Cellular Genomics (CELLGEN): Cell-type specific transcriptional changes during development and upon stress

Description	Contribution to report: 'Single-Cell and Spatial Transcriptomics Research in Latin America' - Anita Scoones - released by the Brazilian National Cancer Institute (INCA), Wellcome Connecting Science Learning and Training (WCS), and Nexus Evaluation LTD , with support from the Chan Zuckerberg Initiative
Geographic Reach	South America
Policy Influence Type	Participation in a guidance/advisory committee
URL	https://drive.google.com/file/d/1Cpv8I32tp7Yq8wnb4FzOObrgB7qYSSxg/view

Description	EDESIA DTP board
Geographic Reach	National
Policy Influence Type	Participation in a guidance/advisory committee
URL	https://www.uea.ac.uk/research/research-with-us/postgraduate-research/latest-phds-and-research-stude...

Description	APP37713: Reprogramming plant responses to nitrate
Amount	£728,065 (GBP)
Funding ID	APP37713
Organisation	Biotechnology and Biological Sciences Research Council (BBSRC)
Sector	Public
Country	United Kingdom
Start	02/2025
End	01/2028

Description	Connecting Research Culture Conference
Amount	£59,558 (GBP)
Organisation	Biotechnology and Biological Sciences Research Council (BBSRC)
Sector	Public
Country	United Kingdom
Start	06/2024
End	05/2025

Description	Engineering gene regulatory networks to design disease-resistant crops
Amount	£1,409,847 (GBP)
Funding ID	BB/Y007786/1
Organisation	United Kingdom Research and Innovation
Sector	Public
Country	United Kingdom
Start	02/2024
End	02/2026

Description	Leap of Life: New interdisciplinary approaches to the conservation of wild Atlantic salmon in the UK
Amount	£7,995 (GBP)
Funding ID	GCPW002 PATHWAYS Crucible 1 Pump Prime
Organisation	United Kingdom Research and Innovation
Sector	Public
Country	United Kingdom
Start	01/2024
End	01/2025

Description	Partnership: Enhancing Tomato Nitrogen Use Efficiency For Improved Agronomic Traits
Amount	$799,999 (USD)
Organisation	U.S. Department of Agriculture USDA
Sector	Public
Country	United States
Start	04/2025
End	02/2028

Description	SCAnDi: Single-cell and single molecule analysis for DNA identification
Amount	£511,898 (GBP)
Funding ID	ES/Y010655/1
Organisation	Economic and Social Research Council
Sector	Public
Country	United Kingdom
Start	03/2024
End	03/2025

Description	Targeted Long-Read Sequencing from Single Cells
Amount	£28,585 (GBP)
Organisation	Agilent Technologies
Sector	Private
Country	United States
Start	05/2023
End	06/2024

Description	Wellcome Trust PhD Programme for Clinicians (now known as Wellcome Trust PhD Programme for Health Professionals at the Universities of Cambridge and East Anglia), 2021 intake
Amount	£311,876 (GBP)
Funding ID	225481/Z/22/Z
Organisation	Wellcome Trust
Sector	Charity/Non Profit
Country	United Kingdom
Start	09/2021
End	02/2026

Title	FlowFI - Flow cytometry Feature Importance
Description	Flow cytometry is a tool for spectral analysis of biological cells (including bacteria, human animal and plant cells) used in both medical and experimental contexts. FlowFI (Flow cytometry Feature Importance) is a python-based, graphical interface to enable investigators to perform online data driven feature importance analysis of flow cytometry spectral and possibly also imaging features for gating, the selection of a subset of cells based on their features, for identification of pathological or otherwise interesting cell morphologies. The software uses efficient spectral methods for feature importance analysis with parallel processing to enable analysis of large numbers of live samples for refinement of the gating approach at the bench. The software is capable of analysing data from any generic .fcs file but was tested using data generated with the BD FACSDiscover™ S8 Cell Sorter from BD Biosciences that can provide a range of spectral and imaging features. FlowFI does not perform or suggest a gating strategy, but instead ranks features by how much of the variance in the samples they account for. This is performed using robust spectral methods based on Laplace scoring [1]. FlowFI allows for a subset of features (e.g. imaging vs specific red, violet or blue features) to be analysed, allowing for results to be iteratively refined based on the subset of interest.
Type Of Material	Technology assay or reagent
Year Produced	2024
Provided To Others?	Yes
Impact	New imaging flow cytometry datasets of immunologically active, haematopoetic mouse cells is now being produced using this software.
URL	https://github.com/jameswilsenach/FlowFI

Title	LR scRNAseq comparative transcriptomics
Description	Comparison of state of the art long read sequencing approaches for single cell transcriptomic analyses : Parallel analyses of the same cDNA, generated using the 10X genomics platform, on Illumina short-read, and PacBio and Oxford Nanopore long-read platforms. We also consider the impact of CRISPR-based depletion of libraries, to remove highly expressed transcripts, prior to long-read sequencing in these experiments.
Type Of Material	Biological samples
Year Produced	2025
Provided To Others?	No
Impact	Comprehensive overview of experimental methods to perform long-read single-cell experiments. The aim was to treat each method using platform-specific wet lab protocols and dry lab bioinformatic data handling and processing tools to emulate a 'typical workflow' for each approach. The findings serve as a community resource for helping to select an appropriate experimental approach for isoform resolved single cell transcriptomic projects.
URL	https://github.com/TGAC/LR_scRNAseq_Scoones_etal

Title	Functional annotation for the Abbassa genome assembly
Description	Functional annotation for the Abbassa genome assembly
Type Of Material	Database/Collection of data
Year Produced	2025
Provided To Others?	Yes
Impact	na

Title	Low coverage genome sequencing data to uncover tilapia genetic diversity in the Lake Victoria Basin
Description	Low coverage genome sequencing data to uncover tilapia genetic diversity in the Lake Victoria Basin
Type Of Material	Database/Collection of data
Year Produced	2024
Provided To Others?	Yes
Impact	na
URL	https://www.ebi.ac.uk/ena/browser/view/PRJEB75650

Title	Sequencing data for the genome assembly and annotation of the Nile tilapia Abbassa elite strain
Description	Sequencing data for the genome assembly and annotation of the Nile tilapia Abbassa elite strain
Type Of Material	Database/Collection of data
Year Produced	2025
Provided To Others?	Yes
Impact	na
URL	https://www.ebi.ac.uk/ena/browser/view/PRJEB57170

Title	Single cell RNA seq (10x) of immune cell in liver upon Slamonella typhimurium infection
Description	Single cell RNA seq (10x) of immune cell in liver upon Slamonella typhimurium infection in mice fed control or low protein diet
Type Of Material	Database/Collection of data
Year Produced	2024
Provided To Others?	Yes
Impact	Transcriptomic shifts in liver immune cells exposed to Salmonella typhimurium infection in animals fed control or low protein diet

Title	Single cell RNA sequencing of HSC, MkP, CFU-E including the lineage information recovered as RNA barcodes
Description	This dataset contains single cell RNA sequencing of blood stem cells, megakaryocytic progenitors, erythroid progenitors from control and platelet-depleted animals. Also lineage information-RNA barcodes are included in this dataset.
Type Of Material	Database/Collection of data
Year Produced	2022
Provided To Others?	No
Impact	This dataset enabled me to submit the manuscript, which is under revision. Furthermore, it allowed me to develop new collaborations with scientists from Australian National University and Cambridge University.

