-intestinal pathogens An interaction resource with manually curated, high-throughput and predicted interactions Provides a strain specific and consensus networks Can be downloaded in a user-specified content and format 
Type Of Material Database/Collection of data 
Year Produced 2017 
Provided To Others? Yes  
Impact SalmoNet, an integrated network of ten Salmonella enterica strains reveals common and distinct pathways to host adaptation Métris A., Sudhakar P., Fazekas D., Demeter A., Ari E., Branchu P, Kingsley R.A., Baranyi J., Korcsmáros T. npj Systems Biology and Applications 3, Article number: 31 (2017) doi:10.1038/s41540-017-0034-z 
URL http://salmonet.org/
 
Title SignaLink 2 
Description A multi-layered network structure allows the selection of user-specific details Manually curated dataset of major signaling pathways Extends pathways with integrated regulatory resources Contains pathway-specific transcription factors, miRNA, scaffolds and post translational modifying enzymes Multi-pathway proteins: proteins can belong to more than one pathway Proteins are classified by pathway position (core/non-core) and section (ligand, receptor, mediator, etc.) Signaling interactions are directed and labeled with PubMed IDs of experimental evidence Browse signaling pathways, cross-talks and multi-pathway proteins Select transcriptional, post- transcriptional and post translational regulators of a signaling pathway Download species- and pathway-specific information in several formats Design genetic/biochemical experiments to verify predicted pathway member proteins Model tissue- or disease-specific signaling processes by merging SignaLink with expression data Discover novel signaling drug target candidates 
Type Of Material Database/Collection of data 
Year Produced 2013 
Provided To Others? Yes  
Impact Downloaded >2,000 times from 400 institutes in 79 countries. > 78,000 signalling protein data pages upon 18,000 visits The visitors have spent altogether 73 days using the SignaLink website 78 citations 
URL http://signalink.org/
 
Description BRIDGE Colombia Network 
Organisation Aberystwyth University
Department Institute of Biological, Environmental and Rural Sciences (IBERS)
Country United Kingdom 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Administrative Department of Science, Technology and Innovation (Colciencias)
Country Colombia 
Sector Public 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Alexander von Humboldt Biological Resources Research Institute
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Alexander von Humboldt Biological Resources Research Institute
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation CGIAR
Department International Center for Tropical Agriculture
Country Colombia 
Sector Charity/Non Profit 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Colombian Agricultural Research Corporation
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Colombian Sugarcane Research Center
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation CorpoGen
Country Colombia 
Sector Private 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Del Rosario University
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation EAFIT University
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Earlham Institute
Country United Kingdom 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation El Bosque University
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Guillermo Pilleres Botanical Garden
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation ICESI University
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Industrial University of Santander
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Institute for Marine and Coastal Research
Country Colombia 
Sector Charity/Non Profit 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation National Research Center for Coffee
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation National University of Colombia
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Natural History Museum
Country United Kingdom 
Sector Public 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Pontifical Xavierian University
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Royal Botanic Garden Edinburgh (RBGE)
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation Royal Botanic Gardens, Kew
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation The Eden Project
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation University College London
Country United Kingdom 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation University of Antioquia
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation University of East Anglia
Country United Kingdom 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation University of Sheffield
Country United Kingdom 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation University of Sydney
Country Australia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation University of the Amazon
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description BRIDGE Colombia Network 
Organisation University of the Andes
Country Colombia 
Sector Academic/University 
PI Contribution The Institute founded the BRIDGE Colombia network of Colombia, British and International organisations following the success of an IAA funded workshop around Colombian Biodiversity. The development of the BRIDGE day 2017 and 2018. In 2018 it was decide that GROW and BRIDGE would aligned with some projects of the Newton Caldas programme
Collaborator Contribution The network is a multidisciplinary network of researchers and organisations with an interest in preserving Colombian biodiversity and promoting the sustainable use of natural resources. Each network partner has contributed to ongoing discussions about current and future research proposals and ideas.
Impact Disciplines involved: biological sciences, agricultural sciences, ecology, microbiology, economics, social sciences, political sciences
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation Aberystwyth University
Department Institute of Biological, Environmental and Rural Sciences (IBERS)
Country United Kingdom 
Sector Academic/University 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation Administrative Department of Science, Technology and Innovation (Colciencias)
Country Colombia 
Sector Public 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation Alexander von Humboldt Biological Resources Research Institute
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation CGIAR
Department International Center for Tropical Agriculture
Country Colombia 
Sector Charity/Non Profit 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation Colombian Agricultural Research Corporation
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation Colombian Sugarcane Research Center
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation CorpoGen
Country Colombia 
Sector Private 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation EAFIT University
Country Colombia 
Sector Academic/University 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation John Regan Associates Ltd
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation National University of Colombia
Country Colombia 
Sector Academic/University 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation Natural History Museum
Country United Kingdom 
Sector Public 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation The Eden Project
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation University of East Anglia
Country United Kingdom 
Sector Academic/University 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation University of Sydney
Department Faculty of Veterinary Science
Country Australia 
Sector Academic/University 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation University of the Andes
Country Colombia 
Sector Academic/University 
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description GROW Colombia partnerships 
Organisation Zoological Society of East Anglia
PI Contribution The Institute brought together partners from Colombia and the UK with an interest in biodiversity to develop and collaborate on research ideas and proposals relating to understanding the preserving Colombian Biodiversity
Collaborator Contribution The partnership is multidisciplinary, calling on the expertise of each of our partners to develop a series of research projects and goals to help understand Colombian biodiversity and develop recommendations for the continued preservation and sustainable use of natural products
Impact Further funding: RCUK-GROW programme BB/P028098/1; Multidisciplinary programme involving biological sciences, agricultural sciences, economics, social sciences, political science
Start Year 2017
 
Description IBM 
Organisation IBM
Department IBM UK Ltd
Country United Kingdom 
Sector Private 
PI Contribution This project aims to leverage these new resources together with large gene expression data sets to reconstruct regulatory networks controlling important traits. With outputs feeding directly into UK and International wheat research and UK wheat breeding programmes. The collaboration focuses around two large data sets: the first, a high resolution time series data set for wheat and the second, a developmental time course for 16 international elite cultivars. The project aims to: 1. Develop normalisation methods for the transcriptome data sets (RNA-seq data), specific for dealing with the complexities of time course data and a complex polyploid genome. Benchmark these new approaches against existing tools. 2. Develop AI pattern matching algorithms to identify gene-expression modules and correlate these with biological processes. Use pattern matching algorithms to interrogate the high resolution data sets and to identify differences between regulatory networks in elite cultivars 3. Correlate changes in temporal or developmental expression patterns with changes in promoter architecture 4. Use network inference, co-expression and gene modules to reconstruct regulatory networks. Identify how network structure changes over time and between cultivars. This project will have impact for scientists as it will address fundamental questions about temporal regulation of processes in wheat and how a complex networks work across multiple genomes within a polyploid. By comparing networks across elite cultivars it will also have an impact for UK and international wheat breeders, identification of how breeding programmes have changed the architure of regulatory networks. This will have important impact for the selection of future networks for breeders to target or for assessing the selection of breeding material. It will allow breeders to make full use of the new resources and technologies. To ensure the impact to the UK industry is realised we aim to present this work a UK networking meeting and to visit and involve three private UK breeding companies RAGT, KWS and Elsoms seeds in early output from the project.
Collaborator Contribution IBM have are involved in applying ML and AI approaches to analyse gene expression data in wheat and reconstruct gene networks.
Impact No outputs to data
Start Year 2017
 
Description KWS 
Organisation KWS UK
Country United Kingdom 
Sector Private 
PI Contribution Generated double haploid population for the IWYP project and provide material for INTREPID and the BBSRC/EAGER work
Collaborator Contribution Know of the techniques and approaches we are using, early access to the data we generate
Impact Double haploid seed population
Start Year 2017
 
Description RGB-Net: a Collaborative European Network on Rabbit Genome Biology 
Organisation University of Bologna
Country Italy 
Sector Academic/University 
PI Contribution The COST action brings together experts in all rabbit research areas and in other complementary research fields (breeders, geneticists, bioinformaticians, physiologists, evolutionists, embryologists, immunologists, industry experts, etc.) in order to facilitate the transition of rabbit genomic information from experimental data into usable benefits and applications by means of networking expertise. Federica Di Palma contributes towards one of four Working Groups.
Collaborator Contribution The four working groups focus on i) the refinement of the European rabbit genome resource and the development of genome-based platforms, ii) genetic aspects in meat, fur and pet rabbits and biodiversity resources, iii) the rabbit as a model in basic biology and human diseases and as a tool for biotechnology applications and iv) genetic and comparative genomic aspects for the study, exploitation and management of wild lagomorphs. The outcome is a coordination of rabbit research activities and a transfer of knowledge which will produce a strong European added value across a broad spectrum of biology research fields
Impact Conference poster and talks
Start Year 2013
 
Description Wheat Information System (WheatIS) 
Organisation Cold Spring Harbor Laboratory (CSHL)
Country United States 
Sector Charity/Non Profit 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation EMBL European Bioinformatics Institute (EMBL - EBI)
Country United Kingdom 
Sector Academic/University 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation French National Institute of Agricultural Research
Department INRA Versailles
Country France 
Sector Public 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation Helmholtz Association of German Research Centres
Department Helmholtz Zentrum Munchen
Country Germany 
Sector Public 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation International Centre for Maize and Wheat Improvement (CIMMYT)
Country Mexico 
Sector Charity/Non Profit 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation Rothamsted Research
Country United Kingdom 
Sector Academic/University 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation U.S. Department of Agriculture USDA
Department Agricultural Research Service
Country United States 
Sector Public 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation University of Bristol
Country United Kingdom 
Sector Academic/University 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation University of California, Davis
Department UC Davis College of Biological Sciences
Country United States 
Sector Academic/University 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description Wheat Information System (WheatIS) 
Organisation University of Western Australia
Country Australia 
Sector Academic/University 
PI Contribution The Grassroots infrastructure (https://grassroots.tools) developed at EI is being used to consolidate data and analyses, facilitating consistent approaches to generating, processing and disseminating public wheat datasets. The Grassroots infrastructure comprises: a data management layer to provide structure to unstructured filesystems; interfaces to interact with local or cloud-based analysis platforms; a search layer to provide multi-faceted metadata and literature querying; a web server layer to deliver content and provide access to public programmatic interfaces. EI has an extensive National Capability to provide scientific computing hardware to the UK research community and is therefore perfectly positioned to build a point-of-access to previously disparate resources to serve wheat breeders, biologists and bioinformaticians. Coupling the Grassroots project with BBSRC-funded efforts to bring Galaxy and CyVerse UK to UK researchers provides community standardised methodologies for data integration, interpretation and discovery in wheat. These resources are designed to be queried programmatically, and we are integrating them with other WheatIS resources (such as CerealsDB) accordingly via open source and freely available infrastructure. By doing so we will be promoting and facilitating an inclusive and collaborative community of experts to provide access to an interconnected network of wheat data to a scale that was simply not available previously. EI also has representation on the WheatIS Expert Working Group, meeting yearly at PAG to discuss strategy and policy for the Wheat Initiative.
Collaborator Contribution All WheatIS partners contribute to the global effort in harmonising, standardising, and sharing wheat data in a way that is technically sensible and user focused, thus minimising cost across a multi-faceted and independently funded project.
Impact This collaboration is multi-disciplinary in scope, undertaken by biologists, bioinformaticians, and breeders. Wheat Data Interoperability Guidelines - https://ist.blogs.inra.fr/wdi/
Start Year 2011
 
Description collaboration with Meyer Group at Helmholtz Munich 
Organisation Helmholtz Zentrum München
Country Germany 
Sector Public 
PI Contribution We provided the sequence data. Both groups undertook assembly strategies that were published alongside each other
Collaborator Contribution The Helmholtzz group provide annotation and analysis which were published in the paper.
Impact Joint grants including ERA-CAPs BBSRC grant. Co publication of the wheat methylome. Ongoing collaboration through the wheat genomics community on annotation and analysis
Start Year 2011
 
