Changes in gut microbe-host interactions and their impact beyond the gut
Lead Research Organisation:
QUADRAM INSTITUTE BIOSCIENCE
Department Name: UNLISTED
Abstract
Abstracts are not currently available in GtR for all funded research. This is normally because the abstract was not required at the time of proposal submission, but may be because it included sensitive information such as personal details.
Technical Summary
The intestinal microbiota is resilient to change, with alterations in community composition and activity occurring as a result of exposure to various environmental factors and insults such as diet, drugs (antibiotics), infection, surgery and lifestyle. Such changes are being increasingly associated with a number of chronic diseases including those affecting organ systems such as the liver, musculoskeletal system and the brain. In particular, there is an increasing appreciation of the role gut microbes play in influencing liver function and central metabolism (the gut-microbiome-liver axis) and brain development and function (the gut-microbiome-brain axis), which may provide future treatments for serious degenerative diseases. Key observations linking the gut microbiome to mental health and chronic age-related neurodegenerative conditions include demonstrating a relationship between diet-related changes in the gut microbiota and altered cognitive flexibility, the ability of key microbial metabolites to influence the physiology of the blood brain barrier, and alterations in neurotransmitter production by gut bacteria. However, the majority of studies to date suffer from being correlative and providing few mechanistic insights. The expertise and track record in commensal microbiology and gut and liver physiology of QIB-based research leaders and in the enteric nervous (ENS) and endocrine (ES) systems provided by our HEI-based partners, provides the skills, expertise and experimental systems required to undertake the mechanistic studies necessary to define the relationship between gut microbes and other organ systems central to human health.
Theme 2 will address how changes in microbiota-host interactions in the gut impact on the functionality of other organ systems including the liver and the brain.
This theme involves a 360-participant longitudinal population based study of age-associated changes in the intestinal microbiome in elderly individuals stratified according to their risk of developing dementia.
Theme 2 Outputs To provide:
(1) an improved mechanistic understanding of the bidirectional interactions occurring at the mucosal interface in the ageing gut to help develop strategies that
improve intestinal barrier function.
(2) new multiscale models of the dynamics of the gut system and of the microbiota. (3) new, systems-level and mechanistic insights into how ageing influences the
microbiota and its role in endocrine and neuronal signalling pathways.
(4) establish links between the intestinal microbiome and age-associated declines in mental health.
Theme 2 will address how changes in microbiota-host interactions in the gut impact on the functionality of other organ systems including the liver and the brain.
This theme involves a 360-participant longitudinal population based study of age-associated changes in the intestinal microbiome in elderly individuals stratified according to their risk of developing dementia.
Theme 2 Outputs To provide:
(1) an improved mechanistic understanding of the bidirectional interactions occurring at the mucosal interface in the ageing gut to help develop strategies that
improve intestinal barrier function.
(2) new multiscale models of the dynamics of the gut system and of the microbiota. (3) new, systems-level and mechanistic insights into how ageing influences the
microbiota and its role in endocrine and neuronal signalling pathways.
(4) establish links between the intestinal microbiome and age-associated declines in mental health.
Planned Impact
unavailable
Organisations
- QUADRAM INSTITUTE BIOSCIENCE (Lead Research Organisation)
- University of Glasgow (Collaboration)
- BioDonostia Health Research Institute (Collaboration)
- University of Toronto (Collaboration)
- University of Virginia (UVa) (Collaboration)
- University Medical Center Freiburg (Collaboration)
- IMPERIAL COLLEGE LONDON (Collaboration)
- University of Leuven (Collaboration)
- Lanzhou Veterinary Research Institute (Collaboration)
- UNIVERSITY OF EAST ANGLIA (Collaboration)
- EMBL European Bioinformatics Institute (EMBL - EBI) (Collaboration)
- Eagle Genomics Ltd (Collaboration)
- UNIVERSITY OF KENT (Collaboration)
- UNIVERSITY OF LIVERPOOL (Collaboration)
- State University of Campinas (Collaboration)
Publications
A James S
(2020)
Preterm Infants Harbour a Rapidly Changing Mycobiota That Includes Candida Pathobionts.
in Journal of fungi (Basel, Switzerland)
Aktar R
(2020)
Human resident gut microbe Bacteroides thetaiotaomicron regulates colonic neuronal innervation and neurogenic function.