Title	Tilapia genetic diversity across the Lake Victoria Basin
Description	Genotypes for Oreochromis niloticus, O. leucosticus, O. variabilis, O. esculentus, Coptodon rendalli, C. zillii collected in water bodies in Kenya, Tanzania, and Uganda within the Lake Victoria Basin.
Type Of Material	Database/Collection of data
Year Produced	2024
Provided To Others?	Yes
Impact	na
URL	https://zenodo.org/doi/10.5281/zenodo.11193181

Description	Agilent Industry Research gift award supporting Proof of Concept single cell industry applications
Organisation	Agilent Technologies
Country	United States
Sector	Private
PI Contribution	long-read sequencing of single-cell transcriptomes
Collaborator Contribution	Provision of consumables and in-kind intellectual contributions as mentor
Impact	N/A
Start Year	2023

Description	Astrazeneca
Organisation	AstraZeneca
Department	Research and Development AstraZeneca
Country	United Kingdom
Sector	Private
PI Contribution	Analysis of long read bulk RNA-Seq for the detection of splicing variation in human cell lines under different conditions Additional collaborations with other groups at Astra Zeneca; Astra Zeneca visit to Earlham as part of Industry Seminar.
Collaborator Contribution	Experimental data (cell exposed to different compounds), sequencing data
Impact	Multidisciplinary collaboration combining molecular biologists and computational biologists
Start Year	2023

Description	Collaboration - JS UEA
Organisation	University of East Anglia
Country	United Kingdom
Sector	Academic/University
PI Contribution	Collaboration on the investigation of the implications of small RNAs during cardiomyocytes differentiation and implication of disruption We are analysing long read data from the iPSC, early differentiation, late differentiation
Collaborator Contribution	The collaborators provided cells for preparation of sequencing libraries and proteomic data
Impact	the collaboration is multidsiciplinary bringing together molecular biologists, cellular biologists, bioinformaticians
Start Year	2024

Description	Collaboration King College London
Organisation	King's College London
Department	Maurice Wohl Clinical Neuroscience Institute
Country	United Kingdom
Sector	Academic/University
PI Contribution	Computational analyses of long read bulk and single cell data from human IPSCs with engineered mutation for Amyotrophic lateral sclerosis and derived neurons, bulk long reads RNA-Seq from mouse brains with human mutations for Amyotrophic lateral sclerosis
Collaborator Contribution	Generation of IPSC lines with causative mutations, generation of the mice lines with human mutation
Impact	The work is highly collaborative including clinicians, clinical geneticists, molecular biologists, cellular biologists, computational biologists
Start Year	2023

Description	Collaboration UEA Medical School
Organisation	University of East Anglia
Department	School of Medicine UEA
Country	United Kingdom
Sector	Academic/University
PI Contribution	Computational analyses of long read data to assess polyAdenylation sites usage during cardiomyocytes maturation, both in wild type background and in cell lines with mutations for cardiac disorders
Collaborator Contribution	IPSC generation, cardiomyocytes maturation
Impact	Computational analyses of differential polyadenylation usage during cardiomyocytes maturation
Start Year	2024

Description	Collaboration with Katie Long and Cristobal Uauy from JIC
Organisation	John Innes Centre
Country	United Kingdom
Sector	Academic/University
PI Contribution	Planned experiments and advised on strategies. Processed 2 verification slides (2 runs) , and 12 full probe slides 12 runs. Troubleshot any failed runs extensively with FAS. The project lasted around 2 years from initial planning to the point (so far) of submission to BioRxiv (Dec, 2024). This is the second collaboration we have had with Cristobal Uauy's group from JIC. The previous was with a PhD student, Anna Backhaus. This project lasted 2 years where we performed some low-input RNASeq (on microdissections).
Collaborator Contribution	Katie Long curated the gene list for the probe set. Katie also optimised and sectioned all of the slides ready for preparation by myself. The data analysis was done mainly by her as well as the manuscript writing.
Impact	BioRxiv submission Dec, 2024 which is a joint first-author article https://www.biorxiv.org/content/10.1101/2024.12.19.629411v1.full.pdf Submission to a peer-review journal is ongoing.
Start Year	2022

Description	Impact of low protein diet on liver function upon Salmonella infection
Organisation	Quadram Institute Bioscience
Department	Gut Health and Food Safety
Country	United Kingdom
Sector	Academic/University
PI Contribution	My team has performed FACS cell sorting and 10X analysis of immune cells in the liver.
Collaborator Contribution	Dr Beraza holds the project license enabling studies of the Salmonella infection and impact on liver function in M. musculus. Her team provided the expertise in immune cell isolation from the liver.
Impact	We have published the article: Low protein diet exerts protective effect on liver function upon Salmonella infection. Generated findings were a basis for a PhD project that will commence in October 2025 as a part of BBSRC DTP program.
Start Year	2021

Description	Isolation and in vitro differentiation of human megakaryocytes
Organisation	University of Cambridge
Department	Cambridge Stem Cell Institute
Country	United Kingdom
Sector	Academic/University
PI Contribution	Prof Cedric Ghevaert
Collaborator Contribution	As a part of FTMA we have had reciprocal visits to gain experience in the isolation and differentiation of megakaryocytes from human aphaeresis cones. We have shared our expertise in the library construction and sequencing.
Impact	Knowledge exchange
Start Year	2023

Description	Leap of Life: New interdisciplinary approaches to the conservation of wild Atlantic salmon in the UK
Organisation	Bangor University
Country	United Kingdom
Sector	Academic/University
PI Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Collaborator Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Impact	Disciplines involved: literature, history, law, chemistry, genetics and AI. To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Start Year	2023

Description	Leap of Life: New interdisciplinary approaches to the conservation of wild Atlantic salmon in the UK
Organisation	Imperial College London
Country	United Kingdom
Sector	Academic/University
PI Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Collaborator Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Impact	Disciplines involved: literature, history, law, chemistry, genetics and AI. To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Start Year	2023

Description	Leap of Life: New interdisciplinary approaches to the conservation of wild Atlantic salmon in the UK
Organisation	University College London
Country	United Kingdom
Sector	Academic/University
PI Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Collaborator Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Impact	Disciplines involved: literature, history, law, chemistry, genetics and AI. To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Start Year	2023

Description	Leap of Life: New interdisciplinary approaches to the conservation of wild Atlantic salmon in the UK
Organisation	University of Kent
Country	United Kingdom
PI Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Collaborator Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Impact	Disciplines involved: literature, history, law, chemistry, genetics and AI. To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Start Year	2023

Description	Leap of Life: New interdisciplinary approaches to the conservation of wild Atlantic salmon in the UK
Organisation	University of Leeds
Country	United Kingdom
Sector	Academic/University
PI Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Collaborator Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Impact	Disciplines involved: literature, history, law, chemistry, genetics and AI. To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Start Year	2023

Description	Leap of Life: New interdisciplinary approaches to the conservation of wild Atlantic salmon in the UK
Organisation	University of Sheffield
Country	United Kingdom
Sector	Academic/University
PI Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Collaborator Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Impact	Disciplines involved: literature, history, law, chemistry, genetics and AI. To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Start Year	2023

Description	Leap of Life: New interdisciplinary approaches to the conservation of wild Atlantic salmon in the UK
Organisation	University of York
Country	United Kingdom
Sector	Academic/University
PI Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Collaborator Contribution	To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Impact	Disciplines involved: literature, history, law, chemistry, genetics and AI. To engage stakeholders to gather information, build expertise, and facilitate collaborative discussions e.g., Governmental agencies, academia, NGOs, trusts, and charities. Develop a novel mapping of the current crisis affecting UK wild salmon populations - comprehend (potentially conflicting) stakeholder relationships. Create a multi-disciplinary framework responding to complex socio-ecological systems. Raise public awareness Develop a roadmap for future interdisciplinary collaboration.
Start Year	2023

Description	Marjorie Lungren spatial transcriptomics project on the effect of photosynthetic evolution on different grass species
Organisation	Lancaster University
Country	United Kingdom
Sector	Academic/University
PI Contribution	Marjorie won a grant which provided financial contribution towards running a spatial transcriptomics workshop hosted by us (May 2024). We ran a workshop for 10 people with lots of help from the training team especially. Marjorie would like to conduct spatial transcriptomics project on the effect of photosynthetic evolution on different grass species. This is a wider collaboration between her group in Lancaster University and researchers in Sheffield University. The initial project discussion started in around June 2023 and the experimental project is being planned for later this year (2025). We have advised and consulted on this project's experimental planning including optimisation of sample preparation, timelines and gene panel design. We will run all of the sample slide on the Vizgen Merscope spatial platform as well as advise on sectioning.
Collaborator Contribution	We were provide money to run a spatial transcriptomics for plant users workshop hosting 10 people, 4 of which were not part of the inital collaboration. This workshop was the first of it's kind.
Impact	https://www.earlham.ac.uk/events/spatial-transcriptomics-plants-workshop
Start Year	2023