Title Aequatus 
Description Aequatus Browser is an open-source web-based tool developed at EI to visualise homologous gene structures among differing species or subtypes of a common species. Aequatus uses the Ensembl Compara and Core database schemas to store comparative information between organisms. Aequatus uses precalculated gene family information and genomic alignments data in the form of CIGAR strings, from Ensembl Compara or the GeneSeqToFamily pipeline, and cross-references these sequences to Ensembl Core databases for each species to gather genomic feature information via stable_ids. Aequatus then processes the comparative and feature data to provide a visual representation of the phylogenetic and structural relationships among the set of chosen species. The ultimate goal of the Aequatus Browser is to provide a unique and informative way to render and explore complex relationships between genes from various species at a level that has so far been unrealised. 
Type Of Technology Webtool/Application 
Year Produced 2017 
Open Source License? Yes  
Impact New developments to Aequatus have been..... 
URL http://aequatus.earlham.ac.uk/
 
Title Collaborative Open Plant Omics (COPO) 
Description COPO streamlines the process of data deposition to public repositories by hiding much of the complexity of metadata capture and data management from the end-user. The ISA infrastructure (www.isa-tools.org) is leveraged to provide the interoperability between metadata formats required for seamless deposition to repositories. COPO facilitates the links to data analysis platforms such as CyVerse UK and Galaxy. Logical groupings of artefacts (e.g. PDFs, raw data, contextual supplementary information) relating to a body of work are stored in COPO collections and represented by common standards, which are publicly searchable. Bundles of multiple data objects themselves can then be deposited directly into public repositories through COPO interfaces. This improvement output represents the beta release of the COPO platform in 2017. 
Type Of Technology Webtool/Application 
Year Produced 2017 
Open Source License? Yes  
Impact COPO has been added to the ELIXIR-UK roadmap for ELIXIR core data services, and is currently being used by EI and JIC researchers to deposit real, large scale sequencing datasets into the European Nucleotide Archive. COPO is also being investigated as a potential data entry tool for the CGIAR Big Data project, and this will be explored in a joint EAGER submission with CIMMYT. COPO has also been selected to act as one of the data ingestion pipelines for data arising from the Designing Future Wheat programme, depositing open data into the Grassroots repository. COPO is also being included in grant submissions to assist vertebrate and wheat communities in effective metadata management. COPO runs within the CyVerse UK National Capability infrastructure. 
URL https://copo-project.org
 
Title Collaborative Open Plant Omics (COPO) software 
Description COPO streamlines the process of data deposition to public repositories by hiding much of the complexity of metadata capture and data management from the end-user. The ISA infrastructure (www.isa-tools.org) is leveraged to provide the interoperability between metadata formats required for seamless deposition to repositories and to facilitate links to data analysis platforms. Logical groupings of artefacts (e.g. PDFs, raw data, contextual supplementary information) relating to a body of work are stored in COPO collections and represented by common standards, which are publicly searchable. Bundles of multiple data objects themselves can then be deposited directly into public repositories through COPO interfaces. 
Type Of Technology Webtool/Application 
Year Produced 2015 
Impact The software is in an early stage, but functional for deposition of data to a small number of repositories. As such we are not yet ready for end-user testing. However, we are collaborating with Cyverse US (was iPlant Collaborative) to investigate the use of COPO as the brokering system for their Data Commons. 
URL https://github.com/collaborative-open-plant-omics/COPO
 
Title CyVerse UK software stack deployment 
Description The CyVerse (formerly iPlant) UK project at EI provides hardware resources in an easy to use manner through a web interface called the Discovery Environment (DE), as well as developer and bioinformatician access through APIs and software. A series of commands, called a pipeline, is combined into a script and / or a virtualised operating system container image called Docker. The pipeline can run on any hardware available to the implementer, which in this case will be the extensive HTCondor cluster set up at EI. Once a pipeline is running correctly on through the raw scheduler, the app can be registered on the Agave API (http://www.agaveapi.co). This is enabled through constructing JSON files that specify input sources together with user-supplied and default parameters that are necessary for the pipeline to run. Once a pipeline is registered through Agave, it is available as a GUI "app" through the DE, and can be made public after testing. 
Type Of Technology Grid Application 
Year Produced 2016 
Impact The EI CyVerse hardware enables the bioinformatics pipelines developed by the project partners (Univ's. Liverpool, Nottingham, Warwick) to be run on this HPC environment. Once deployed in the CyVerse UK environment, these tools can then be made available globally through the CyVerse Discovery Environment, reaching upwards of 18000 potential users. We have released this infrastructure and are accepting users from the UK research community to start using the hardware. 
URL http://cyverseuk.org/about/cyverse-uk-projects/tgac/
 
Title GeneSeqToFamily 
Description GeneSeqToFamily represents the Ensembl Compara pipeline as a set of interconnected Galaxy tools, so they can be run interactively within the Galaxy's user-friendly workflow environment while still providing the flexibility to tailor the analysis by changing configurations and tools if necessary. Additional tools allow users to subsequently visualise the gene families produced by the workflow, using the Aequatus.js interactive tool, which has been developed as part of the Aequatus software project. 
Type Of Technology Software 
Year Produced 2017 
Open Source License? Yes  
Impact This new workflow has been used for a number of research projects at the Earlham Institute, including the investigation of gene families for the koala genome, in collaboration with Kathy Belov, Wilfried Haerty, Will Nash and Federica di Palma. The workflow was published as a preprint on bioRxiv in 2017 and subsequently accepted into the GigaScience journal in 2018. 
 
Title Grassroots API 
Description The Grassroots Infrastructure project aims to create an easily-deployable suite of computing middleware tools to help users and developers gain access to scientific data infrastructure that can easily be interconnected. With the data-generative approaches that are increasingly common in modern life science research, it is vital that the data and metadata produced by these efforts can be shared and reused. The Grassroots Infrastructure project wraps up industry-standard software tools with a consistent API that can be federated on a number of levels. This means institutions and groups can deploy a simple lightweight virtual machine, expose local data, connect up any existing data services, and federate their instance of the Grassroots with others out-of-the-box. 
Type Of Technology Software 
Year Produced 2015 
Open Source License? Yes  
Impact The Grassroots API powers the public BLAST service that runs at TGAC, predominantly for the currently available wheat assemblies including the recently released TGAC v1 w2rap assembly (in preparation). We have served over 4000 unique users with over 6000 BLAST jobs since November 2015. It also underpins the Field Pathgenomics project (BBSRC IPA award 2015, PI - Saunders D., TGAC/JIC fellow), a web portal that represents the detection and subsequent phenotyping and genotyping of the wheat yellow rust pathogen. The site aims to enable researchers and breeders to track rust epidemics over variety and time, allowing for a more proactive approach to wheat crop breeding and farming. Finally, we are working with the CerealsDB group at Univ. Bristol to deploy the Grassroots infrastructure alongside the CerealsDB web portal, allowing a federation of searching, datasets, analysis and dissemination of markers, genotypes and associated feature and literature information. 
URL https://wheatis.tgac.ac.uk/grassroots/api/
 
Title KAT - Kmer Analysis Toolkit 
Description KAT is a tool to perform kmer-spectra analyses. Arguably the most widely used feature is the comparison of the kmer spectra of a short-read dataset and a genome assembly for the same individual (often created from this same dataset). It highlights deviations and biases in sample-reconstruction, providing means for QC. Among the crucial information easily accessible is whether all of the sequenced content is included in the assembly and if there are compressed or expanded regions: these are metrics directly related to the usability of the assembly for biological research. 
Type Of Technology Software 
Year Produced 2013 
Open Source License? Yes  
Impact The insight from KAT spectra comparisons is widely appreciated within the genome assembly community and underpins a great deal of work in genome assembly at EI. 
URL http://www.earlham.ac.uk/kat-tools
 
Title Kontaminant 2 
Description Kontaminant is a kmer-based screening and filtering tool for next-gen sequencing reads. 
Type Of Technology Software 
Year Produced 2015 
Open Source License? Yes  
Impact Has been used by research groups around the world. Publication of a paper is still pending. 
URL http://documentation.tgac.ac.uk/display/KON
 
Title MISO: An open-source LIMS for NGS sequencing centres 
Description MISO (Managing Information for Sequencing Operations) is an open-source Lab Information Management System (LIMS) started at the Earlham Institute, specifically designed for tracking next-generation sequencing experiments. Sequencing centres differ not only in terms of their scale and output, but also their requirements for information management. Sequencing platforms are becoming more accessible, and the efficient storage of genomic metadata is vital for large and small sequencing centres alike. Off-the-shelf solutions are often very expensive and not cost-effective for the smaller centre. Furthermore, support contracts are often required, and the extensibility of these systems is not in the hands of the metadata generators. In terms of implementation, as well as the desire to tailor an information system in-house, data formats can change and platforms can evolve rapidly. These are valid concerns for both large centres characterised by high-throughout data production and smaller scale laboratories with constrained expenditure for IT solutions, and potentially project specific metadata requirements. Hence, we are developing MISO, an open-source LIMS for recording sequencing metadata. We are using freely available tools that are industry standard, well documented, and easy to set up on minimal hardware. As a bare system, MISO can store relevant metadata based on a wide array of NGS sequencing platforms (e.g. Illumina GA, HiSeq and MiSeq, Roche 454, ABI SOLiD and PacBio RS) and public repository data submission schemas (e.g. the Sequence Read Archive at the EBI), and has many features common to bespoke and proprietary LIMS, such as secure authentication, fine-grained access control, barcode tracking, and reporting. 
Type Of Technology Webtool/Application 
Year Produced 2018 
Open Source License? Yes  
Impact A number of new MISO releases have been made available this year, the latest being 0.2.109. The project has seen over 140 releases in its 7 year existence, and the project is 100% open source, allowing sequencing centres to have the option of a completely free solution for managing their instruments and sample tracking. 
URL https://github.com/TGAC/miso-lims/releases/tag/v0.2.109
 
Title MetaCortex 
Description MetaCortex is an assembly tool for metagenomic sequence data. We are preparing a paper for publication, but the software is available already. 
Type Of Technology Software 
Year Produced 2017 
Open Source License? Yes  
Impact A number of research groups are already using the software. 
 