in Gut microbes
Alghamdi A
(2020)
NRP2 as an Emerging Angiogenic Player; Promoting Endothelial Cell Adhesion and Migration by Regulating Recycling of a5 Integrin
in Frontiers in Cell and Developmental Biology
Andrighetti T
(2020)
MicrobioLink: An Integrated Computational Pipeline to Infer Functional Effects of Microbiome-Host Interactions.
in Cells
Bahram M
(2019)
Newly designed 16S rRNA metabarcoding primers amplify diverse and novel archaeal taxa from the environment.
in Environmental microbiology reports
Bahram M
(2020)
Plant nutrient-acquisition strategies drive topsoil microbiome structure and function
in New Phytologist
| Title | Additional file 1 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 1. Selection of donors. We carried out metabolomics analysis of the intestinal luminal contents aged (red) and young (green) mice; germ-free mice were used here as control for the metabolomic profile (blue). Using 1H-NMR to profile luminal metabolites we were able to obtain insights into microbiota metabolism and function that can only be inferred from metagenomics or transcriptomics approaches. Using Principal Component Analysis to compare and contrast 89 metabolites (including amino acids, organic acids, sugars, nucleosides, short chain fatty acids, etc.) clear separations of the metabolic profile detected in germ free (GF) and conventionalised adult and aged mice were apparent (PC1). Of particular relevance was the finding that young and aged mice housed under identical environmental conditions, were discriminated (PC2), confirming age-related changes in the profile of intestinal microbiota in mice. The aged donors displayed a higher degree of heterogeneity compared to young mice. Two donors from the aged population and three from the young cohort that were considered representative of the two populations were selected (circles) and used as donors for FMT. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_1_of_Faecal_microbiota_transplan... |
| Title | Additional file 13 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 13. (Schematic of the regions of the hippocampus). Schematic frontal section of a mouse hemibrain to show the regions were confocal images were acquired to measure the GFAP and F4/80 fluorescence intensities. Images were taken from the dentate gyrus (DG), and from the CA4 and CA3 regions of the hippocampal gyrus (GFAP immunofluorescence) at -1.9 mm from the bregma. Images of the fimbria (F4/80 immunofluorescence) were acquired at -1.4 mm from the bregma. Lat ventr = lateral ventricule; cc = corpus callosum. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_13_of_Faecal_microbiota_transpla... |
| Title | Additional file 14 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 14. GFAP western blotting. Polyacrylamide (10%) gel stained with blue Coomassie with a representative image of molecular weight marker with relevant kDa (a). GAPDH visualized bands and merged with nitrocellulose membrane (b). GFAP visualized bands and merged with nitrocellulose membrane (c). In (d) a representative histogram shows levels of analysed protein both in FMT-Y and FMT-A treated and control animals. Lane 1 (positive control, DITNC1 astrocyte-derived cell line); lane 2 (negative control, BV-2 microglial cell line); lane 3 (aged mouse hippocampal proteins); lane 4 (adult mouse hippocampal protein); lane 5 (MT-aged hippocampal proteins); lane 6 (MT-adult hippocampal proteins). GFAP protein was detected approximately at 55 kDa (right blots). GAPDH (37 kDa) was used as housekeeping (left panel). Molecular weight (mw) used was SHARPMASS VII. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_14_of_Faecal_microbiota_transpla... |
| Title | Additional file 15 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 15. F4/80 western blotting. Polyacrylamide (8%) gel stained with blue Coomassie with a representative image of molecular weight marker with relevant kDa (a). GAPDH visualized bands and merged with nitrocellulose membrane (b). F4/80 visualized bands and merged with nitrocellulose membrane (c). In (d) a representative histogram shows levels of analysed protein both in FMT-Y and FMT-A treated and control animals. Lane 1 (Negative control, RBE4 brain endothelial cell line); lane 2 (positive control, BV-2 microglial cell line); lane 3 (aged mouse hippocampal proteins); lane 4 (adult mouse hippocampal protein); lane 5 (MT-aged hippocampal proteins); lane 6 (MT-adult hippocampal proteins). F4/80 protein was detected approximately at 160 kDa (right blots). aTubulin (52 kDa) was used as housekeeping (left panel). Molecular weight (mw) used was SHARPMASS VII. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_15_of_Faecal_microbiota_transpla... |