Description	Panhematopoietic clonal and molecular analysis using RNA-barcoding approach
Organisation	University of East Anglia
Department	School of Medicine UEA
Country	United Kingdom
Sector	Academic/University
PI Contribution	I was performing FACS sorting of cells, isolated samples were included in published papers.
Collaborator Contribution	Dr Rushworth and his team provided wild type (C57Bl6, n=25) and PEPC Boy (n=20) mice and skills (intravenous injections).
Impact	Publications: 10.1172/JCI153157 10.1101/2022.05.16.491933 10.3389/fimmu.2022.1003006 10.1073/pnas.1913278116 10.1182/bloodadvances.2022007033
Start Year	2019

Description	Visitor hosting with Deborah Desantis (Hong Kong University)
Organisation	University of Hong Kong
Country	Hong Kong
Sector	Academic/University
PI Contribution	Deborah came to visit us for 1 month in order to optimised nuclei isolation in readiness for a 10X Genomics single nuclei workflow. This was a result of Deborah having spoken to us during the training provided on the Single Cell Bioinformatics course in 2023. During her visit we performed three different protocols, while testing varying amounts of input material. We were able to utilise the facilities at EI to extract nuclei and troubleshoot the results. The protocol for downstream processing could be demo-ed during Deborah's stay and that was found to be relevant and informative.
Collaborator Contribution	We are in the process of putting together A short blog article for EI's website.
Impact	Successfully optimised wet lab protocol for fish brain nuclei isolation.
Start Year	2025

Description	Wellcome Trust Sanger Institute
Organisation	The Wellcome Trust Sanger Institute
Country	United Kingdom
Sector	Charity/Non Profit
PI Contribution	Computational analyses of single cell long read data (PacBio, ONT) for human IPSC and differentiated neuronal lineages (astrocytes, motor neurons)
Collaborator Contribution	Cells (IPSCs, derived neuronal lineages), sequencing data
Impact	The work is multidisciplinary bringing together cellular biologists, molecular biologists, and computational biologists
Start Year	2023

Description	2024 Scientific Advisory Board (SAB) Meeting
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Professional Practitioners
Results and Impact	A poster titled "Conservation and divergence of nitrate-responsive gene circuits: A framework for targeted engineering of nitrogen use efficiency in plants" was presented at the 2024 Scientific Advisory Board (SAB) Meeting
Year(s) Of Engagement Activity	2024

Description	AGBT 2024 Poster Presentation - Comparative analysis of long-read approaches for single-cell transcriptomics
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Industry/Business
Results and Impact	Poster presentation at AGBT 2024 (5 - 9th February)
Year(s) Of Engagement Activity	2024

Description	Advanced Single-Cell RNAseq Data Analysis (6-9 November 2023)
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	This course provided a deep dive into single-cell genomics, for researchers who are in the early stages of planning a single-cell project. The course consisted of a mixture of conceptual and methodological lectures and hands-on bioinformatics sessions, including best practice and tips as learned first-hand by Earlham Institute's faculty. Participants gained first-hand experience by learning how to assess data quality with the guidance of the faculty, troubleshoot small problems, and review the results. Hands-on sessions used data generated using both Smartseq2 and 10X protocols. This in-person course had 19 attendees, with 52% from the UK, but also participants from, Belgium, Chile, Germany, Hong Kong, Hungary, India, Japan, and Spain. 43% were PhD Students, and 19% were Post Docs. 100% said the Overall Quality was very good/excellent. 100% said the Trainers were Very Good or Excellent.
Year(s) Of Engagement Activity	2023
URL	https://www.earlham.ac.uk/events/advanced-single-cell-rnaseq-data-analysis-2023

Description	Attendance of Herschel programme for women in technical leadership
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Study participants or study members
Results and Impact	The Herschel programme is Leadership training specifically for women in Technical roles who are either already Leading or aspire to lead. There are 4 main modules delivered as online, interactive sessions over 4-5 months. These are: Confidence and Empowerment, Culture and context, Influencing and negotiating, and You as a Leader. The enormous number of women attending were divided into cohorts where they were delivered these online modules. The cohorts were further divided into Action Learning (ALS) sets of 4 people which would meet outside of the module sessions to discuss relevant ongoing issues that have happened to them, or is currently happening to them in their careers for the perspectives of the rest of the group. A celebration was held in Nottingham on 18th July, as the only in-person event.
Year(s) Of Engagement Activity	2024
URL	https://www.mitalent.ac.uk/the-herschel-programme

Description	CELLGEN 3.3.3A working group
Form Of Engagement Activity	A formal working group, expert panel or dialogue
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Study participants or study members
Results and Impact	Regular meetings for project discussion and progress evaluation as it includes challenging techniques and requires timely decisions
Year(s) Of Engagement Activity	2024,2025

Description	Cell expression heterogeneity research project page
Form Of Engagement Activity	Engagement focused website, blog or social media channel
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	Published a research webpage detailing the aims and activity from WP3 of the Cellular Genomics ISP - Cell expression heterogeneity impact on environmental response.
Year(s) Of Engagement Activity	2024,2025
URL	https://www.earlham.ac.uk/research-project/cell-expression-heterogeneity-impact-environmental-respon...

Description	Chartered Society of Forensic Sciences - Webinar (IM)
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	Chartered Society of Forensic Sciences - Webinar - delivered by IM to update on the URKI funded sandpit projects in forensic sicence (9th October 2024)
Year(s) Of Engagement Activity	2024

Description	Course co-organiser Single Cell Bioinformatics Course 2024
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	Course on data analysis generated in single cell RNA sequencing experiments, 16 participants gained understanding in data analysis, interpretation and future directions in the single cell fields.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/events/single-cell-rnaseq-bioinformatics-2024

Description	Delivery of Single cell RNA-seq course at Sanger Institute, Cambridge
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	Delivery of immersive single cell RNAseq course (with hands on laboratory practical and bioinformatics training) in July 2022 to ~20 participants, including students postdocs and PIs from within and outside of Europe.
Year(s) Of Engagement Activity	2022

Description	EI Innovate 2023
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Industry/Business
Results and Impact	EI Innovate is an annual engagement event that provides insight into the Earlham Institute's research, exploring opportunities for innovation and collaboration, specialising in agri-food, biotech, med-tech and public health. It provided plenty of networking opportunities and allowed us to gain insight into our ongoing collaborations, explain how our expertise and facilities can be accessed and discuss potential ideas for new collaborations.
Year(s) Of Engagement Activity	2023
URL	https://www.earlham.ac.uk/events/ei-innovate-2023

Description	EI Innovate annual stakeholder engagement event
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	EI Innovate is an annual engagement event that provides insight into the Earlham Institute's research, exploring opportunities for innovation and collaboration. Specialising in agri-food, biotech, med-tech and public health, we have a wealth of experience collaborating with others to develop potential solutions to urgent industrial and societal challenges. EI Innovate events foster exciting and valuable conversations between academia and industry. An example of an exciting collaboration that resulted from a previous EI Innovate is the Hybrid Wheat Initiative, which connects 25 breeding companies and research institutes worldwide, to resolve the critical challenge of hybrid wheat. In 2023, we showcased our two new strategic programmes of research - Cellular Genomics and Decoding Biodiversity - and two National Bioscience Research Infrastructures (NBRIs) - Transformative Genomics and the Earlham Biofoundry. The programme included talks about Earlham expertise and capabilities, examples of collaborations, panel discussions, Innovation Showcase, exhibition, tours of the two National Bioscience Research Infrastructures (NBRIs) - Transformative Genomics and the Earlham Biofoundry, and networking.
Year(s) Of Engagement Activity	2019,2020,2021,2022,2023
URL	https://www.earlham.ac.uk/events/ei-innovate-2023

Description	Earlham Institute - Single-cell Symposium
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	Talk delivered on "Single-cell analysis in forensic science - the SCAnDi project" to the EI single-cell symposium in June 2024.
Year(s) Of Engagement Activity	2024

Description	FTMA visit of WorldFish at EI and training of partners from the Lake Victoria Fisheries Organisation
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	Meeting at the Earlham Institute with WorldFish researchers to develop the report for the Lake Victoria Fisheries Organization to inform policy development for the sustainable exploitation of tilapia. Training of representatives from Uganda, Kenya, and Tanzania on the bioinformatics for population genetics
Year(s) Of Engagement Activity	2023