Title Nextclip 
Description NextClip is a tool for comprehensive quality analysis and read preparation for Nextera long mate pair (LMP) libraries. NextClip comprises two parts. The core component is the NextClip command line tool, an efficient C program for processing mate pair FASTQ files, generating summary statistics and preparing reads for use in scaffolding. A second component, the NextClip pipeline, is designed for cases where there is a reference of partially assembly. It utilises NextClip, along with BWA, to generate a more detailed PDF report that includes analysis of library insert sizes. The tool was originally described in a publication in Bioinformatics (2014), but has since been updated, e.g. the addition of an option for deduplicating reads from any library type. 
Type Of Technology Software 
Year Produced 2014 
Open Source License? Yes  
Impact Many users around the world who are using it do improve data quality and downstream analysis. 
URL http://documentation.tgac.ac.uk/display/NCLP
 
Title SKM-tools 
Description These are a series of tools to compare skip-mers (cyclic spaced-seeds) spectra between different datasets. It can be used to study conservation of sequence across evelotuonary distant organisms. 
Type Of Technology Software 
Year Produced 2017 
Open Source License? Yes  
Impact We are using skm-tools to study conservation in the context of EI's CSP and BBSRC's DFW projects. 
URL https://github.com/bioinfologics/skm-tools
 
Title The Grassroots Infrastructure 
Description The Grassroots software is an open source "as-a-Service" stack that powers a number of data dissemination and analysis activities at EI, and other sites such as CerealsDB at the University of Bristol. We have continued to develop the functionality within the software stack to share crop-related datasets. 
Type Of Technology Webtool/Application 
Year Produced 2018 
Open Source License? Yes  
Impact Grassroots has previously been used to host the Field Pathogenomics project website and Yellow Rust map, the EI wheat BLAST service, the CerealsDB federation project, and the multi-scale improvements to the Polymarker marker design software. Recently, Grassroots has been put forward as the main data repository and metadata catalogue for the Designing Future Wheat project, and has started to host data from this project, the Open Wild Wheat Consortium, and 5 new wheat genomes from EI. The Grassroots service runs within the CyVerse UK National Capability infrastructure. 
URL https://grassroots.tools/
 
Title aequatus.js 
Description Aequatus.js is an open-source JavaScript library to visualise homologous gene structures among differing species or subtypes of a common species. It is developed as part of Aequatus project. 
Type Of Technology Webtool/Application 
Year Produced 2017 
Open Source License? Yes  
Impact This development of Aequatus.js allows its implementation to any web based tools without relying on full Aequatus software. One of example is implementation within Galaxy Server at EI. 
URL https://github.com/TGAC/aequatus.js
 
Title w2rap 
Description w2rap is a genome assembly pipeline for complex genomes from short reads. 
Type Of Technology Software 
Year Produced 2017 
Open Source License? Yes  
Impact W2rap has enabled wheat genomics to jump into a new era of high-quality genomes from short reads. While there are some alternative tools from private companies, w2rap remains the standard for quality reconstruction across the genome. W2rap has already been used to assemble 5 wheat genomes in the public domain, putting the UK at the forefront of wheat genomics. With tens of genomes being assembled now, new modules veing developed for new data types, and 5 wheat lines assembled in a £1M private project, w2rap is one of the flagship projects for Earlham Institute. 
URL https://github.com/bioinfologics/w2rap/
 
Description Evolutionary History and Domestication of the Ferret (Mustela putorius furo). Genome Science 2016 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The domestic ferret (Mustela putorius furo) models biological processes that are highly relevant to human disease and health research such as influenza, cystic fibrosis and asthma. The recently completed draft of the ferret genome and associated annotation project (Peng et al 2014) allows us to extend research and examine the domestication of the ferret. Most domestic animals were domesticated ~10,000 years ago, but the history of the ferret's domestication is uncertain. It is likely that ferrets have been domesticated for at least 2,000 years, a similar time to the domestication of the rabbit, of which the ferret was domesticated to hunt. We have sequenced the genomes of a further eight domestic ferrets along with 12 European Polecats (M. putorius), 2 Steppe Polecats (M. eversmanii) and 4 Black-footed Ferrets (M. nigripes). In order to examine the genetics underpinning ferret domestication and compare the genomes of domestic and wild ancestor, we first need to identify the ancestral species of the domestic ferret, the identification of which is not fully resolved.
Year(s) Of Engagement Activity 2016
 
Description Our science strategy. 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Video and web page to promote EI's research, - SOCIAL MEDIA 62 Impressions 83,500
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/science-strategy
 
Description 10 ways to ensure you write a good PhD thesis 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Article on - A look at the crux of your three or four years of study: the dreaded thesis and viva voce that will seal your doctorhood. SOCIAL MEDIA Engagement 290 Impressions 116,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/10-ways-ensure-you-write-good-phd-thesis
 
Description 3D Printing in Genomics 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Insight into 3D printing in Genomics with Neil Pearson, SOCIAL MEDIA Engagements 188 Impressions 596,000
Year(s) Of Engagement Activity 2016
URL http://blog.tgac.ac.uk/3d-printing-in-genomics/
 
Description A new breakthrough on ash dieback 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact UK scientists have identified the country's first ash tree that shows tolerance to ash dieback, raising the possibility of using selective breeding to develop strains of trees that are tolerant to the disease. SOCIAL MEDIA Engagement 75 Impressions 98,100
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/new-breakthrough-ash-dieback
 
Description Ada Lovelace Day 
Form Of Engagement Activity A magazine, newsletter or online publication
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Professional Practitioners
Results and Impact We put on lots of different activities to celebrate Ada Lovelace Day, including written pieces for the website, a cryptic crossword of women in science, as well as bake sales and more. The event was publicised across campus, even attracting members of the public to come to the research park on the day in question.
Year(s) Of Engagement Activity 2015
 
Description Ada Lovelace Day: inspirational and influential women in science 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Video of EI female researchers highlighting the influential women in science to celebrate Ada Lovelace day - SOCIAL MEDA Engagement 101 Impressions 90800 VIEWS YOUTUBE 1767
Year(s) Of Engagement Activity 2016
URL https://vimeo.com/186384622
 
Description Agriculture for Food Security (AgriFose) STAKEHOLDERS WORKSHOP ON TILAPIA AQUACULTURE IN TANZANIA 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Workshop to look at: Genetic improvement in aquaculture and its impact around the world by WorldFish; Aquaculture development in Africa: the case of Malawi by WorldFish (Malawi); Tilapia and its endemism in Africa: challenges and opportunities; Experiences of small scale fish farmers in Tanzania: case studies by TAFIRI; Aquaculture Policy in Tanzania by Director of Aquaculture Tanzania; Aquaculture research and technology transfer; Potential species/strains for breeding program in Tanzania; Aquaculture entrepreneur-researcher interaction in Tanzania: challenges and opportunities by SUA; The status of aquaculture breeding programs in Africa and lessons from Malaysia by UDSM; Tilapia aquaculture development strategy in Tanzania and possible collaborations (Remarks on way forward from TAFIRI, UDSM, SUA, Bangor, Earlham, SLU, WorldFish, Aquaculture Department -MALF)
Year(s) Of Engagement Activity 2016
 
Description Aphids - the versatile agricultural nuisance 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact At EI, we research pests such as aphids, to better inform us of the versatile evolutionary strategies that help them ravage our crops, and how we can combat their game plan.

I became fascinated with aphids when, after bringing a chive plant in from the cold, a ravenous horde descended upon our carnivorous sundew plant. SOCIAL MEDIA 118 Impressions 186135
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/aphids-versatile-agricultural-nuisance
 
Description Aquaculture and tilapia: a fish that may tip the balance 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Overfishing has been rife for decades and our seas and oceans have become vastly depleted in fish reserves. Despite this, over 70% of the world's population lives on the coast, relying on fish as a major protein source. It is time to look inland, towards freshwater aquaculture. SOCIAL MEDIA Engagement 62 Impressions 91764
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/articles/aquaculture-and-tilapia-fish-may-tip-balance
 
Description Article - -Anglo-Saxon-British human ancestry starts in East Anglia 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Where did we come from? Archaeologists and scientists look to the East of England for answers on the origins of our DNA. SOCIAL MEDIA 98 Impressions 70,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/anglo-saxon-british-human-ancestry-starts-east-anglia
 
Description Article - A conservation success story: the European Polecat 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Article to highlight the research on EUropean polecat - Unseen in areas for more than a hundred years, the European Polecat (Mustela putorius) has recolonised over extensive parts of the UK. Recently hitting the news headlines, the native British species of the mustelid family is back. SOCIAL MEDIA Engagement 54 Impressions 57,200
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/conservation-success-story-european-polecat
 
Description Article - Biohacking and the Power of Youth - WIRED2015 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Schools
Results and Impact In November 2015, TGAC teamed up with Thought for Food in order to put on a workshop for WIRED2015: Next Generation on the subject of biohacking, and how we might use it to feed nine billion mouths by 2050.

Over two workshops, attended by young people aged 12-18 (along with some parents), participants were given an introduction to the potential of modern genome sequencing and how we can use the wealth of information gleaned from it in order to better understand, and improve our food.

The attendees were enthused and inspired about the topic of food security and how modern techniques mean that DNA sequencing can be performed cheaper and faster than ever before. SOCIAL MEDIA Engagement 169 Impressions 86600
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/biohacking-and-power-youth-%E2%80%93-wired2015
 
Description Article - First brassica data training at EI 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact We hold the first training session on making the most of the Brassica Information Portal (BIP) developed by the Jurkowski Group and collaborators. SOCIAL MEDIA Engagement 80 Impressions 111,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/first-brassica-data-training-ei
 
Description Article - Impact story - Keeping living things healthy 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Article to promote our broad research interests - Our diverse projects covering the breadth of life on earth are helping us to improve human, animal and plant health, while aiding in researching healthier living systems. SOCIAL MEDIA Engagement 13 Impressions 21,600
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/impact-story-keeping-living-things-healthy
 
Description Article - Precision engineering: Genomics 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Web article - At EI, we recently heard from Dr Anthony West - automation specialist in our Platforms & Pipelines group - who filled us in on the power and technical difficulties of a new approach to biotechnology: Synthetic Biology. SOCIAL MEDIA - Engagement 75 Impressions 84,400
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/precision-engineering-genomics
 
Description Article - Precision genome annotation: Portcullis and Mikado 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Article - Two such tools developed at Earlham Institute in the Swarbreck Group have paved the way to drastically enhance how we can do this: Portcullis, developed by Daniel Mapleson, and Mikado, developed by Luca Venturini, have recently been released to the public, and are available for any scientist who wants to accurately identify important regions within genomes. SOCIAL MEDIA Engagement 95 Impressions 100,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/precision-genome-annotation-portcullis-and-mikado
 
Description Article - Stronger together: building scientific communities 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Aiming to reach new heights with its bioinformatics tools for signalling networks and large-scale integrated analysis, SignaLink and NavigOmix, the Korcsmaros Group has a new addition. Aidan Budd tells us how he got into building successful scientific communities and his new role at EI - with caffeine proven as a key contributor! SOCIAL MEDIA Engagement 135 Impressions 140,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/stronger-together-building-scientific-communities
 
Description Article - The Circus of life: a tale of two Harriers 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Highlighting the research and studies of the Hen Harriers - We speak to our conservation genomics expert Dr Graham Etherington on how the Hen Harrier is actually two species rather than one - correct classification will help save these endangered birds of prey.. SOCIAL MEDIA Engagement 29 Impressions 46,800
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/circus-life-tale-two-harriers
 
Description Article/Video - Ada Lovelace Day: inspirational and influential women in science 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact To celebrate Ada Lovelace Day, we asked staff on Norwich Research Park to tell us of their inspirational role models in STEM, and how they inspired them to pursue a science career. A video and written article was produced. SOCIAL MEDIA Engagement 101 Impressions 90,800.
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/ada-lovelace-day-inspirational-and-influential-women-science
 
Description Autophagy - A review of techniques 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact The third edition of "Guidelines for the use and interpretation of assays for monitoring autophagy" was recently published in the leading journal Autophagy, featuring the Earlham Institute's (EI) Autophagy Regulatory Network resource and co-authored by Dr Tamas Korcsmaros, Computational Biology Fellow at EI and Institute of Food Research (IFR).
Year(s) Of Engagement Activity 2012,2016
URL http://www.earlham.ac.uk/newsroom/autophagy-review-techniques
 
Description BRIDGE workshop, Bogota, March 2017 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Over 40 delegates from Colombia and the UK attended the EI led workshop. Attendees discussed ideas and plans for research involving the management, conservation, and use of Colombian natural resources. The workshop led to the development of the BRIDGE Colombia network of researchers and raised the international profile of EI, particularly in Latin America.
Year(s) Of Engagement Activity 2017
 
Description BROADCAST: Aphids - the versatile agricultural nuisance 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact BBC Radio 4, Farming Today
Year(s) Of Engagement Activity 2017
 
Description BROADCAST: Addressing the Big Data skills gap - the Centre for Advanced Knowledge Engineering in Downham Market 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact YouTube - HPC
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Ash dieback: Insect threat to fungus-resistant trees 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact BBC Radio Shropshire, Eric Smith and Clare Ashford
Year(s) Of Engagement Activity 2017
 
Description BROADCAST: Ash dieback: Insect threat to fungus-resistant trees 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Ash dieback: Insect threat to fungus-resistant trees
Year(s) Of Engagement Activity 2017
 