| Title | Additional file 16 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 16. Summary of FMT procedure. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_16_of_Faecal_microbiota_transpla... |
| Title | Additional file 3 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 3. Post-FMT quantitative analysis of proteins in the hippocampus. Volcano plot of quantified proteins in hippocampus tissue (A). Differentially regulated proteins due to faeces from aged mice transplanted into adult mice (T) versus faeces from adult mice transplanted into adult age-matched mice (C) are showed (T/C). The proteins in red are up regulated and in green down regulated. Scatter Plot of protein intensities (B) obtained by label free quantitation by MaxLFQ in MAxQuant, showing the Person correlation coefficients between biological and technical replicates of analysed samples. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_3_of_Faecal_microbiota_transplan... |
| Title | Additional file 4 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 4. Western Blot analysis for MAPT in the hippocampus of FMT-treated mice. Polyacrylamide (12%) gel stained with blue Coomassie with a representative image of molecular weight marker with relevant kDa (a). GAPDH visualized bands and merged with nitrocellulose membrane (b). Mapt visualized bands and merged with nitrocellulose membrane (c). In (d) a representative histogram shows levels of analysed protein both in FMT-Y and FMT-A treated and control animals. Lane 1 (positive control, SH-SY5Y cell line); lane 2 (negative control, H292 cell line); lane 3 (aged mouse hippocampal proteins); lane 4 (adult mouse hippocampal protein); lane 5 (FMT-aged hippocampal proteins); lane 6 (FMT-adult hippocampal proteins). Mapt protein was detected approximately at 50 kDa (right blots). GAPDH (37 kDa) was used as housekeeping. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_4_of_Faecal_microbiota_transplan... |
| Title | Additional file 5 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 5. Western Blot analysis for RTCB in the hippocampus of FMT-treated mice. Polyacrylamide (12%) gel stained with blue Coomassie with a representative image of molecular weight marker with relevant kDa (a). GAPDH visualized bands (panel b, left) and merged with nitrocellulose membrane (panel b, right). Rtcb visualized bands (panel c, left) and merged with nitrocellulose membrane (panel c, right). In (d) representative histogram shows levels of analysed protein both in FMT-Y and FMT-A treated and control animals. Lane 1 (positive control, SH-SY5Y cell line); lane 2 (negative control, mouse adipose tissue); lane 3 (aged mouse hippocampal proteins); lane 4 (adult mouse hippocampal protein); lane 5 (MT-aged hippocampal proteins); lane 6 (MT-adult hippocampal proteins). Rtcb protein was detected approximately at 56 kDa (right blots). GAPDH (37 kDa) was used as housekeeping (left panel). Molecular weight (mw) used was SHARPMASS VII. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_5_of_Faecal_microbiota_transplan... |
| Title | Additional file 7 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 7. Ingenuity pathway analysis (IPA). IPA analysis of the significantly up- and down-regulated proteins (after Bonferroni analysis) for faeces from aged donors transplanted in adult mice versus faeces from adult donors transplanted into adult age-matched mice, in hippocampus tissue. The circles represent the main network node and the blue colour the significantly down regulated. The up-regulated proteins are marked in red, while those that that were down-regulated are marked in green. |
| Type Of Art | Image |
| Year Produced | 2020 |
| URL | https://springernature.figshare.com/articles/figure/Additional_file_7_of_Faecal_microbiota_transplan... |
| Description | • We demonstrated the causal role of the microbiome in progression of cholestatic liver disease and defined the key role of macrophages in regulating intestinal permeability during liver disease and more specifically, demonstrated that inhibition of the inflammasome, a key mediator of macrophage activation, could be used therapeutically to preserve intestinal barrier function and treat liver disease. • We created the first regulatory map (network) for Paneth cells and goblet cells, both of which are key for intestinal homeostasis; they cannot be investigated in cell culture so we studied them in three-dimensional cellular masses called organoids as models. • We demonstrated that Bacteroides thetaiotaomicron, a common gut bacterium, is critical in regulating enteric neuronal and enteroendocrine cell populations, and neurogenic colonic activity. • We provided first insights into how R. gnavus may influence brain regulation and function through modulation of granule cell development and synaptic plasticity in the adult hippocampus. This work has implications for further understanding the mechanisms underpinning the role of R. gnavus in neurological disorders. |