Description	FTMA4, visit at MRC Stem cell institute, Cambridge
Form Of Engagement Activity	A formal working group, expert panel or dialogue
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Professional Practitioners
Results and Impact	PDRA< RA and a group leader visited the lab at MRC Stem Cell Institute to gain practical knowledge and experience in new cell assays. Possibility of joint funding application. The activities were supported by EI's FTMA4 award (BB/X017761/1)
Year(s) Of Engagement Activity	2023

Description	Facilitating EI presence at Festival of Genomics
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	Proactively build relationships with event organisers to explore speaking opportunities to raise EI profile at the Festival of Genomics event, resulting in EI colleages becoming invited speakers, which led to collaboration/ service query downstream.
Year(s) Of Engagement Activity	2023
URL	https://frontlinegenomics.com/the-festival-of-genomics-and-biodata-2023/

Description	Feature Sphere Fluidics Industry spotlight for EI Newsletter
Form Of Engagement Activity	A magazine, newsletter or online publication
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Postgraduate students
Results and Impact	Intended purpose is to give examples of how EI staff and students works with industry, to stimuli ideas for further interactions and opportunities for the internal newsletter.
Year(s) Of Engagement Activity	2023

Description	Festival of Genomics 2023
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	Large scale exhibitions as well as conference talks of the most up to date technologies related to sequencing, and other research including medical and biodata talks.
Year(s) Of Engagement Activity	2023
URL	https://festivalofgenomics.com/london/en/page/home

Description	Festival of Genomics 2024
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 Earlham Institute exhibited at the Festival of Genomics and Biodata in London - an event attended by around 5,000 people. Complemented by talks and panel discussions delivered by our researchers, our stand provided an opportunity to showcase our science, technology platforms, and opportunities for engagement. EI delegates collectively had more than 100 conversations about the Institute, ranging from interest in jobs or PhDs to requests for scientific services. The true impact of attendance will be felt over the long-term, with a few potential collaboration opportunities being explored.
Year(s) Of Engagement Activity	2024
URL	https://festivalofgenomics.com/london/en/page/home

Description	Festival of Genomics 2025
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	We exhibited at the Festival of Genomics & Biodata in London, taking a stand to raise our profile, strategically flag particular services and research areas, and to connect with other attendees for follow-up opportunities. We were seen by the majority of delegates, spoke to more than 100, and have follow-up actions with around 40-50 of them.
Year(s) Of Engagement Activity	2025
URL	https://festivalofgenomics.com/london/en/page/2025-homepage

Description	Find My Future STEMM 2023
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	FindMyFuture is an engagement event aimed at introducing Year 8 students to various STEMM careers. Members of EI chatted about their research and careers with the many students who visited our stand.
Year(s) Of Engagement Activity	2023

Description	First Scandi project stakeholder meeting (April 2024)
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	Approximately 30 members of the Scandi (Single-cell Analysis for DNA Identification) project attended a day-long meeting at EI. Updates and plans from the project were presented to stakeholders including forensic scientists and practicioners as well as colleagues from within the collaboration and collaborating institutes. The meeting created a great opportunity for discussion and the co-development of the project.
Year(s) Of Engagement Activity	2024

Description	Gordon Research Conference on Single-Cell Approaches in Plant Biology
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	The Single-Cell Approaches in Plant Biology Gordon Research Conference provided a forum to discuss and share cutting-edge approaches that explore plant biology from the perspective of individual cells. The conference brought together a diverse and vibrant community of researchers interested in mapping cellular and subcellular protein localization patterns, to track dynamic interactions between proteins, to identify the molecular components of cellular substructures, discerning complete states and transitions of specialized cell types, and integrating these disparate data points in order to generate testable models of cellular function, new research avenues, and provide solutions to societal challenges.
Year(s) Of Engagement Activity	2023
URL	https://www.grc.org/single-cell-approaches-in-plant-biology-conference/2023/

Description	How to use spatial transcriptomics to view single plant cells in situ
Form Of Engagement Activity	Engagement focused website, blog or social media channel
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	We worked with Ashleigh Lister in the Macaulay Group to publish a technical-led blog highlighting the workflow used for spatial transcriptomics in plant tissue. The aim of the blog was to profile Ashleigh's, and the Institute's, leading expertise in applying this technology to non-model organisms, and to further promote the capability as part of the Single-Cell team and NBRI in Transformative Genomics. The blog was incredibly well engaged with on social and on the website and continues to be one of the most popular blogs on our website.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/articles/how-use-spatial-transcriptomics-view-single-plant-cells-situ

Description	Human Cell Atlas General Meeting 2025 Poster Presentation - Anita Scoones
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Poster presentation sharing results from ongoing research in long-read single cell analyses, soon to be published. Event led to further discussion of potential future collaborations both with academics as well as industry.
Year(s) Of Engagement Activity	2024

Description	ISP all hands meetings FTMA4
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Other audiences
Results and Impact	ISP all hands meeting allow the interaction amongst all the work package members. In addition to project and impact progress updates, workshops are held to drive discussion in areas such as IDEA, policy impact, futher funding opportunities and more.
Year(s) Of Engagement Activity	2023,2024

Description	Instructor on Single Cell Genomics Training, Latin America & Carribean, 2024 - Anita Scoones
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	This was the second hands-on training event on approaches for single-cell RNA sequencing in Latin America (following its' first edition in 2023). Aiming to expand the capacity of researchers in Latin America, this course equipped participants with the knowledge and skills needed to leverage the full potential of single-cell technologies. The audience included early and mid-career scientists, PhD students, and postdoctoral researchers based in Latin American countries who are engaged or planning to engage in single-cell research.
Year(s) Of Engagement Activity	2024
URL	https://coursesandconferences.wellcomeconnectingscience.org/event/single-cell-genomics-latin-america...

Description	Introduction to Flow Cytometry (19 June 2024)
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Postgraduate students
Results and Impact	This workshop was designed to be ideal for researchers starting out in flow cytometry and in the planning stages of an experiment, as an opportunity to expand theoretical knowledge for those more experienced researchers. Topics covered by lectures and exercises included: Understanding of fluorescence and fluorochromes, understanding how a flow cytometer works, considerations of conventional and full spectrum cytometry, compensation and data spread, quality control, best practice in experimental design and sample preparation, droplet sorting using FACS Melody, applications of cell sorting, how to select cells, principals of gating, how to present flow data and introductions to new technologies. All from academia within the UK, the majority of the 19 attendees were PhD students (11), with five Post Docs attending. Of those that provided feedback, 100% rated the Trainers, Overall Quality of the event and Training Materials as Excellent or Very Good, with 94% rating the Overall Event Organisation as Excellent or Very Good. 100% of attendees that provided feedback would recommend the course.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/events/introduction-flow-cytometry

Description	Introduction to Single-Cell RNAseq (18-20 Sep)
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Postgraduate students
Results and Impact	This course provided an introduction to Single Cell Genomics. It covered several aspects of single-cell workflows from experimental design to laboratory hands-on including cell sorting and processing for production of quality samples for sequencing, generation of sequencing data and introduced tools and metrics for assessing the data quality. Laboratory practicals involved cell sorting using FACS AriaFusion, including considerations for different cell types, preparation of samples for Smart-seq, library construction, QC and pooling, loading of the 10X instrument. Delegates had the opportunity to review sequencing reports to determine data quality, interpret library and pre-processing QC, understand the principles of producing matrices, and identify any filtering required. The course consisted of a mixture of conceptual lectures, methodological lectures, and hands-on sessions in the laboratory. 58% of the participants were either at PhD or PostDoc level. 42% were from the Norwich Research Park, the other participants came from across the UK. The feedback for the Trainers, and Overall Course Quality both received 100% Excellent feedback.
Year(s) Of Engagement Activity	2023
URL	https://www.earlham.ac.uk/events/introduction-single-cell-rnaseq-2023

Description	Invited Speaker at PacBio IsoSeq Social Club Virtual Event
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Industry/Business
Results and Impact	Invited speaker and panel member on meet the expert Q&A discussion on virtual PacBio IsoSeq Social Club event. Talk described uses of the Iso-Seq method for full-length cDNA sequencing in single cell transcriptomics. Event was virtual, free to register and broadcast globally.
Year(s) Of Engagement Activity	2022