Description BROADCAST: Ash trees have "fighting chance" against deadly disease 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact ITV Anglia
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: At TGAC, PacBio's Long Reads Are Key for Complex Genomics Studies 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Daily Motion - PacBio
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: Big data on the farm 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact BBC Radio 4 - Ji Zhou
Year(s) Of Engagement Activity 2017
 
Description BROADCAST: Brexit statement: Director of Earlham Institute (EI) 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Mustard TV - Post-Brexit opinion
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Brexit statement: Director of Earlham Institute (EI) 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact BBC Radio Norfolk - Post-Brexit opinion
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Disease tolerant genes renew hope for UK ash trees 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact BBC Radio 4
Year(s) Of Engagement Activity 2017
 
Description BROADCAST: Double fish production while preserving biodiversity? Can it be done? 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact BBC WS, World Update
Year(s) Of Engagement Activity 2017
 
Description BROADCAST: Drone training - Aerial Academy 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Lincolnshire FM, Farming Programme
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: EU and devolution 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact BBC Radio Norfolk, Nick Conrad.
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Earlham Institute | Bringing Science to Life 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Earlham Institute | Bringing Science to Life - Vimeo
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Expert comment on consequences of Brexit for UK science research communities 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Talk Radio
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Federica Di Palma, Genome 10K 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact BBC Look East
Year(s) Of Engagement Activity 2017
 
Description BROADCAST: GM crops ban in Scotland 'could have apocalyptic consequences' 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact BBC2 Scotland - GM Crops
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: Genomics-driven surveillance to track crop diseases 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact ITV News Anglia - New genomics-driven surveillance to track crop diseases
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: Immunity gene fusions uncovered in plants 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact ITV News Anglia, 18:10, ITV1 Anglia East (Ipswich/Norwich)
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Immunity gene fusions uncovered in plants 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Good Morning Britain, 7:08
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Immunity gene fusions uncovered in plants 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Good Morning Britain, 6:08
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Immunity gene fusions uncovered in plants 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Good Morning Britain, 8:08
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Immunity gene fusions uncovered in plants 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact ITV Lunchtime News, 13:57, ITV1 Anglia East (Ipswich/Norwich)
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Insect Tapas 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact Future Radio - Outreach
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: Mini DNA sequencer tests true 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact BBC 1, Look East (Ipswich/Norwich) - MinION
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: NCC Employability: Apprenticeships 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Norfolk County Council - YouTube - Outreach
Year(s) Of Engagement Activity 2014
 
Description BROADCAST: NCC Employability: How to create a CV 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Norfolk County Council - YouTube - outreach
Year(s) Of Engagement Activity 2014
 
Description BROADCAST: NCC Employability: Science 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Norfolk County Council - YouTube - Outreach
Year(s) Of Engagement Activity 2014
 
Description BROADCAST: Norwich strengthens reputation as 'world leader' in science 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Mustard TV
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Peculiar complexity of wheat 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact Future Radio - Wheat
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: REAP conference 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Industry/Business
Results and Impact Cambridge TV - Reap, Ji Zhou.
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: REAP conference 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Industry/Business
Results and Impact Cambridge TV - Reap, Ji Zhou.
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: Scientists aim to stop yellow rust 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Heart Norwich, Noel Vine
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Spotted gar genome links humans to vertebrate ancestry 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Matthew Gudgin, 17:50, BBC Radio Norfolk
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Study Highlights New Threat to Bees Worldwide 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact BBC Radio Norfolk, Matthew Gudgin
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: Study Highlights New Threat to Bees Worldwide 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Study Highlights New Threat to Bees Worldwide
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: TGAC Understanding Life on Earth 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Lab Tube.tv - Intel HPC project
Year(s) Of Engagement Activity 2014
 
Description BROADCAST: TGAC releases new genetic data to combat ash dieback epidemic 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact TGAC releases new genetic data to combat ash dieback epidemic - ITV East Anglia
Year(s) Of Engagement Activity 2014
 
Description BROADCAST: TGAC releases new genetic data to combat ash dieback epidemic 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact BBC 1 East (Ipswich/Norwich)
Year(s) Of Engagement Activity 2014
 
Description BROADCAST: TGAC releases new genetic data to combat ash dieback epidemic 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact TGAC releases new genetic data to combat ash dieback epidemic - BBC 1 East (Beds & Luton)
Year(s) Of Engagement Activity 2014
 
Description BROADCAST: TGAC: Understanding Life on Earth 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Connected social media - Intel HPC project
Year(s) Of Engagement Activity 2014
 
Description BROADCAST: The DNA decoder: How Europe's 'biggest supercomputer' helps Norwich scientists with world-leading research 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Mustard TV
Year(s) Of Engagement Activity 2016
 
Description BROADCAST: The Genome Analysis Centre announces an important milestone in wheat research 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact 06:34, BBC Radio Norfolk - Wheat
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: The Genome Analysis Centre announces an important milestone in wheat research 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact 08:04, BBC Radio Norfolk - Wheat
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: The Genome Analysis Centre announces an important milestone in wheat research 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact BBC 1, Look East (Ipswich/Norwich) - Wheat
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: The Genome Analysis Centre announces an important milestone in wheat research 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact 07:04, BBC Radio Norfolk - Wheat
Year(s) Of Engagement Activity 2015
 
Description BROADCAST: The World - The year of CRISPR: scientists celebrate new genome tool 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact ABC News (Australia)
Year(s) Of Engagement Activity 2017
 
Description Big Bang Fair 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact We trialled a game developed for public engagement, "TGAC4kids," prior to releasing a beta test version to take on our roadshow to schools.
Year(s) Of Engagement Activity 2014
 
Description Big Data in Agri-tech Special Interest Group 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Industry/Business
Results and Impact An Agri-tech East Special Interest Group on the topic of big data, and the basic advantages and challenges of adopting and using the data effectively. Networking opportunity for the KEC team to understand issues relevant to farmers, seed companies and other Agri-tech stakeholders. Gained contacts and created a link with Agri-tech East which has resulted in co-facilitated events.
Year(s) Of Engagement Activity 2015
URL https://www.agritech-east.co.uk/category/using-big-data-in-agriculture/
 
Description Biohacking and the Power of Youth - WIRED2015 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Schools
Results and Impact In November 2015, TGAC teamed up with Thought for Food in order to put on a workshop for WIRED2015: Next Generation on the subject of biohacking, and how we might use it to feed nine billion mouths by 2050.

Over two workshops, attended by young people aged 12-18 (along with some parents), participants were given an introduction to the potential of modern genome sequencing and how we can use the wealth of information gleaned from it in order to better understand, and improve our food.

The attendees were enthused and inspired about the topic of food security and how modern techniques mean that DNA sequencing can be performed cheaper and faster than ever before. SOCIAL MEDIA Engagement 169 Impressions 86,600
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/biohacking-and-power-youth-%E2%80%93-wired2015
 
Description Brilliant brassica 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Article to highlight - With our recent release of the Brassica Information Portal (BIP) - a vital, open-source tool for crop breeders and researchers worldwide - why are brassicas so brilliant, and why is the availability of BIP so important to science, agriculture, industry and us? SOCIAL MEDIA Engagement 138 Impressions 183,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/brilliant-brassica
 
Description Can we produce a better wheat crop to feed the world? Single to multiple wheat genomics 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Entering a 'wheat pan-genomics' era from single to multiple wheat DNA references, the Earlham Institute (EI) aims to diversify one of the world's most complex genomes to improve yield quality and increase wider production of this critical food crop. SOCIAL MEDIA Engagement 238 Impressions 137768
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/newsroom/can-we-produce-better-wheat-crop-feed-world-single-multiple-wheat-...
 
Description Cataloging genetic diversity in the Black-footed Ferret Black-footed Ferret Genetics Symposium, Fort Collins, Colorado, USA. 19-20 Jan 15. 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Presentation of EI's work on Black-footed Ferret.
Year(s) Of Engagement Activity 2015
 
Description Cheap and robust genomes using the PDABS pipeline Advances in Genome Biology and Technology 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Advances in next-generation sequencing (NGS) technologies and the subsequent reduction in cost have enabled the research community to sequence the genomes of many non-model organisms. Genome assemblies using next generation technologies such as Illumina show high quality nucleotide level information, but are fragmented due to the inability to retain contiguity. The absence of low-cost methods for creating high quality genome sequences from a wide range of organisms currently hampers the generation of de novo genomes for comparative genomic studies, and new methodologies and data types need to be tested to achieve this goal. We have integrated NGS with nano-channel genome mapping and developed the PCR-free Discovar Assembly BioNano Scaffolding (PDABS) pipeline to assemble cheap, contiguous and robust genomes.
Year(s) Of Engagement Activity 2016
 
Description Children of TGAC 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact A chance for staff to show their children the research that we do, as a preamble to our "TGAC4kids" roadshow to schools. We managed to trial a lot of different activities and games before running our outreach programme throughout Norwich.
Year(s) Of Engagement Activity 2014
 
Description Code for crops: Training Vietnamese Rice Breeders at EI 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact ROund up of visit to EI by researchers working on rice in Vietnam. At EI, six breeders from Hanoi learned the basics of bioinformatics, which will help them breed drought and salt resistant rice in Vietnam. Here's their story. After the success of our first trip to Vietnam to introduce 'big data' analysis to the rice breeders of the Agricultural Genetics Institute (AGI), three months on we have been delighted to host six of our collaborators and friends from Hanoi in order to teach them how to code and apply bioinformatics to their work on rice breeding (and give them a taster of an English pub lunch). SOCIAL MEDIA Engagement 56 Impressions 57,700
Year(s) Of Engagement Activity 2016
URL http://earlham.ac.uk/code-crops-training-vietnamese-rice-breeders-ei
 
Description College visits to EI 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Over the course of the summer we hosted various colleges in order to give students an insight into what goes on in a bioinfomatics and next generation sequencing pipeline, and how this relates to applied science. Many of the students had agricultural backgrounds, therefore this fostered a good discussion on how our research is applicable beyond the research park. We also did a "Three Horizons" based activity, during which we outlined routes to a better understanding of problems and how to solve them.
Year(s) Of Engagement Activity 2016
 
Description Conference Oral Presentation - Biology of Genomes, CSHL, USA 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Oral presentation at the esteemed Biology of Genomes conference on Evolution of tissue-specific regulatory programs in cichlids; several questions and discussion was sparked after the presentation. Dissemination of research results enabled for wider discussion of reearch impact, future direction/studies and collaboration.
Year(s) Of Engagement Activity 2017
 
Description Conference Oral Presentation - SMBE, Australia 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Oral presentation at the esteemed SMBE conference on Evolution of tissue-specific regulatory programs in cichlids; several questions and discussion was sparked after the presentation. Dissemination of research results enabled for wider discussion of reearch impact, future direction/studies and collaboration.
Year(s) Of Engagement Activity 2016
 
Description Conference Poster - Aquaculture Europe 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Poster on Evolution of tissue-specific modular regulatory networks in tilapia and East African cichlids - enabled engagement with fellow researchers in aquaculture as well as advancement of associated technologies.
Year(s) Of Engagement Activity 2016
 
Description Conference Poster - Biology of Genomes, CSHL, USA 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Poster on Evolution of tissue-specific regulatory programs in cichlids - dissemination of reasearch results enabled for wider discussion of reearch impact, future direction/studies and collaboration.
Year(s) Of Engagement Activity 2015
 
Description Conference Poster - Cichlid Science 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Conference poster on Evolution of tissue-specific regulatory programs in cichlids - conference attendees solely worked on the cichlid model systems and as such, we forged further collaborative research activities based on our integrative scientific approaches.
Year(s) Of Engagement Activity 2017
URL http://web.natur.cuni.cz/zoologie/CichlidScience2017/
 
Description Conference Poster - Genome 10K and Genome Science 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Conference poster on Evolution of tissue-specific regulatory programs in cichlids - this research will soon lead to a publication and as such, we had a wide interest from relevant publishers
Year(s) Of Engagement Activity 2017
 
Description Conference Poster - Genome Science 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Postgraduate students
Results and Impact Poster on Evolution of tissue-specific regulatory programs in cichlids - dissemination of reasearch results enabled for wider discussion of reearch impact, future studies and collaboration.
Year(s) Of Engagement Activity 2016
 
Description Conference Poster Presentation: Discovery and visualisation of homologous genes and gene families using Galaxy 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The poster presented at the International Plant and Animal Genomes Conference (San Diego, USA) conference was selected on abstract submission. The poster was presented in front of industry participants, donors, university professors and lecturers, postdoctoral researchers, graduates and undergraduates students. The poster presentation helped raising the international profile of Anil Thanki, Nicola Soranzo, Wilfried Haerty, Robert Davey and of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description Critical genes unravelled to understand human diseases and support drug discovery 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Lead author Tamas Korcsmaros, Fellow at EI and the Institute of Food Research, said: "Our cells must be able to detect and respond to many different pieces of genetic information coming from both internal and external sources. However, not all proteins in the cell are equally important. SOCIAL MEDIA Engagements 121 Impressions 112,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/new-study-unravels-critical-genes-understand-human-diseases-and-support-dru...
 