| Exploitation Route | Undertaking pre-clinical studies to optimise therapeutic intervention protocols in model systems relevant to providing the evidence and data required to justify and support first in man studies and clinical trials. |
| Sectors | Pharmaceuticals and Medical Biotechnology |
| Description | Our research on outer membrane vesicles (OMVs) produced by B. thetaiotaomicron has led to the creation of tools essential for genetic manipulation of these commensal bacteria and a novel bacteria-derived biologics delivery platform that can prevent and treat intestinal inflammation and be used for mucosal delivery of vaccine antigens. |
| First Year Of Impact | 2020 |
| Sector | Pharmaceuticals and Medical Biotechnology,Other |
| Description | Advanced in vivo Skills Training Award |
| Amount | £14,600 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 03/2020 |
| End | 09/2023 |
| Description | BBSRC Enhanced Research Skills Training award |
| Amount | £7,400 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2021 |
| End | 09/2024 |
| Description | BBSRC IAA |
| Amount | £12,143 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2021 |
| End | 02/2022 |
| Description | BBSRC IAA |
| Amount | £6,522 (GBP) |
| Funding ID | BB/S506679/1 |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 03/2019 |
| End | 07/2019 |
| Description | BBSRC IAA |
| Amount | £10,377 (GBP) |
| Funding ID | BB/S506679/1 |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 01/2021 |
| End | 05/2021 |
| Description | BBSRC IAA - Online Bioinformatics Training |
| Amount | £7,610 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 01/2022 |
| End | 03/2022 |
| Description | BBSRC IAA High Quality Yeast Genomes with Nanopore |
| Amount | £5,407 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 01/2022 |
| End | 03/2022 |
| Description | BBSRC ITAS International Travel Award Scheme |
| Amount | £3,000 (GBP) |
| Organisation | Quadram Institute Bioscience |
| Sector | Academic/University |
| Country | United Kingdom |
| Start | 09/2021 |
| End | 10/2021 |
| Description | Biotechnology and Biological Sciences Research Council (BBSRC): - DTP Doctoral Training Partnership (2019-2023) |
| Amount | £80,000 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2019 |
| End | 09/2023 |
| Description | Biotechnology and Biological Sciences Research Council (BBSRC): - DTP Doctoral Training Partnership (2020-2024) |
| Amount | £80,000 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2020 |
| End | 09/2024 |
| Description | CARDING_Q20CASE: The gut microbiome and inflammaging |
| Amount | £150,000 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2020 |
| End | 09/2024 |
| Description | DTP Doctoral Training Partnership |
| Amount | £80,000 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2017 |
| End | 10/2021 |
| Description | Deciphering the contributions of neuropilin-2 and a5ß1-integrin during angiogenesis |
| Amount | £103,000 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2018 |
| End | 09/2022 |
| Description | Defining the Immunological Cellular Atlas of Primary Sclerosing Cholangitis |
| Amount | £200,000 (GBP) |
| Funding ID | 225481/Z/22/Z |
| Organisation | Wellcome Trust |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 09/2021 |
| End | 09/2024 |
| Description | Diätetische Beeinflussung des Darm-Mikrobiomes bei der Parkinson Krankheit |
| Amount | € 11,200 (EUR) |
| Organisation | Hilde-Ulrichs-Stiftung für Parkinsonforschung |
| Sector | Charity/Non Profit |
| Country | Germany |
| Start | 05/2019 |
| End | 03/2020 |
| Description | EDESIA DTP |
| Amount | £200,000 (GBP) |
| Organisation | Wellcome Trust |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 08/2021 |
| End | 09/2024 |
| Description | EDESIA: Plants, Food and Health: a cross-disciplinary PhD programme from Crop to Clinic |
| Amount | £5,308,212 (GBP) |
| Funding ID | 218467/Z/19/Z |
| Organisation | Wellcome Trust |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 09/2020 |
| End | 09/2024 |
| Description | EXPLORING THE HUMAN BRAIN MICROBIOME IN PARKINSON'S DISEASE |