Description	Invited Speaker at PacBio PRISM 2024 - Anita Scoones
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Industry/Business
Results and Impact	Invited speaker asked to present applications and perspectives of PacBio long-read sequencing in single cell biology.
Year(s) Of Engagement Activity	2024

Description	Invited seminar - Stockholm - What Your Are Missing Matters - Characterisation of novel splicing events across brain tissues and during development
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Invited talk at a Oxford Nanopore Technology Event
Year(s) Of Engagement Activity	2024
URL	https://nanoporetech.com/about/events/nanopore-days/nanopore-day-stockholm-2024#event-overview

Description	Invited speaker at Norwich Single Cell Symposium 2024
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	I was invited to talk about my research in front of an audience of around 80 experts on the topic, which sparked very interesting questions and conversations during networking sessions and had very positive feedback with potential for collaborations
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/events/norwich-single-cell-symposium-2024

Description	Invited speaker: Talk delivered for Inspirational Student Industry Placement
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Postgraduate students
Results and Impact	Talk to NRP DTP PhD Students outlining Industry Placement Experience and providing advice for securing and succeding in industry placements.
Year(s) Of Engagement Activity	2023

Description	LRUA 2024 Conference Poster Presentation - Anita Scoones
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Poster presentation of single cell long read data across 3 different days. This led to many discussions with others in the long read community, introduced the single cell services offered by the institute to potential collaborators / customers, and sparked discussions with journal editors in attendance regarding the manuscript's submission for publication.
Year(s) Of Engagement Activity	2024

Description	Latest themes in single-cell genomics
Form Of Engagement Activity	Engagement focused website, blog or social media channel
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	Article summarising the Norwich Single-Cell Symposium event, including the themes of discussion. The article was then used as a long-term piece of content to highlight EI's role in single-cell genomics.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/articles/latest-themes-single-cell-genomics

Description	Mapping cell diversity with LRS and Single-Cell
Form Of Engagement Activity	Engagement focused website, blog or social media channel
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	We published an article on the Macaulay Group's research combining single-cell and long-read sequencing technologies. This highlighted our innovation and long involvement in the maturation of these technologies, showcasing our expertise with them. It supports both the work that is being delivered through the Cellular Genomics ISP as well as the Transformative Genomics NBRI.
Year(s) Of Engagement Activity	2025
URL	https://www.earlham.ac.uk/articles/mapping-cell-diversity-long-read-sequencing-and-single-cell-genom...

Description	Microbiome sharing is microbiome caring
Form Of Engagement Activity	Engagement focused website, blog or social media channel
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	We produced an article with Dr Falk Hildebrand highlighting his career and research focus in microbiome science. This was in part to recognise his inclusion on the Clarivate Highly Cited list of scientists. The article also referenced his work as part of both EI's ISPs and QIBs ISPs.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/articles/microbiome-sharing-is-microbiome-caring

Description	NRP Accessible Science Day talk: Single Cell Biology
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Public/other audiences
Results and Impact	Accessible science event at NRP on Oct 10 2023. This event was targeted towards highschool students and members of the NRP workforce without a scientific background. This talk introduced key concepts of single-cell biology leading to increased awareness and interest in single cell research.
Year(s) Of Engagement Activity	2023

Description	NoCaSS2024
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Regional
Primary Audience	Professional Practitioners
Results and Impact	A poster titled "Conservation and divergence of plant nitrate-responsive gene circuits: A single cell analysis" was presented at Synthetic Biology UK 2023 conference.
Year(s) Of Engagement Activity	2024
URL	https://nocass.org

Description	Norwich Science Festival 2025
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	The Earlham Institute took two activities to the Norwich Science Festival, spending four days engaging people with our science. The first activity explored the soil microbiome and was linked to both the Decoding Biodiversity and Cellular Genomics ISPs, while the second looked at making medicines in plants and was just linked to Decoding Biodiversity. We engaged with hundreds of families, sparking an interest in our science and with many questions about related work. We also shared social posts about our attendance, which generated some positive engagement with our online followers.
Year(s) Of Engagement Activity	2025
URL	https://norwichsciencefestival.co.uk/

Description	Norwich Single-Cell Symposium (26-27 June 2024)
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	This two-day, in-person event brought together researchers who are curious about applying single-cell technologies with those who are experts working at the forefront of the field and across a wide range of species. The symposium covered single-cell genomics technologies and their application in microbial, plant, animal and human health and disease. Offering a forum for researchers working on similar challenges in diverse systems to discuss the latest developments in single-cell genomics, while networking with other researchers with the intention of catalysing future development and application of single-cell genomics across the UK. The event featured talks from keynotes, invited speakers and selected abstracts, and we were keen to include as broad a range of single-cell applications as possible. Topics covered included: Topics covered included: • Single-cell genomics in plant and microbial research • Single-cell genomics in health, disease and development • Single-cell informatics • Single-cell technology development. Networking was facilitated within an evening reception and elongated breaks between talk sessions. The symposium had 90 attendees, including 2 keynote speakers, 6 invited speakers and 9 speakers selected from abstract submission. Five attendees presented posters through abstract submission. Feedback summary: 100% of the feedback we received rated the symposium as Very Good/Excellent, with 97% of saying they would like to attend a future occurrence of the event.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/events/norwich-single-cell-symposium-2024

Description	Norwich Single-Cell Symposium 2023 (3 May 2023)
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	This event brought together researchers who are curious about applying single-cell technologies with those who are experts working at the forefront of the field and across a wide range of species. The symposium covered single-cell genomics technologies and their application in microbial, plant, animal and human health and disease. Offering a forum for researchers working on similar challenges in diverse systems to discuss the latest developments in single-cell genomics, while networking with other researchers with the intention of catalysing future development and application of single-cell genomics across the UK. The event featured talks from keynotes, invited speakers and selected abstracts, and we were keen to include as broad a range of single-cell applications as possible. Topics covered included: • Single-cell genomics in plant and microbial research • Single-cell genomics in health, disease and development • Single-cell informatics • Single-cell technology development The symposium had 90 attendees, including two keynotes and 10 speakers. 90% of the feedback we received rated the symposium as Very Good/Excellent. 90% also describe the event as 'providing an update on breakthroughs and emerging technologies in the single cell field'.
Year(s) Of Engagement Activity	2023
URL	https://www.earlham.ac.uk/events/norwich-single-cell-symposium-2023

Description	ON Helix New Horizons in Genetic Screening
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Media (as a channel to the public)
Results and Impact	300 participants from private sector, NHS and academia attended ON Helix workshops over 4 days to discuss progress and challenges of personalised medicine, genetic screening to open up the discussion how to tackle new challenges the field encounters.
Year(s) Of Engagement Activity	2023
URL	https://www.onhelix.com/

Description	Oral Presentation - FlowFI: A feature analysis tool for flow cytometry data and image feature extraction
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	A talk to a small workgroup, "Image Analysis Across Domains" based at the Turing but including other UK institutions. This talk was introduce the FlowFI software to a software development and data science audience in order to find experienced perspectives on user interface development for non-data scientist, scientific users. The talk brought fresh perspectives on how to aproach user interface development and the problem of writing problem-specific, interpretable and reusable code for scientists.
Year(s) Of Engagement Activity	2025

Description	Oral Presentation - Regulatory networks evolution underlying the rapid diversification of cichlids fishes in the Great African Lakes - Tarang Mehta
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Invited presentation at the Society for Molecular Biology and Evolution Annual Meeting (Ferrara Italy)
Year(s) Of Engagement Activity	2023
URL	https://www.smbe2023.org/

Description	Outreach talk (Langwith Bassett Garden Club)
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Public/other audiences
Results and Impact	An evening presentation and open discussion with a community hobby group (gardening club) about single-cell biology, and the work of our group and Institute. This was a 45-min presentation followed by Q&A and open discussion around the role of single-cell biology techniques in health and disease, envionmental protection, food security and gave a diverse and demographically wide-ranging audience an opportunity to find out more about what science we are doing and how this can help them, and society in general.
Year(s) Of Engagement Activity	2024