Description DNA Foundry propels Earlham Institute into precision genomics 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact The Earlham Institute (EI) builds upon their National Capability in Genomics by adding a state-of-the-art DNA Foundry for Synthetic Biology to their world-leading advanced suite of sequencing technologies. SOCIAL MEDIA Engagement 115 Impressions 77,900
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/dna-foundry-propels-earlham-institute-precision-genomics
 
Description Data, Data, Data Everywhere (Pint of Science talk, Norwich) 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Dr Davey delivered a talk as part of the Norwich 2017 Pint of Science series about the challenges and solutions for modern data management in the life sciences, including recent data developments, high-performance computing, and software tools.
Year(s) Of Engagement Activity 2017
URL https://pintofscience.co.uk/event/crops-crystals-and-computers-technology-for-food-security
 
Description Discover Earlham Institute at New Scientist Live 2016 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Web page to promote our presence at the New Scientist Live event - SOCIAL MEDIA Engagement 209 Impressions 196,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/discover-earlham-institute-new-scientist-live-2016
 
Description Disease tolerant genes renew hope for UK ash trees 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Researchers have identified genetic markers for disease tolerance that suggest UK ash trees may have a fighting chance against a fungal infection that has the potential to wipe out 90% of the European ash tree population. SOCIAL MEDIA Engagement 100 Impressions 114334
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/newsroom/disease-tolerant-genes-renew-hope-uk-ash-trees
 
Description Double fish production while preserving biodiversity - can it be done? 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact New resolution to establish National Aquaculture Development Centre (NADC) in Tanzania could help tackle poverty and undernutrition. SOCIAL MEDIA Engagement 94 Impressions 183476
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/newsroom/double-fish-production-while-preserving-biodiversity-%E2%80%93-can...
 
Description EI embraces green-HPC for collaborative genome analysis at Icelandic data centre Verne Global 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Press release to promote new HPC at EI - The Earlham Institute (EI) has announced its new partnership with Verne Global, a global-based developer at the forefront of data centre infrastructure design. SOCIAL MEDIA Engagement 47 Impressions 30,700
Year(s) Of Engagement Activity 2016
URL http://earlham.ac.uk/ei-embraces-green-hpc-collaborative-genome-analysis-icelandic-data-centre-verne...
 
Description EI installs largest SGI UV 300 supercomputer for life sciences worldwide 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact The Earlham Institute (EI) partners with Global HPC hardware giant SGI to address the most complex problems in genomics analysis. SOCIAL MEDIA Engagement 156 Impressions 223,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/ei-installs-largest-sgi-uv-300-supercomputer-life-sciences-worldwi...
 
Description Earlham Institute - Decoding Living Systems for a better world 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact The Genome Analysis Centre (TGAC) will be changing its name to the "Earlham Institute" on 27 June 2016.SOCIAL MEDIA Engagement 251 Impressions 175000
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/newsroom/earlham-institute-%E2%80%93-decoding-living-systems-better-world
 
Description Earlham Institute launches first CyVerse-UK hub for 'big data' analysis 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Press release - We establish the first UK dedicated high-performance computing (HPC) cluster for international data portal 'CyVerse' - providing free, open-source genome analysis for big data research. SOCIAL MEDIA Engagement 360 Impressions 325,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/earlham-institute-launches-first-cyverse-uk-hub-%E2%80%98big-data%...
 
Description Earlham Institute receives Athena SWAN Bronze Award for gender equality 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Press release to promote EI being awarded bronze Athena Swan - Established in 2005, Athena SWAN recognises and encourages the careers of women in science, technology, mathematics and medicine (STEMM) employment in higher education and research. The Earlham Institute's (EI) first submission to the prestigious Athena SWAN Charter, owned and managed by the Equality Challenge Unit, has received the Bronze Award. SOCIAL MEDIA 184 Impressions 88,800
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/earlham-institute-awarded-athena-swan-bronze-award-gender-equality
 
Description Earlham Institute receives supercomputing award for wheat research 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact The Earlham Institute (EI) has been recognised in the annual HPCwire Readers' and Editors' Choice Awards for their high-performance computing bread wheat genome project, presented at the leading supercomputing event SC16 in Salt Lake City, Utah.
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/earlham-institute-receives-2016-hpcwire-readers-and-editors-choice-award
 
Description Embracing innovation through technology. 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Article to highlight EI's research impact - With our cutting-edge technological capacity encompassing genome sequencing and analysis, the work we do is underpinned by open data, open publication and open-source software, which keeps us at the forefront of genomics research. SOCIAL MEDIA 39 Impressions 52,600
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/impact-story-embracing-innovation-through-technology
 
Description European Research Council awards €1.5M to arm cereals against pathogens and diseases 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Dr Ksenia Krasileva, Group Leader at the Earlham Institute (EI) and The Sainsbury Laboratory (TSL) has been awarded a €1.5M European Research Council Starting Grant to investigate the immune system of our most important crops. SOCIAL MEDIA Engagement 70 Impressions 24,000
Year(s) Of Engagement Activity 2016
URL http://earlham.ac.uk/european-research-council-awards-%E2%82%AC15m-arm-cereals-against-pathogens-and...
 
Description Event - web article Discover Earlham Institute at New Scientist Live 2016 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact New Scientist Live is a festival of ideas and discovery, taking place at ExCeL London. Rooted in the biggest, best and most provocative science, New Scientist Live will touch on all areas of human life. The show will feature four immersive zones covering Brain & Body, Technology, Earth and Cosmos. For four days this September, New Scientist Live will be like no other place on earth.

Earlham Institute will be present in the technology section, showcasing what goes on behind the scenes in delivering the latest advances in bioscience - from massive supercomputing power to next-generation genome sequencing hardware. SOCIAL MEDIA Engagement 196,000 Impressions 209
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/discover-earlham-institute-new-scientist-live-2016
 
Description Everyone needs a bigger network 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Postgraduate students
Results and Impact A training / workshop on efficient networking for scientists of all levels (from PhD students to post-docs and project leaders) from across the Norwich Research Park. The workshop included a "theory" part that concentrated on why and how to network; an experience sharing part where a few speakers talked about their experiences of engaging in networking / building relationships and how this has benefited them followed by interactive networking session between the participants, speakers and hosts. Attended by 26 delegates, 100% of delegates rated the course as very good or excellent.
The session included:
? Value of engaging with industry and wider public - Katia Brumpton (TGAC)
? Efficient networking - strategy, preparation, etiquette, follow up - Lucy Marks (Norfolk Network)
? Experience Sharing / Invited Speakers - showcasing of success (or horror) stories from networking and engagement with industry -(invited speakers)
? Q&A session -
? Interactive Session - building networking skills and feedback - delivered by Lucy Marks (NN), Stuart Catchpole (TGAC), Katia Brumpton (TGAC) and with invited speakers
? informal session (communications games and further networking)
Year(s) Of Engagement Activity 2016
 
Description Fascination of plants day 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact A national day to celebrate plants, we helped to run an event along with JIC to encourage young people into learning more about plants.
Year(s) Of Engagement Activity 2015
 
Description Fighting the pathogen threat (British Science week - Neil Hall) 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Fighting the pathogen threat (British Science week - Neil Hall) SOCIAL MEDIA Engagement 34 Impressions 48300 VIEWS 1470
Year(s) Of Engagement Activity 2017
URL https://www.youtube.com/watch?v=xie9KIKG4XU
 
Description Finding new cancer drugs in the neighbourhood 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Press release - Computational biologists have looked at the complex networks of interacting proteins that drive cancer formation, and found that targeting the neighbours of cancer-causing proteins may be just as effective as focusing on the cancer proteins themselves. SOCIAL MEDIA Engagement 93 Impressions 95170
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/newsroom/finding-new-cancer-drugs-neighbourhood
 
Description Five reasons why computing isn't as scary as you think 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Article to promoteThinking of learning a second language? Coding might be your best bet. The world of computing, rather than being dull and overly-complicated, is like learning how to compose a beautiful symphony but instead of writing notes, you write code.SOCIAL MEDIA Engagement 212 Impressions 105,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/five-reasons-why-computing-isn%E2%80%99t-scary-you-think
 
Description Forming a second line of plant defence - capturing disease-resistant DNA 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Scientists have developed a new improved method for capturing longer DNA fragments, doubling the size up to 7000 DNA bases that can be analysed for novel genes which provide plants with immunity to disease. SOCIAL MEDIA Engagement 140 Impressions 90,400
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/forming-second-line-plant-defence-capturing-disease-resistant-dna
 
Description Friends of John Innes (FoJIC) Presentation 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Several of our scientists gave an in depth insight into how big data and genomics can be integrated with biological sciences in order to answer a swathe of important questions in the life sciences.
Year(s) Of Engagement Activity 2014
 
Description From funding to the future 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact The Institute Development Scheme (IDS), set up in late 2015, aimed to support research at EI in several ways: through promoting creative, innovative and novel research, fostering the development of interdisciplinary teams and increasing collaboration both among academics and with industry.

We report here on several important projects, which highlight the range of applications of our next-generation sequencing and bioinformatics capabilities. SOCIAL MEDIA Engagement 95 Impressions 79291
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/articles/funding-future
 
Description Genetic Diversity of the Mustelidae: Implications for understanding Evolution, Domestication and Conservation. Genome 10K 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The ferret (Mustela putorius furo) models biological processes that are highly relevant to human disease and health research such as influenza, cystic fibrosis (CF) and asthma. Since CF is a multi-organ disorder, research using CF ferrets span a range of organs, thus the impact of research in this model is broad and allows for the analysis of early stages of the diseases.

The recently completed draft of the ferret genome has allowed us to look more closely into ferret domestication and examine the underpinning processes of domestication from the ancestral European Polecat (M. putorius). We have sequenced eight domestic ferrets genomes and will sequence samples from European Polecat. Beneficial genetic variants increase in frequency due to positive selection together with linked neutral variants resulting in genomic islands of reduced heterozygosity between populations. By examining fixation indexes and heterozygosity between wild and domestic ferrets we can find genomic regions that have undergone selective sweeps.

Using whole genome sequencing also allows us to leverage the ferret genome sequence to look into the genetic diversity and evolution of other species of wild Mustelidae. The current population of the endangered Black-footed Ferret (M. nigripes) from North America stems from only seven individuals. Using whole genome sequencing of Black-footed Ferrets from both before and after the population crash we will identify genetic diversity not present in the current population with a view to reintroducing it via genome editing technology.

About two million years ago, the ancestral species of modern day Steppe Polecats (M. eversmanni) from Asia entered North America via the Bering Land Bridge and speciated into what is now Black-footed Ferret. Using a reference-free unbiased kmer approach, we will examine how closely-related Steppe Polecat is to both Black-footed Ferret and its sister species the European Polecat.
Year(s) Of Engagement Activity 2015
 
Description Genome 10K - vertebrate 'genomic zoo' to help protect our planet 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Press release to promote the Genome 10K conference to be held at EI 2017.The Genome 10K initiative, led by the University of California, Santa Cruz Genomics Institute, aims to understand how complex animal life evolved through changes in DNA and use this knowledge to become better stewards of the planet. SOCIAL MEDIA Engagement 169 Impressions 171,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/genome-10k-vertebrate-%E2%80%98genomic-zoo%E2%80%99-help-protect-o...
 