| Amount | € 16,000 (EUR) |
| Organisation | ParkinsonFonds Deutschland |
| Sector | Charity/Non Profit |
| Country | Germany |
| Start | 03/2019 |
| End | 03/2020 |
| Description | EkoEvo Collaboration |
| Amount | £1,000 (GBP) |
| Organisation | Ecology and Evolutionary Biology Community of Turkey |
| Sector | Learned Society |
| Start | 05/2020 |
| End | 06/2020 |
| Description | Evolution of pro- and eukaryotic commensals within the human gut |
| Amount | € 1,500,000 (EUR) |
| Funding ID | 948219 |
| Organisation | European Commission H2020 |
| Sector | Public |
| Country | Belgium |
| Start | 02/2021 |
| End | 02/2026 |
| Description | Exploration of mucosal microbiomes |
| Amount | £8,900 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 01/2023 |
| End | 03/2023 |
| Description | How a complex angiogenic network is governed to deliver vascular development and health |
| Amount | £317,557 (GBP) |
| Funding ID | PG/22/11033 |
| Organisation | British Heart Foundation (BHF) |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 09/2022 |
| End | 09/2025 |
| Description | ICEP2 |
| Amount | £4,000,000 (GBP) |
| Funding ID | C18281/A29019 |
| Organisation | Cancer Research UK |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 11/2020 |
| End | 10/2022 |
| Description | Integrated Models of the Human Gut- Capital Grant Award for 2021/22 Investment Gateway Panel Business Cases. |
| Amount | £1,152,556 (GBP) |
| Organisation | Quadram Institute Bioscience |
| Sector | Academic/University |
| Country | United Kingdom |
| Start | 07/2021 |
| End | 03/2022 |
| Description | MMB DTP |
| Amount | £80,000 (GBP) |
| Organisation | Medical Research Council (MRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2023 |
| End | 09/2027 |
| Description | Mucosal microbiome exploration in patients with intestinal inflammation |
| Amount | £58,371 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 03/2022 |
| End | 03/2023 |
| Description | NRP DTP |
| Amount | £80,000 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2023 |
| End | 09/2027 |
| Description | Norwich Research Park Bioscience Doctoral Training Partnership |
| Amount | £100,000 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2016 |
| End | 09/2020 |
| Description | PoC funding |
| Amount | £15,000 (GBP) |
| Organisation | Quadram Institute Bioscience |
| Sector | Academic/University |
| Country | United Kingdom |
| Start | 02/2021 |
| End | 05/2021 |
| Description | Pushing the frontiers of in vivo microbial strain delineation and nucleotide evolution via metagenomics |
| Amount | £80,000 (GBP) |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 04/2020 |
| End | 05/2024 |
| Description | QIB Proof of Concept: |
| Amount | £7,000 (GBP) |
| Organisation | Quadram Institute Bioscience |
| Sector | Academic/University |
| Country | United Kingdom |
| Start | 03/2019 |
| End | 07/2019 |
| Description | RESTORE ME - FMT Clinical Trial |
| Amount | £620,000 (GBP) |
| Organisation | Invest in ME Research |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 08/2020 |
| End | 08/2023 |
| Description | ReStrain: Discovery of markers of a healthy gut microbiome through computational and experimental means (academic-industry collaboration) |
| Amount | £80,000 (GBP) |
| Funding ID | 2246539 |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 09/2019 |
| End | 09/2024 |
| Description | Role of LAP in controlling liver homeostasis |
| Amount | £566,929 (GBP) |
| Funding ID | BB/W002450/1 |
| Organisation | Biotechnology and Biological Sciences Research Council (BBSRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | 03/2022 |
| End | 01/2025 |
| Description | Role of the microbiome during cholestasis |
| Amount | £19,000 (GBP) |
| Funding ID | RGS\R1\191153 |
| Organisation | The Royal Society |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 03/2019 |
| End | 03/2020 |
| Description | The interplay of dietary polyphenols and gut microbiota in mammary tumourigenesis and metastasis |
| Amount | £95,300 (GBP) |
| Organisation | Big C Cancer Charity |
| Sector | Charity/Non Profit |
| Country | United Kingdom |
| Start | 09/2019 |
| End | 09/2022 |
| Title | Host-Microbe interaction workflow |
| Description | Integrated Computational workflow to infer the effect of bacterial proteins on host processes |
| Type Of Material | Improvements to research infrastructure |
| Year Produced | 2018 |
| Provided To Others? | No |