Description	PacBio webinar - Characterisation of transcript regulation in iPSCs and derived neuronal lineages
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Regional
Primary Audience	Professional Practitioners
Results and Impact	Presentation at a webinar organised by PacBio on the use of novel libraries prep
Year(s) Of Engagement Activity	2024

Description	Panel Member - Festival of Genomics 2025 - Anita Scoones
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	As panel member, this involved discussing the topic of "Overcoming Data Challenges of High Resolution (single cell) Biology". This was a 1hr discussion on stage, focusing in particular on data analysis of single cell data, but also including audience participation (Q&A and debates). It also sparked further discussions with other panel members afterwards, including plans to produce a review for publication in the near future.
Year(s) Of Engagement Activity	2025

Description	Poster Presentation - Muex: a method to identify novel microexons from long-read RNA sequence data - Kamil Hepak
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Poster presentation at the ISMB/ECCB 2023
Year(s) Of Engagement Activity	2023
URL	https://www.iscb.org/ismbeccb2023

Description	Poster at Norwich Cancer Research Network (NCRN) symposium 2024 - Single-cell and spatial transcriptomics analysis of megakaryocytes in the healthy bone marrow
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Professional Practitioners
Results and Impact	Poster at Norwich Cancer Research Network (NCRN) symposium 2024, attended by around 100 scientists.
Year(s) Of Engagement Activity	2024
URL	https://cancerresearchnorwich.org.uk/ncrn-symposium-2024-please-register/

Description	Poster presentation at Congress of the International Society for Forensic Science 2024.
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 Poster entitled ' Single-cell analysis in forensic science - the SCAnDi project'. The poster generated a number of discussions with conference attendees and later communications aided project method development.
Year(s) Of Engagement Activity	2024
URL	https://isfg2024.com/

Description	Poster presentation at the Molecular Haemopoiesis, 2024
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	250 researchers from around the world met to discuss most recent advance in molecular haematopoiesis and shared unpublished data.
Year(s) Of Engagement Activity	2024

Description	Presentation - Industry Engagement - FlowFI Feature design for gating and sorting of cells in flow cytometry
Form Of Engagement Activity	A formal working group, expert panel or dialogue
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Industry/Business
Results and Impact	Conversation with development team at BD Biosciences to establish academic-industry relationship regarding development of FlowFI software. This conversation has led to a furthering of relationship and greater engagement on integrating FlowFI into the BD hardware/software pipeline for imaging flow cytometry.
Year(s) Of Engagement Activity	2025

Description	Presentation - Invited Seminar - University College Dublin - Characterization of novel splicing events across tissues and during cellular differentiation
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Invited seminar at the School of Biology and Environmental Science University College Dublin
Year(s) Of Engagement Activity	2023

Description	Presentation - Invited seminar - Norwich Cancer Research Network
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Professional Practitioners
Results and Impact	Presentation of the CELLGEN ISP and Single cell genomics platform to the NCRN
Year(s) Of Engagement Activity	2024

Description	Presentation - Invited talk -BioIndustry Association - Genomics Advisory Committee - Characterisation of novel potential targets through the characterisation of novel splicing events
Form Of Engagement Activity	A formal working group, expert panel or dialogue
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Industry/Business
Results and Impact	Presentation as part of the Q1 genomics advisory committee meeting (BioIndusrty Association)
Year(s) Of Engagement Activity	2024

Description	Presentation - LongTrec meeting - Single cell sequencing with PACBIO
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Postgraduate students
Results and Impact	Presentation of library preparation and data analysis of single cell long read sequencing to graduate students as part of the Maric Curie LongTrec network
Year(s) Of Engagement Activity	2023

Description	Presentation - Nucleic Acids Therapy Accelerator
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Industry/Business
Results and Impact	Presentation to the research team of the Nucleic Acids Therapy Accelerator following meeting with Director at BIA meeting, discussion of interactions between NATA and EI, NATA showing interest in the platforms and services from EI. Discussion of potential collaborations with NATA around splicing regulation and setting up pilot projects
Year(s) Of Engagement Activity	2024

Description	Presentation - Oral Presentation - Activation Manifold of The Mouse Visual Cortex - Biological Complexity Group (University of Cambridge)
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Postgraduate students
Results and Impact	A presentation on the application of manifold theory to representation learning in the mouse visual cortex at The University of Cambridge, Department of Chemical Engineering and Biotechnology.
Year(s) Of Engagement Activity	2023

Description	Presentation - Oral Presentation - Annotation and characterisation of functional noncoding RNA - DARPA meeting
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Presentation in Boston as part of a DARPA initiative
Year(s) Of Engagement Activity	2023

Description	Presentation - Oral Presentation - Characterization of novel splicing events across tissues and during cellular differentiation - WCBR
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Presentation at the Winter Conference on Brain Research as part of the session Fostering Successful Partnerships Between Academia and Industry
Year(s) Of Engagement Activity	2024

Description	Presentation - Oral Presentation - Megakaryocyte Flow Cytometry Image Analysis - Image Analysis Across Domains Seminar (Alan Turing Institute)
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	A presentation to the Alan Turing Institute image analysis community showing early data from megakaryocyte flow cytometry experiments and requesting feedback and possible methodological approaches to determine how best to analyse the images produced by the project so far and in the future (e.g. from upcoming widefield spatial transcriptomics images).
Year(s) Of Engagement Activity	2024

Description	Presentation - Oral Presentation - Philosophical Implications of Physicalism for the Natural Sciences - Philosophy and History Seminar (Alan Turing Institute)
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Regional
Primary Audience	Professional Practitioners
Results and Impact	Start of a new seminar series on the interaction between the sciences, AI and humanities open to Alan Turing Institute employees and partner institutions (e.g. Roche pharmaceuticals and universities), aimed at fostering new understanding through interdisciplinary dialogue on foundational topics in these areas. The seminar was attended by a group of roughly 15 (including online and in person) with plans to deceminate to a wider group via a video recording (link not yet available). Talked fostered discussion and interest in the metaphysical and ethical consequences of philosophical naturalism.
Year(s) Of Engagement Activity	2024

Description	Presentation - Quantitative gene profiling of long noncoding RNAs with targeted RNA sequencing
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	Presentation to the LongTrec Consortium
Year(s) Of Engagement Activity	2023

Description	Presentation - Software Demonstration - Flow Cytometry Feature Importance (FlowFI) for high throughput cell analysis and sorting in imaging flow cytometry
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	This demonstration of our new cell feature and image analysis software for imaging flow cytometry has been accepted for the IEEE International Symposium on Biomedical Imaging as part of a competitive application process to showcase new software in the area of open and non-commercial software for biomedical imaging. This work directly resulted from the EI-ATI partnership in collaboration with the Wojtowicz group at EI.
Year(s) Of Engagement Activity	2025
URL	https://biomedicalimaging.org/2025/

Description	Presentation at EMBL EBI course - Data Driven Approaches to Understanding Dementia
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	Delivered scRNAseq data analyses training at EMBL EBI
Year(s) Of Engagement Activity	2024
URL	https://www.ebi.ac.uk/training/events/data-driven-approaches-understanding-dementia/#vf-tabs__sectio...