Description Genome sequence of a polar alga explains adaptation to extreme climates 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact An international team of researchers has identified the genetic mutations which allowed microalgae (phytoplankton) from the Southern Ocean to adapt to extreme and highly variable climates - a step towards understanding how polar organisms are impacted by climate change. SOCIAL MEDIA Engagement 95 Impressions 122000
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/genome-sequence-polar-alga-explains-adaptation-extreme-climates
 
Description Genomic characterisation of wild tilapia populations 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The presentation took place as part of a workshop organised in Bogota (Colombia) between UK and Colombia scientific Institutions. The audience was composed of UK and Colombia university lecturers, Colombian industry partners. The presentation helped raising the international profile of Wilfried Haerty, Federica Di Palma and of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description Genomics Workshop to Position Genome Campus as a case study of excellence in the East of England Life Sciences Audit 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact I was invited to participate in the workshop to position the Genome Campus, Cambridge, as a case study of excellence in the East of England Life Sciences Audit. Outputs included to describe how the campus drives collaboration and innovation in this area; highlight existing projects, opportunities, things we need to keep being world-class, what are strengths and weaknesses, how Govt can help.
Year(s) Of Engagement Activity 2017
 
Description Germinal project workshop 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Industry/Business
Results and Impact Germinal is part of a project in the UK called 'New Zoo' linking zoos to universities. The project between Banham Zoo
and the UEA will be a Science Discovery Centre for Education themed around 'environmental responsibility' and a
Knowledge Exchange HUB for Research located at Banham Zoo.The aim of the project is to build on existing work with Banham Zoo to establish a strategic relationship that will enable UEA science to be developed in collaboration with the zoo, and to use the zoo to promote the research of UEA
and the wider Norwich Research Park to the 250,000 people who visit the attraction each year. It will also promote regional economic growth as it has the potential to increase visitor numbers to Banham Zoo and the wider region. The focus of the workshop was around how Banham could showcase research to the public within the envisaged facility. They also ran an innovative think-tank to consider interactivity with the science across the NRP.
Year(s) Of Engagement Activity 2014
 
Description Give your time to inspire a young person 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Our staff gave specific career talks to young people and answered their questions, showing how diverse careers in the sciences can be; not just working in a lab, but in purchasing, comms and more.
Year(s) Of Engagement Activity 2016
 
Description Global food security 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Article to promote our work on global food security - Our wide-ranging research into animal, plant and microbial genomics helps us improve breeding, withstand disease and enhance yields for future generations. SOCIAL MEDIA Engagement 74 Impressions 51,800
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/impact-story-global-food-security
 
Description Grassroots Infrastructure and the Wheat Information System (RDA Interest Group on Agricultural Data (IGAD), Barcelona) 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Dr Davey delivered a talk about the Grassroots software infrastructure for the dissemination of wheat data through federation and integration of storage and compute e-infrastructure.
Year(s) Of Engagement Activity 2017
URL https://www.rd-alliance.org/rda-interest-group-agricultural-data-igad-pre-plenary-meeting-3-4-april-...
 
Description Great Auk meeting at the International Centre for Life, Newcastle, UK 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact Purpose of the meeting: To discuss what steps are necessary to prepare for possible future revival of great auks including:
1. The preparation of a suitably high quality great auk genome sequence,
2. The necessity for an annotated sequence/structural information,
3. Comparisons with razorbill genome,
4. Genome editing techniques,
5. Germ cell transfer techniques,
6. (Much later) great auk release into the wild,
7. Ethical and ecological considerations.

Proposed structure of the project: In order to maintain this project's independence, and because it is probably too speculative and risky for public funding, it is the intention that the project will be carried forward initially with private funding. If, following the June meeting, we decide to go ahead, then a charitable foundation may be established to run the project.
Year(s) Of Engagement Activity 2015
 
Description Host Year in Industry Project 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Undergraduate students
Results and Impact Tarang hosted a Year in Industry student who selected his project on the 'Genetic basis of adaptation to extreme environments: insights from the genome of soda tilapia (Alcolapia grahami)'. This project offered a great opportunity for an undergraduate student, Nicole Forrester, to learn about cutting edge wet- and dry- lab techniques associated with the study of an important model system for evolution, genetic diversity and aquaculture practices. Nicole found the whole experience very insightful and thoroughly enjoyed it, as such, she selected a simialr themed project for her PhD Thesis.
Year(s) Of Engagement Activity 2016
 
Description Hosted sixth form students visit for two weeks 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact For two weeks we hosted four sixth form students with the purpose of showing some of the research that we undertake at the institute, as well as basic training in bioinformatics. This was extremely useful for the students, exposing them to a research environment of which, one was thinking of pursuing a research career in the future. We gave several talks, wet-lab and dry-lan training sessions as well as hand-on in the field sampel collection.
Year(s) Of Engagement Activity 2017
 
Description Hosting and Training of PhD students from Tanzania 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact We hosted three PhD students at Earlham Institute for up to one month - the visit helped to develop their understanding and technical ability in several key genomic areas; this includes DNA/RNA extraction protocols, library preparation protocols, sequencing technologies and subsequent bioinformatics data analysis techniques. All of this was beneficial for developing current and future aquaculture projects. Also, by undertaking a course on Population Variation Genetics hosted at Earlham Institute in May, the students felt better prepared to carry out RAD data analysis (as part of their PhD) as well as other associated techniques, like phylogenetic analysis.

Details:
Names:
Levinus Leonard
Christer Nyinondi
Redempta Kajungiro

Institutions: University of Dar Es Salaam and University of Dodoma, Tanzania

Dates:
Levinus - 27/04/2017 to 28/05/2017
Christer and Redempta - 20/05/2017 to 28/05/2017
Year(s) Of Engagement Activity 2017
 
Description How Earlham Institute influenced my career path 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Nuffield Research Programme student Sophie Kirkwood tells us what it was like to work at EI and how it has influenced her decision to embark upon a STEM career. SOCIAL MEDIA Engagement 79 Impressions 72931
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/how-earlham-institute-influenced-my-career-path
 
Description How do you know if you'll hack it in the real world? 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Blog post from Year in Industry student - Student Sam Horsfield tells us why his work placement at EI has been invaluable to his career. SOCIAL MEDIA Engagement 42 Impressions 31174
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/how-do-you-know-if-youll-hack-it-real-world
 
Description How does your work impact society? (Mark McMullan British Science Week) 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Interview with Mark McMullan - promotion to run alongside the British Science Week event - SOCIAL MEDIA 66 Impressions 65683
Year(s) Of Engagement Activity 2017
URL https://vimeo.com/208499652
 
Description I'm a Scientist, Get Me Out Of Here 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Schools
Results and Impact Several of our staff participated in the initiative, which allowed teenagers to pose questions to scientists, who were voted for in an "I'm a Celebrity" style competition. Challenged with making science more simple, our scientists had to sell their work to children. One member of staff actually won (!), which came along with a £500 grant for PE.
Year(s) Of Engagement Activity 2014
URL https://imascientist.org.uk/
 
Description ISA presentation to GARnet workshop 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact David Johnson - in my team - gave a presentation on "Data Infrastructures to Foster Data Reuse" at a workshop on Integrating Large Data into Plant Science: From Big Data to Discovery hosted by GARnet (the UK network for Arabidopsis researchers) and Egenis (the Exeter Centre for the Study of the Life Sciences). The workshop was held at Dartington Hall in Devon, South West England, and was well attended by researchers from the plant and biological science community worldwide as well as representatives from industry from organisations such as Syngenta.
Year(s) Of Engagement Activity 2016
URL http://isa-tools.org/2016/07/plant-science-takes-a-focus-on-isa/
 
Description Immunity gene fusions uncovered in plants 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Dr Ksenia Krasileva, Group Leader at the Earlham Institute (EI) and Fellow at The Sainsbury Laboratory (TSL) in collaboration with her TSL colleagues, Professor Jonathan Jones and Dr Panagiotis Sarris, have surveyed immune genes across flowering plants to uncover the molecular 'traps' that plants use to detect pathogens. SOCIAL MEDIA Engagements 218 Impressions 78,500
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/immunity-gene-fusions-uncovered-plants
 
Description Impact story - Global Impact 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Impact video to highlight EI research and global impact. VIEWS ON YOUTUBE 3433
Year(s) Of Engagement Activity 2016
URL https://www.youtube.com/watch?v=Bye-XjYGOzM
 
Description Improving the Koala genome using the PDABS pipeline AGBT 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Advances in next-generation sequencing (NGS) technologies and the subsequent reduction in cost have enabled the research community to sequence the genomes of many non-model organisms. Genome assemblies using next generation technologies such as Illumina show high quality nucleotide level information, but are fragmented due to the inability to retain contiguity. The absence of low-cost methods for creating high quality genome sequences from a wide range of organisms currently hampers the generation of de novo genomes for comparative genomic studies, and new methodologies and data types need to be tested to achieve this goal. We have integrated NGS with nano-channel genome mapping and developed the PCR-free Discovar Assembly BioNano Scaffolding (PDABS) pipeline to assemble cheap, contiguous and robust genomes.
Year(s) Of Engagement Activity 2016
 
Description Inside Science Workshop 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Schools
Results and Impact A workshop for college aged students interesting in pursuing a career in the life sciences beyond University. The event covered all aspects of life on the research park, with specific activities aimed at generating discussion around bioinformatics, including phylogenetics.
Year(s) Of Engagement Activity 2014,2015
 
Description International Conference Oral Presentation: Discovery and visualisation of homologous genes and gene families using Galaxy 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The oral presentation at the International Plant and Animal Genomes Conference (San Diego, USA) conference was selected on abstract submission. The presentation was delivered in front of industry participants, donors, university professors and lecturers, postdoctoral researchers, graduates and undergraduates students. The poster presentation helped raising the international profile of Anil Thanki, Nicola Soranzo, Wilfried Haerty, Robert Davey and of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description International Conference Poster Presentation: Evolution of tissue-specific regulatory programs in cichlids. 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The poster presented at the Cold Spring Harbour Biology of Genomes conference was selected on abstract submission. The poster was presented in front of university professors and lecturers, postdoctoral researchers, graduates and undergraduates students. The poster presentation helped raising the international profile of Tarang Metha, Luca Penso Dolfin, Tomasz Wrzesinski, Will Nash, Padhmanand Sudhakar, Wilfried Haerty, Tamas Korcsmaros, Federica Di Palma and of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description International Conference Poster: Binding sites within long non-coding RNAs discriminate between RNA- and transcription mediated mechanism. 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The poster presented at the Cold Spring Harbour Biology of Genomes conference was selected on abstract submission. The poster was presented in front of university professors and lecturers, postdoctoral researchers, graduates and undergraduates students. The poster presentation helped raising the international profile of Tomasz Wrzesinski, Wilfried Haerty and of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description International Conference poster presentation: Discovery and visualisation of homologous genes and gene families using Galaxy 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The poster presentation at the 18th The Bioinformatics Open Source Conference (BOSC), 25th Intelligent Systems for Molecular Biology (ISMB) and 16th European Conference on Computational Biology - ISMB/ECCB conference was selected on abstract submission. The poster was presented in front of industry participants, donors, university professors and lecturers, postdoctoral researchers, graduates and undergraduates students. The poster presentation helped raising the international profile of Anil Thanki, Nicola Soranzo, Wilfried Haerty, Robert Davey and of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description Into the light - the power of optical HPC 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Article to highlight the collaboration between EI and Optalysys - EI and the HPC hardware provider Optalysys joined forces to introduce the ground-breaking optical processing device GENESYS to perform large-scale DNA sequence searches for crucial genomics research powered by just a mains supply, and aims to be one of the top 50 fastest processing devices in the world by 2017. SOCIAL MEDIA Engagement 65 Impressions 47,900
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/light-power-optical-hpc
 