Description	Presentation at Festival of Genomics 2024
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	Invited speaker at Festival of Genomics, talk title: "Comparative analysis of long-read approaches for single-cell transcriptomics". Talk was presented on the main stage, and with over 5,000 event attendees the audience size exceeded 100 people. The presentation sparked questions and discussion afterwards.
Year(s) Of Engagement Activity	2024

Description	Presentation at Norwich Cancer research network
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Other audiences
Results and Impact	20 scientists attended the presentation on new methods and their applications and how to implement them in their own research.
Year(s) Of Engagement Activity	2024

Description	Presentation at Pint of Science 2024
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Public/other audiences
Results and Impact	Presentation at Pint of Science 2024 on single cell methods and haematology
Year(s) Of Engagement Activity	2024
URL	https://pintofscience.co.uk/event/cells-of-life

Description	Presentation at the Festival of Genomics and Biodata 2024
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Other audiences
Results and Impact	Presentation on RNA barcoding and its application to study the platelet biogenesis in different contexts. It sparked questions and the discussion on potential applications in other research groups and a potential interaction with the industrial partner.
Year(s) Of Engagement Activity	2024
URL	https://festivalofgenomics.com/london/en/page/home

Description	Presentation to the Kick-off meeting of LongTrec - Single cell sequencing on PACBIO
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	Attendance and presentation to the LongTrec kickoff meeting in Valencia
Year(s) Of Engagement Activity	2023

Description	Presentation, Pint of Science, Norwich
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	I gave the presentation on the effect of diet on the immune system function. It sparked questions about the food choices impacting our immunity, health and longevity.
Year(s) Of Engagement Activity	2023
URL	https://pintofscience.co.uk/events/norwich

Description	Quarterly Institution Strategic Programme Work package meetings
Form Of Engagement Activity	A formal working group, expert panel or dialogue
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Other audiences
Results and Impact	ISP work package meetings are hybrid and open to and involve all participants in the ISPs, including partners. The meetings include 1-3 oral presentations showcasing ongoing work and roundtable discussions on successes, barriers, and opportunities.
Year(s) Of Engagement Activity	2023,2024,2025

Description	Researcher visit from Rijksuniversiteit of Groningen, Groningen, Netherlands
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Professional Practitioners
Results and Impact	Seminar at EI on the history of clonal studies from bacteria to mammals, outlook into naturally occurring barcodes-possibilites and limitations. Discussion about new algorithms/pipelines to improve the analysis. Individual discussions on current practices and available pipelines. The activities were supported by EI's FTMA4 award (BB/X017761/1)
Year(s) Of Engagement Activity	2023

Description	Save the Banana! at the Norwich Science Festival
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 took an activity aimed at 4-10 year old children to Norwich Science Festival 2024. This activity was based around the De Vega group's work on banana genomics. Over the three days we attended the festival we engaged with more than 1000 children and feedback (measured via feedback forms) was very positive. Many participants did not know the Cavendish banana was under threat.
Year(s) Of Engagement Activity	2024

Description	Scandi, Trust and Triage project stakeholder meeting (London, Feb 2025)
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	Approximately 80 stakeholders from three UKRI funded projects (Scandi - this project - Trust and Triage) met in London to provide updates on project progress and to workshop ideas around project delivery.
Year(s) Of Engagement Activity	2025

Description	Single Cell LATAM Symposium 2024 - Anita Scoones
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Symposium organised for LATAM researchers to advance single-cell genomics through collaborative discussions and cutting-edge technological insights. This involved participants from countries across Latin America, and resulted in discussions of future international collaborations.
Year(s) Of Engagement Activity	2024
URL	https://coursesandconferences.wellcomeconnectingscience.org/event/single-cell-latam-symposium-connec...

Description	Single Cell RNAseq Bioinformatics Course (11-14 November 2024)
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	This in-person course provided a deep dive into single-cell genomics, for researchers who are in the early stages of planning a single-cell project. The course consisted of a mixture of conceptual and methodological lectures and hands-on bioinformatics sessions, including best practice and tips as learned first-hand by Earlham Institute's faculty. Participants gained first-hand experience by learning how to assess data quality with the guidance of the faculty, troubleshoot small problems, and review the results. Hands-on sessions used data generated using both Smartseq2 and 10X protocols, from both short- and long-read platforms. Registration for the course was offered on an open application basis with selection, with 23 applications resulting in 16 attendees. Demographics of attendees, 50% were from the UK, with participants also from France, Hungary, India, Iran, Spain and Turkey. The cohort was made up of 31% PhD students and 31% Post Docs, with the remainder 'Other', post-graduate students, and professors/PIs. 87.5% were based in academia, and 12.5% were from industry. Of the feedback received, 91% rated the trainers as Excellent and would recommend the course, and gave an overall quality rating of Very Good or Excellent.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/events/single-cell-rnaseq-bioinformatics-2024

Description	Single cell RNAseq training in Brazil 2023
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	First hands-on single cell RNAseq course held in Latin America. This was a 7-day immersive course organised by Wellcome Connecting Science (Sanger institute) in collaboration with the Instituto Nacional de Cancer (INCA, Rio de Janeiro) for 20 participants ranging from Postgraduate student to Principal Investigator level from countries in Latin America. The participants received in-depth training on how to generate single-cell RNAseq libraries and perform computational bioinformatic analyses of single cell data. I was recruited as 1 of 2 instructors to deliver and help organise the laboratory practicals of this course. The course was sucessful and will be repeated in 2024.
Year(s) Of Engagement Activity	2023

Description	Single-Cell RNAseq Laboratory (30 September - 03 October 2024)
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	This in-person, full-time, four-day course provided an introduction to Single Cell Genomics. It covered several aspects of single-cell workflows from experimental design to laboratory hands-on including cell sorting and processing for production of quality samples for sequencing, generation of sequencing data and introduced tools and metrics for assessing the data quality. Laboratory practical sessions involved cell sorting using FACS AriaFusion, including considerations for different cell types, preparation of samples for Smart-seq, library construction, QC and pooling, loading of the 10X instrument. Delegates had the opportunity to review sequencing reports to determine data quality, interpret library and pre-processing QC, understand the principles of producing matrices, and identify any filtering required. The course consisted of a mixture of conceptual lectures, methodological lectures, and hands-on sessions in the laboratory. All theory lectures and hands-on sessions included best practices and tips as learned first-hand by EI's own faculty. The course had 11 attendee, all from outside of the Norwich Research Park (one international, 10 based in the UK).The feedback for the Trainers, Overall Course Quality, and Overall Event Organisation all received 100% Excellent or Very Good rating for feedback received.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/events/single-cell-rnaseq-laboratory-2024

Description	Single-cell show and tell
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Professional Practitioners
Results and Impact	We organized the single-cell show and tell to showcase our equipment in the single-cell laboratories, talk about our workflows and provide some hands on lab experience to our colleagues within EI. We had 38 participants with different scientific and non-scientific backgrounds. The feedback was very positive, and most people would like to see other groups organize similar events.
Year(s) Of Engagement Activity	2023

Description	Single-cell show-and-tell: Activity based tours of the EI single-cell labs
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Professional Practitioners
Results and Impact	40 staff from EI were given an interactive tour of the single-cell labs. We introduced them to the different platforms and concepts behind single-cell analysis. We hosted staff from operations, communications, business development and faculty, all staff at EI were invited. The event stimulated questions and discussion about both the biology and technology associated with single cell work.
Year(s) Of Engagement Activity	2023

Description	Spatial Transcriptomics in Plants Workshop May 2024
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Postgraduate students
Results and Impact	tba
Year(s) Of Engagement Activity	2024

Description	Spatial transcriptomics in plants workshop
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Postgraduate students
Results and Impact	I planned, created and delivered the workshop taking 11 participants from different universities through the hands-on sample preparation for spatial transcriptomics. Vizgen attended and contributed too, with talks from them about each stage of the protocol, how the MERFISH technology and Merscope instrument work, as well as what was possible from the analysis. All delegates are either in a position to start transcriptomics projects through the groups NBRI service provision or are talking about writing grants to fund this work. Therefore, the income is massive in financial terms. Another big impact is that its the first of its kind in plant spatial transcriptomics in the UK, therefore, it has started a network of users with similar interests with the knowledge that myself and members of the group are here to be able to assist there project queries.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/events/spatial-transcriptomics-plants-workshop

Description	Speed-networking (Sir Isaac Newton Sixth Form)
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 full day of rotation speed-networking where sixth form students are given the opportunity to engage with industry specialists across a range of informatic related careers. My role here was showcasing the role of a bioinformatician and the work of the institute. This was attended by all students at the sixth form college who are undertaking IT qualifications and thinking about university and career options.
Year(s) Of Engagement Activity	2022,2023

Description	Speed-networking (Sir Isaac Newton Sixth Form)
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 speed-networking event for A-level students at Sir Isaac Newton Sixth Form, in Norwich. This was focussed on student taking Computational Science and other STEM subjects and aimed to provide them insight into career choices, career paths, and options available to them with their chosen areas of study.
Year(s) Of Engagement Activity	2024

Description	Sphere Fluidics -Cambridge
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	Regional
Primary Audience	Professional Practitioners
Results and Impact	PDRA, RA and Group Leader engaged with the industry-Sphere Fluidics to optimise bespoke microfluidc assays using their equipment. Obtained preliminary data for a grant application. The activities were supported by EI's FTMA4 award (BB/X017761/1)
Year(s) Of Engagement Activity	2023

Description	Stakeholder meeting, SCaNDi project (Norwich) November 2024
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	Assess project progress and engage with stakeholders eg Home Office, to ensure outcomes provide maximum benefit. Further engagement activities in schools relating to forensic science.
Year(s) Of Engagement Activity	2024

Description	Sustainable Enhancement of Plant Productivity with Precision Genomics (SEP3G)
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Other audiences
Results and Impact	The purpose of the symposium on "Sustainable Enhancement of Plant Productivity with Precision Genomics" is to harness the power of cutting-edge genetic, genomics and biotechnology to improve the growth, yield, and overall sustainability of plant-based agriculture. The SEP3G symposium will serve as a critical platform joining academia and industry representatives with different, albeit complementary backgrounds and level of experience from UK, Europe and Japan, and it will be a catalyst for the exchange of ideas, collaboration, and the acceleration of scientific endeavours.
Year(s) Of Engagement Activity	2023
URL	https://www.royalholloway.ac.uk/research-and-teaching/departments-and-schools/biological-sciences/ev...

Description	Talk at Cambridge Café Synthetique: synthetic biology for global challenges
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Regional
Primary Audience	Postgraduate students
Results and Impact	Café Synthetique is the monthly meetup for the Cambridge synthetic biology community with informal talks, discussion and pub snacks. This month we are focusing on synthetic biology for global challenges. How can synthetic biology and other emerging and high tech solutions be applied impactfully and equitably to improve the lives of the world's bottom billion? We gave a talk about Redesigning and Accelerating Biology with Robots: Meet the Earlham Biofoundry!
Year(s) Of Engagement Activity	2024
URL	https://www.engbio.cam.ac.uk/events/cafe-synthetique-2

Description	Talk at the Single-Cell RNAseq Bioinformatics Course 2024
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	Gave a presentation as part of the Single-Cell RNAseq Bioinformatics course 2024 at Earlham Institute.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/events/single-cell-rnaseq-bioinformatics-2024

Description	Talk on Single Cell Long Read Sequencing at Northumbria PacBio Revio Launch Day 2023
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Postgraduate students
Results and Impact	In-person presentation on single cell long read sequencing at Northumbria University. The event consisted of talks from genomics scientists using HiFi reads for applications such as metagenomics, human whole genome sequencing, and single-cell sequencing, along with Q&A and networking opportunities with speakers and sequencing experts .
Year(s) Of Engagement Activity	2023
URL	https://programs.pacb.com/l/1652/2023-07-27/442l22

Description	Technology Networks - Genome Research - Article
Form Of Engagement Activity	A magazine, newsletter or online publication
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	Interview - Decoding Living Systems One Cell at a Time - https://www.technologynetworks.com/genomics/articles/decoding-living-systems-one-cell-at-a-time-390894
Year(s) Of Engagement Activity	2024
URL	https://www.technologynetworks.com/genomics/articles/decoding-living-systems-one-cell-at-a-time-3908...

Description	UKRI FLF Pathway Crucibles in Leeds
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Other audiences
Results and Impact	30 researchers from across the UK attended a UKRI FLF crucibles event to foster interdiscliplinary collaborations with pump priming for proof-of-concept studies.
Year(s) Of Engagement Activity	2023
URL	https://www.flfdevnet.com/

Description	UKRI FLF Pathway Leadership Retreat in Bristol
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Other audiences
Results and Impact	30 national researchers attended a UKRI led leadership retreat with the goal of developing effective management and leadership skills, and fostering wider collaborations.
Year(s) Of Engagement Activity	2023
URL	https://www.flfdevnet.com/

Description	Using new technology to explore the tiniest of worlds
Form Of Engagement Activity	Engagement focused website, blog or social media channel
Part Of Official Scheme?	No
Geographic Reach	National
Primary Audience	Professional Practitioners
Results and Impact	We wrote an article about the work of a PhD student in applying the latest technologies to explore microbiomes, which is connected to (though not funded by) our Cellular Genomics ISP. The piece highlighted our expertise and celebrated the work of a student, as well as the technology-driven science we are innovating with.
Year(s) Of Engagement Activity	2024
URL	https://www.earlham.ac.uk/articles/using-new-technology-explore-tiniest-worlds

Description	Visit from NNUH clinicians to the Earlham Institute on 19 June 2023
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Professional Practitioners
Results and Impact	BDI team and IM of the Earlham Institute organised the visit from NNUH clinicians to the Earlham Institute. We held a workshop for researchers and clinicians to discuss their interests in developing potential collaborative projects that would utilise earlham expertise and capabilities and NNUH access to patients and patient data, and to the Norwich Biorepository.
Year(s) Of Engagement Activity	2023

Description	Webinar 'Ask the PI' organised by International Society of Experimental Hematology (ISEH)
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	Small-group setting offers the perfect opportunity for trainees to learn about career transitions, gain expert insight, and build valuable connections.The event consisted of three rounds of breakout sessions, where participants got to meet and engage with multiple Junior Faculty for personalized conversations and insights on navigating their path to independence.
Year(s) Of Engagement Activity	2024
URL	https://www.iseh.org/page/2024NICAskthePIs

Description	Webinar: Optimizing Challenging Sample Types on the Merscope® Platform
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	Webinar about our experience using the Vizgen platform for spatial transcriptomics Merscope, with focus on challenging samples. Different research groups contacted EI after the webinar showing interest about the service provision side of our experience with Merscope.
Year(s) Of Engagement Activity	2024
URL	https://global-engage.com/product/optimizing-challenging-sample-types-on-the-merscope-platform/

Description	Women in Wheat
Form Of Engagement Activity	Participation in an activity, workshop or similar
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Study participants or study members
Results and Impact	The Women in Wheat workshop run by Diane Saunders and other JIC staff, was a 2 day event to boost confidence, leadership skills, writing, chairing, CV writing and online profiles for the career development of women in wheat research.
Year(s) Of Engagement Activity	2024

Description	Workshop for MRes students in Genomics and Evolution
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	Local
Primary Audience	Undergraduate students
Results and Impact	Workshop on capabilities enabled by single cell genomics, discussion of a selected scientific article. Critical assessment of the strengths and weaknesses of performed experiments.
Year(s) Of Engagement Activity	2023

Description	https://www.earlham.ac.uk/news/earlham-institute-BBSRC-funding-award-2023
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	Professional Practitioners
Results and Impact	We issued a press release to mark the 5-year funding award from BBSRC, which supports the Earlham Institute, ISPs, and NBRIs. We secured widespread regional media coverage, including BBC Look East and online, ITV Anglia, and the EDP. The feedback from BBSRC on this coverage was very positive, particularly due to competing stories on life science funding. The launch campaign received around 28.5k impressions and 1,000 engagements across social media platforms, with the launch tweet achieving 330 engagements on its own. The majority of ISP partners engaged either by sharing ours posts or publishing their own messages, which included Kew Science, UK CEH, Eagle Genomics, and PacBio.
Year(s) Of Engagement Activity	2023
URL	https://www.earlham.ac.uk/news/earlham-institute-BBSRC-funding-award-2023

Description	poster at the Synthetic Biology UK 2023 conference
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	A poster titled "Conservation and divergence of nitrate-responsive gene circuits: A framework for targeted engineering of nitrogen use efficiency in plants" was presented at Synthetic Biology UK 2023 conference.
Year(s) Of Engagement Activity	2023
URL	https://www.eventsforce.net/biochemsoc/frontend/reg/thome.csp?pageID=91866&eventID=178&traceRedir=2

Description	poster at the Synthetic Biology UK 2024 conference
Form Of Engagement Activity	A talk or presentation
Part Of Official Scheme?	No
Geographic Reach	International
Primary Audience	Professional Practitioners
Results and Impact	A poster titled "Elucidation and targeted engineering of plant nitrate-responsive gene circuits" was presented at Synthetic Biology UK 2024 conference.
Year(s) Of Engagement Activity	2024
URL	https://www.eventsforce.net/biochemsoc/frontend/reg/thome.csp?pageID=108029&eventID=204