Description Invited seminar: Characterization of transcriptional complexity of Voltage Gated Calcium Channels in the human brain using Nanopore long read sequencing 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact Invited seminar at the Division of Evolution & Genomic Sciences, University of Manchester. The audience was composed of group leaders, University lecturers, postdoctoral researchers, graduates and undergraduates students interested in RNA biology.
Year(s) Of Engagement Activity 2018
 
Description Invited seminar: Comparative genomics of Australian marsupials: Expansion of gene families and signatures of selection following an ancient divergence 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Invited seminar at University College Dublin presented by Will Nash. The audience was composed of University professors and Lecturers, postdoctoral researchers, graduates and undergraduates students. Outcomes: Increased the international profile of Will Nash and Wilfried Haerty and increased the international profile of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description Invited seminar: Nanopore cDNA sequencing reveals transcriptional complexity of CACNA1C gene in human brain 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact Invited seminar at the MRC Institute of Genetics and Molecular Medicine. The audience consisted group leaders, University professors, University Lectures, postdoctoral researchers, graduates and undergraduates students.
Year(s) Of Engagement Activity 2017
 
Description Invited seminar: Nanopore cDNA sequencing reveals transcriptional complexity of CACNA1C gene in human brain 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Invited seminar in the satellite meeting of The Americal Society for Human Genetics organised by Oxford Nanopore. The audience of the seminar was composed of industrial professionals, group leaders, university professors and lecturers, postdoctoral researchers, graduates and undergraduate students. The seminar allowed to raise the personal profile of Wilfried Haerty and to raise the profile of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description Invited speaker International Institution: Characterization of functional long non-coding RNAs and their expression in the developing human brain 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The presentation took place as the result of an invitation to present at the ICenter for Regenerative Therapies Dresden. The audience was composed of university lecturers, graduate and undergraduate students. The presentation helped raising the international profile of Wilfried Haerty and of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description Invited speaker International Institution: Characterization of functional non coding sequences 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The presentation took place as the result of an invitation to present at the Evolution, Genomes and Speciation Laboratory, CNRS, Gif sur Yvette, France. The audience was composed of university lecturers, graduate and undergraduate students. The presentation helped raising the international profile of Wilfried Haerty and of the Earlham Institute
Year(s) Of Engagement Activity 2016
 
Description Invited speaker International Institution: Expression of lncRNAs across the human lifespan 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The presentation took place as the result of an invitation to present at the Center for Genomic Regulation, Barcelona, Spain. The audience was composed of university lecturers, graduate and undergraduate students. The presentation helped raising the international profile of Wilfried Haerty and of the Earlham Institute
Year(s) Of Engagement Activity 2016
 
Description It's not all about the money: Community investment 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Earlham Institute supports the AAAS Community Engagement Fellows Program - where budding community managers benefit from a shared knowledge base and peer support to excel their careers and make inroads to the scientific research network. SOCIAL MEDIA Engagement 30 Impressions 61670
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/it%E2%80%99s-not-all-about-money-community-investment
 
Description Just chilling: algae and the Antarctic 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Algae are an exceptional bunch of organisms for many reasons: particularly, they are responsible for half of the photosynthesis that takes place on the planet - and because of that - the oxygen in every second breath we take. SOCIAL MEDIA Engagement 51 Impressions 63821
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/just-chilling-algae-and-antarctic
 
Description KAT got your tongue? An analysis tool to quickly detect problems in sequencing data and genome assemblies 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact KAT, the K-mer Analysis Toolkit, developed at the Earlham Institute, represents a necessary step to ensure that this is the case - allowing bioinformaticians to work more efficiently and ultimately improve the quality of genome projects. SOCIAL MEDIA Engagements 212 Impressions 96,700
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/kat-got-your-tongue-analysis-tool-quickly-detect-problems-sequenci...
 
Description London International Youth Science Forum 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Schools
Results and Impact An international group of students who visit the research park on a yearly basis. These students are some of the brightest from around the world, interested in science in general. One such attendee I knew personally from her company that won the Google Award when she was just 14, highlighting the calibre of young people that this event welcomes.
Year(s) Of Engagement Activity 2015,2016
 
Description Long non-coding RNAmazing: X marks the spot 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Joint article with researcher WIlfried Haeryt on long non coding RNA - We used to think that only 1% of the human genome had any use. Oh, how times change.

The more we delve into the treasure trove of genetic information present in diverse genomes, from humans and worms to Arabidopsis and wheat, the more we have come to appreciate the bounty of non-coding elements that lie within.

Among the buried treasure - that composes just a small percentage of a genome - lie long non-coding RNAs (lncRNA), some of which, far from being junk, can provide insights into important regulatory mechanisms across all domains of life. SOCIAL MEDIA Engagement 183 Impressions 77,300
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/long-non-coding-rnamazing-x-marks-spot
 
Description Looking to aquaculture 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Interview article - We interview Antonia Ford, postdoctoral researcher at EI and Bangor University, who tells us all about aquaculture - and how understanding the genomics of native and introduced Tilapia species in Tanzania can help aquaculture breeders in the future. SOCIAL MEDIA Engagement 152 Impressions 120,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/looking-aquaculture
 
Description Maximising impact 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Postgraduate students
Results and Impact KEC team seminar on why impact is important, ways to maximise impact and how the KEC Office can help.
Session included a talk from Liliya Serazetdinova of The Knowledge Transfer Network (KTN) proviiding nsight into the UK Agri-Tech Strategy, current funding landscape and latest funding opportunities from Innovate UK (including new Agri-Tech Catalyst Round), Newton Fund, BBSRC and Horizon 2020, as well as the role of KTN in driving UK innovation.
Year(s) Of Engagement Activity 2016
 
Description Member of MinION Analysis and Reference Consortium (MARC) 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact MARC is a consortium of scientists who seek to work together to understand how to get the best out of nanopore technology and to collaborate on international experiments and publications. So far, we have published two papers together which seek to describe and evaluate MinION technology. We are now working on a third publication based on an experiment to sequence river water around the world using nanopore sequencing.
Year(s) Of Engagement Activity 2015,2016,2017,2018
 
Description MinIONs, MAP and MARC: Nanotechnology developments 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Highlighting our work with the Minion Nanopore We're working with the latest in nanopore sequencing technology to push the boundaries of low-cost, portable genomics solutions. SOCIAL MEDIA Engagement 86 Impressions 76,100
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/minions-map-and-marc-nanotechnology-developments
 
Description Moku virus highlights potential threat to pollinators worldwide 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Article - Honey bees are as vital to our food systems as the crops they pollinate; with a swathe of economically important plants relying directly on bees for propagation. A recent study published in Nature highlighted a novel potential threat to these key creatures: an iflaviurscommon to wasps, bees and varroa mites, featuring the work of Purnima Pachori of Earlham Institute's Platforms & Pipelines Group. SOCIAL MEDIA Engagements 109 Impressions 112,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/moku-virus-highlights-potential-threat-pollinators-worldwide
 
Description Morogoro workshop on Tilapia Aquaculture 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Workshop looking at opportunities and challenges in Tanzanian tilapia fisheries and aquaculture programme. Programme included: Biodiversity, endemism, and importance/potential of native species to fisheries and aquaculture; Aquaculture initiatives in Tanzania, impact of non-native species stocked in natural water bodies on native species; Tanzanian tilapia species identification and sample collection; The TilapiaMap project and use of smartphone application; Group discussions and feedback on training needs and provision in Tanzania; Tour of facilities at Sokoine University, description of on-going aquaculture projects.
Year(s) Of Engagement Activity 2017
 
Description My obscure route into science: Graham Etherington 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Interview with Graham Etherington - We interview Graham Etherington of our Regulatory and Systems Genomics Group, who fills us in about his journey from the RAF to the Falklands and finally to EI - as well as his love for all things avian. SOCIAL MEDIA Engagements 171 Impressions 78,400
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/my-obscure-route-science-graham-etherington
 
Description My obscure route into science: Jim Lipscombe 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact We interviewed Jim Lipscombe form our Platform's and pipelines group about his route into science. It's time for round two - and this week we feature Jim Lipscombe of our Platforms & Pipelines Group, who most certainly did not have a typical route into a science career.

Read on to discover Jim's range of former jobs (from pubs to roofs and vineyards), his love for next generation sequencing, naked mole rats, making lego robots to better communicate science, and more! SOCIAL MEDIA Engagement 228 Impressions 116,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/my-obscure-route-science-jim-lipscombe
 
Description NERC GCRF Workshop Sustainable Development Goal Interactions: The role of environmental science 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Policymakers/politicians
Results and Impact Federica Di Palma gave an elevator pitch talk is "Reclaiming land lost to violence for the security of Colombian economy and society".
Year(s) Of Engagement Activity 2017
 
Description National Conference Poster Presentation: Evolutionary History and Domestication of the Ferret (Mustela putorius furo) 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact The poster presented at the Genome Science conference was selected on abstract submission. The poster was presented in front of university professors and lecturers, postdoctoral researchers, graduates and undergraduates students. The poster presentation helped raising the national profile of Graham Etherington, Wilfried Haerty, Federica Di Palma and of the Earlham Institute
Year(s) Of Engagement Activity 2016
 
Description National Institutes of Bioscience Meeting talk 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Professional Practitioners
Results and Impact Participation at the National Institutes of Bioscience Meeting giving a talk on "The Norwich Research Park: A systems biology approach to human Health"
Year(s) Of Engagement Activity 2015
 
Description New Investigator Award to help arrest global cereals killer 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Dr Ksenia Krasileva, Group Leader at the Earlham Institute (EI) and The Sainsbury Laboratory (TSL), has been awarded a New Investigator award from the Biotechnology and Biological Sciences Research Council (BBSRC) to find and breed plants that can better fend off this disease, and potentially reduce the use of pesticides.
Year(s) Of Engagement Activity 2016
URL http://earlham.ac.uk/new-investigator-award-help-arrest-global-cereals-killer
 
Description New Scientist Live 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact A widely attended event over several days in London, we reached a vast audience and discussed the use of NGS & big data in the life sciences with interested laypeople.
Year(s) Of Engagement Activity 2016
 
Description New integrative data portal for brilliant brassicas 12 May 2016 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Scientists at the Earlham Institute (EI) have released the first web repository for Brassica (mustard plants) trait data to tackle reproducibility, user controlled data sharing and analysis worldwide. SOCIAL MEDIA Engagements 138 Impressions 183,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/new-integrative-data-portal-brilliant-brassicas
 
Description New online tool helps predict gene expression in plants 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Scientists at the Earlham Institute (EI) and the John Innes Centre (JIC) have developed a free online tool that will help a global community of scientists understand more about important food crops. SOCIAL MEDIA Engagements 225 Impressions 111,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/new-online-tool-helps-predict-gene-expression-plants
 
Description Newtons Apple Press Release 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Press release to promote the sequencing of an apple from Newton's apple tree
Scientists will connect two of the most important scientific theories of all time - the law of universal gravitation and the theory of evolution - by unravelling the genetic code of the apple which inspired Isaac Newton's greatest discovery 350 years ago this year. - Social - Engagement 167 Impressions 109,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/evolution-ideas-scientists-decode-genetic-story-newton%E2%80%99s-a...
 
Description Non-human genomes: why bother? 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact The benefits of the human genome project are clear for all to see. We have gained tremendous knowledge of the genetic basis of disease and can better predict whether we are susceptible to certain conditions - ushering us into a promising new era of personalised genomics for medicine and nutrition. SOCIAL MEDIA Engagement 146 Impressions139,000
Year(s) Of Engagement Activity 2015,2016
URL http://www.earlham.ac.uk/non-human-genomes-why-bother
 
Description Norfolk Women's Institute 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact We opened our doors to the Women's Institute of Norfolk, to whom we delivered a three part workshop during which they had lab tours, data centre tours and a DNA extraction workshop, hosted by many of our platforms and pipelines team.
Year(s) Of Engagement Activity 2015
 
Description Norwich Science Park Open Day 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Presented poster on work linked to Big Data Bioinformatics
Year(s) Of Engagement Activity 2016
 
Description Nuffield plant science placements 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Schools
Results and Impact Each year a number of Nuffield placement students come to the research park. Each year, we have given them an insight into what goes on at EI (TGAC), with tours and activities, as well as occasional placements.
Year(s) Of Engagement Activity 2015,2016,2017
 
Description Of Mice and Men: life at the limits 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact How are mice so adaptable to extreme environments? We speak to EI Fellow David Thybert about the hardy desert mouse. SOCIAL MEDIA Engagement 76 Impressions 110,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/articles/mice-and-men-life-limits
 
Description Omnipath sends strong signal 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Omnipath unifies 27 data resources on biological pathways, helping scientists better understand interactions between signalling proteins. Published in Nature Methods, the Omnipath data resource and Pypath software offer an unprecedentedly clear view on signalling pathways in living systems. Social Media - Engagement 288 Impressions 149,000
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/omnipath-sends-strong-signal
 
Description Open Day 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Open day at the institute, poster presentation on Evolution of tissue-specific regulatory programs in cichlids - engaging with the general public allowed for public awareness of our research and imapct, as well as sparking questions and general discussion surrounding the importance of this age of genomics research.
Year(s) Of Engagement Activity 2015
 
Description Open Lecture for the School of Biology at the University of East Anglia 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Undergraduate students
Results and Impact I gave an open lecture, followed by questions and 1:1 meetings with faculty and students at the UEA
Year(s) Of Engagement Activity 2015
 
Description Open data sharing: how and why? 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Blog post on open data sharing The more open biological data is, and the better it is shared, the more we can hope to get out of it for the benefit of all. SOCIAL MEDIA Engagement 15 Impressions 17801
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/open-data-sharing-how-and-why
 
Description Opportunities and challenges in Tanzanian tilapia fisheries and aquaculture programme 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact Workshop 1: Biodiversity, species identification, and stocking of non-native tilapiines, Sokoine University of Agriculture, Morogoro, Tanzania, 16-17 Jan 2017. This workshop raised awareness of potential threats to native Tanzanian Tilapia species by breeding and stocking non-native species in Tanzanian water bodies. We included practical training in the identification of tilapia species, both in the field and from captive breeding facilities, through introduction of the new smartphone app 'TilapiaMap', and featured research seminars addressing issues of hybridisation, and the problems that mixed stocks may present to aquaculture.
Year(s) Of Engagement Activity 2017
 
Description Oral Presentation - Norwich Science Festival 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Around 40 people attended a talk given on "Food for thought" - understanding biodiversity and it's impact on life and health; this sparked extensive questions and discussion afterwards. As a result, the event reported great interest in the area of biodiversity, fish biology and aquaculture (fish-farming).
Year(s) Of Engagement Activity 2017
URL http://norwichsciencefestival.co.uk/events/food-for-thought/
 
Description Oral presentation at international conference: Characterization of functional long non-coding RNAs in human 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact The presentation at the Genome 10K / Genome Science conference was selected on abstract submission. The presentation was delivered in front of industry participants, university professors and lecturers, postdoctoral researchers, graduates and undergraduates students. The presentation helped raising the international profile of Wilfried Haerty and of the Earlham Institute
Year(s) Of Engagement Activity 2017
 
Description Our Director of Science honoured for Biological and Medical Sciences 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact Director of Science Dr Federica Di Palma is awarded two honorary professorships by the University of East Anglia (UEA) for the School of Biological Sciences and Norwich Medical School. SOCIAL MEDIA Engagement 132 Impressions 33,400
Year(s) Of Engagement Activity 2016
URL http://www.earlham.ac.uk/newsroom/our-director-science-honoured-biological-and-medical-sciences
 
Description Our top ten from 2016 at Earlham Institute 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Other audiences
Results and Impact 2017 has swung in with full force and springtime is now just around the corner. We thought we'd look back on which of our articles, features and news stories were most popular in 2016. SOCIAL MEDIA Engagement 97 Impressions 80005
Year(s) Of Engagement Activity 2017
URL http://www.earlham.ac.uk/our-top-ten-2016-earlham-institute
 
Description PRES RELEASE: Scientists close gap on devastating cereal killer 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Scientists close gap on devastating cereal killer
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: "Tinkering" - evolution through gene regulation 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact "Tinkering" - evolution through gene regulation
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: 100,000 human genomes to help fight cancer and rare disease 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact 100,000 human genomes to help fight cancer and rare disease
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Accelerating forage breeding to boost livestock productivity 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact The Genome Analysis Centre (TGAC), with partners in the UK, Colombia and Kenya bring together their leading expertise in forage breeding for animal nutrition, cutting-edge genomics and phenomics technologies, to accelerate the improvement of Brachiaria, a vital livestock forage crop in central Africa and Latin America.
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: An integrated approach combining genomics, genetics and agronomy to improve the European wheat and barley production 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact An integrated approach combining genomics, genetics and agronomy to improve the European wheat and barley production
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: BGI and TGAC join efforts to tackle global challenges in food security, energy and health. 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact BGI and TGAC join efforts to tackle global challenges in food security, energy and health.
Year(s) Of Engagement Activity 2013
 
Description PRESS RELEASE: Barley genome could hold key to better crops 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Barley genome could hold key to better crops
Year(s) Of Engagement Activity 2012
 
Description PRESS RELEASE: BioJS collection of open-access visualisation tools released 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact BioJS collection of open-access visualisation tools released
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: Bioscience and Industry UK collaboration to significantly reduce HPC energy consumption 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Bioscience and Industry UK collaboration to significantly reduce HPC energy consumption
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Black-footed Ferret: Reviving a declining population 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Black-footed Ferret: Reviving a declining population
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Bread wheat genome dataset will help to improve crop 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Bread wheat genome dataset will help to improve crop
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: Bringing science to life in Norwich 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Bringing science to life in Norwich
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Business Secretary Vince Cable announces £40M for UK synthetic biology 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Business Secretary Vince Cable announces £40M for UK synthetic biology
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Chair of TGAC's Scientific Advisory Board elected to the Fellowship of the Academy of Medical Sciences 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Chair of TGAC's Scientific Advisory Board elected to the Fellowship of the Academy of Medical Sciences
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Changing the biological data visualisation world 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Scientists at TGAC, alongside European partners, have created a cutting-edge, open source community for the life sciences. BioJavaScript (BioJS) is a free, accessible software library that develops visualisation tools for different types of biological data. Data visualisation allows researchers to present their data to communicate key scientific hypotheses and concepts to a wider audience. Helping us to understand complex biological systems in relation to improving plant, animal and human health.
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Contribution to wheat genome in spotlight at supercomputing conference 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Contribution to wheat genome in spotlight at supercomputing conference
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: Crowd-sourcing the E. coli 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Crowd-sourcing the E. coli
Year(s) Of Engagement Activity 2011
 
Description PRESS RELEASE: DNA Synthesis at the Norwich Research Park 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact The Genome Analysis Centre (TGAC) has been awarded £1.9M to establish a DNA synthesis facility at the Norwich Research Park (NRP). TGAC has been selected as one of only five centres across the UK to develop a state-of-the-art DNA synthesis centre in Norwich. The facility aims to support the design, generation and exploitation of high-value compounds and bioactives obtained from plants and microbes to contribute to areas of strength within the NRP. Recent advances in DNA technologies have stimulated the development of innovative research in synthetic biology. The investment announced today will equip the NRP with the cutting-edge technology in DNA synthesis that will build on the existing National Capability in Genomics at TGAC and help to propel the UK to the forefront of synthetic biology research.
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: Data integration or die: the importance of biologist input in efficiently sharing data 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Vicky Schneider, 361° Division (Training, Public Engagement, Best Practice & e-Science) at The Genome Analysis Centre TGAC, along with UK and European partners, has reviewed key aspects of standards and formats of biological data to highlight the importance of data integration and management tools for biologists.
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Deputy PM visits TGAC as part of City Deal signed at Norwich Research Park 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Media (as a channel to the public)
Results and Impact Deputy PM visits TGAC as part of City Deal signed at Norwich Research Park
Year(s) Of Engagement Activity 2013
 
Description PRESS RELEASE: Discovering the decoding of living systems 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Discovering the decoding of living systems
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Dissecting the genomes of crop plants to improve breeding potential 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Dissecting the genomes of crop plants to improve breeding potential
Year(s) Of Engagement Activity 2011
 
Description PRESS RELEASE: European collaboration explores neighbourhoods of trees in circular orderings 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact European collaboration explores neighbourhoods of trees in circular orderings
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Faster, better, cheaper: a new method to generate extended data for genome assemblies 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Faster, better, cheaper: a new method to generate extended data for genome assemblies
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Feeding the world: the importance of crop genomics 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Feeding the world: the importance of crop genomics
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Ferret genome study provides clues to how the respiratory system responds to pandemic flu and cystic fibrosis 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Ferret genome study provides clues to how the respiratory system responds to pandemic flu and cystic fibrosis
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: Genetic blueprint of bread wheat genome unveiled to improve world's most popular cereal crop 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Genetic blueprint of bread wheat genome unveiled to improve world's most popular cereal crop
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: Genome sequence for mother of ash dieback survival 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Genome sequence for mother of ash dieback survival
Year(s) Of Engagement Activity 2013
 
Description PRESS RELEASE: Genome sequence sheds new light on how plants evolved nitrogen-fixing symbioses 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Genome sequence sheds new light on how plants evolved nitrogen-fixing symbioses
Year(s) Of Engagement Activity 2011
 
Description PRESS RELEASE: Has TGAC got the science X factor? 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact The Genome Analysis Centre (TGAC) will be taking part in this year's I'm a Scientist Get me Out of here on 16 - 27 June 2014, an outreach event that brings together scientists and students from around the world.
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: Healthy-looking prostate cells mask cancer-causing mutations 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Healthy-looking prostate cells mask cancer-causing mutations
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Hidden genetic variants revealed by new computational technique 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact Hidden genetic variants revealed by new computational technique
Year(s) Of Engagement Activity 2012
 
Description PRESS RELEASE: Hot processor speeds up UK genome analysis 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact The Genome Analysis Centre (TGAC) is the first institute in the U.K. to deploy a new bioinformatics processor called DRAGEN™, which dramatically reduces genomic pipeline runtimes from hours to minutes. This collaboration between Edico Genome and TGAC resulted in the first adaptation of the DRAGEN technology for the analysis of non-human genomes as part of the Institute's endeavours to sequence the DNA of plant, animal and microbial species to promote a sustainable bioeconomy.
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: How fishy is the human genome? 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact How fishy is the human genome?
Year(s) Of Engagement Activity 2013
 
Description PRESS RELEASE: How to escape big data and cancer with data integration and broccoli 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact How to escape big data and cancer with data integration and broccoli
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: How to fascinate local children with plants 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact How to fascinate local children with plants
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: How to visualise and interpret biological data 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact How to visualise and interpret biological data
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: How will Metagenomics revolutionise the understanding of the living world? 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact How will Metagenomics revolutionise the understanding of the living world?
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: How will we feed a global population of nine billion by 2050? 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Media (as a channel to the public)
Results and Impact How will we feed a global population of nine billion by 2050?
Year(s) Of Engagement Activity 2015
 
Description PRESS RELEASE: Images with Impact Competition Open House 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Media (as a channel to the public)
Results and Impact Images with Impact Competition Open House
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: Inside Science Workshop for Students (Yrs 11-13) 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Media (as a channel to the public)
Results and Impact The Genome Analysis Centre (TGAC) opened its doors to seventeen talented science students as part of Inside Science, a John Innes Centre (JIC) led event targeted at inspiring pre-university students to pursue a career in science.
Year(s) Of Engagement Activity 2014
 
Description PRESS RELEASE: International Consortium Sequences Tomato Genome 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No