| Impact | Targeted interplay between bacterial pathogens and host autophagy. Sudhakar P, Claire-Jacomin A, Hautefort I, Samavedam S, Fatemian K, Ari E, Gul L, Demeter A, Jones E, Korcsmaros T and Nezis I. Autophagy 2019. (In Press). Host-Microbe interaction pipeline based on protein-protein interactions - applicable to single species and community wide microbial proteomic data. Sudhakar P, Andrighetti T, Gul L, Fazekas D, Korcsmaros T. (in preparation - to be submitted April 2019) |
| Title | QIB Best Practice in Microbiome Research |
| Description | The website contains freely accessible protocols developed and optimised for microbiome studies, and these will be updated to keep pace with the rapidly evolving field of microbiome research. |
| Type Of Material | Improvements to research infrastructure |
| Year Produced | 2021 |
| Provided To Others? | Yes |
| Impact | Interest in the website has led to two research collaborations with QIB providing microbiome analysis expertise and support for UKRI funded projects, including BBSRC funded PROX-ED project (led by Queens Univ. Belfast) and MRC funded NuTrIoM (led by Southampton Univ.) human intervention studies/clinical trials |
| URL | https://quadram.ac.uk/best-practice-in-microbiome-research/ |
| Title | Systems biology of gut organoids |
| Description | Since its first publication in 2009, the in vitro organoid model has been recognized as a major technological breakthrough tool in many basic biology and clinical applications. Organoids are near-physiological 3D model systems that facilitate studying a range of in vivo biological processes including cell differentiation, antimicrobial peptide production, host-microbe interactions and cell-cell communications. Organoids can also used to examine the effect of certain mutations by generating organoids from transgenic mice strains. The key aim of this joint project is to perform 'omics analyses of the generated organoids, examine the differences between cell-types and disease conditions using computational approaches, as well as generate and validate testable hypotheses regarding the affect of the identified functional differences. |
| Type Of Material | Model of mechanisms or symptoms - in vitro |
| Year Produced | 2017 |
| Provided To Others? | No |
| Impact | In the last 12 months we 1) performed proteomics analysis of the organoids that allowed to identify biomedically relevant and scientifically interesting differences ; 2) tested and established a protocol/pipeline to perform RNAseq and microRNA profiling at Earlham Institute. ; 3) Our in silico analysis of the proteomic datasets also confirmed the differentiated organoids do express proteins expected for the given cell types (e.g., enzymes important in peptide synthesis in Paneth cell differentiated organoids). By analysing interaction data we interestingly pointed out that autophagy (cellular self-eating) could degrade many of the cell-specific key proteins. ATG16L1 is an autophagy protein involved in selecting proteins for autophagy-driven degradation, and it also contributes to the general autophagy process.; 4) In a second series of experiments we have generated organoids from the intestine of mice generated at UEA that lack expression of Atg16L1 specifically in intestinal epithelial cells (Atg16L1 dIEC). The proteomic profiles of these autophagy deficient Paneth cell and goblet cell organoids were also carried out at the University of Liverpool. Strikingly, when we analysed the proteins whose protein levels differed in the autophagy deficient background, we found several of them are known or predicted to be degraded through autophagy. In Paneth cell organoids, the functional analysis of those proteins whose level was significantly higher in the ATG16L1 knock-out background (potentially as they have not been degraded properly) pointed out their importance in 'acute inflammatory response', 'immune response', 'negative regulation of gene expression', and 'protein processing'. This list indicates that autophagy malfunction negatively affects protein (antimicrobial peptide) production as well as deregulates inflammatory responses. Failure of these process are well known for Paneth cells in Crohn's disease but so far they have not been connected directly with autophagy malfunction. We found similar results for the mucosa producing goblet cells. To confirm these findings, we will directly examine some affected key functions using organoids. Reference: Integrative analysis of Paneth cell proteomic and transcriptomic data from intestinal organoids reveals functional processes dependent on autophagy. Emily Jones*, Zoe Matthews*, Lejla Gul*, Padhmanand Sudhakar, Agatha Treveil, Devina Divekar, Jasmine Buck, Tomasz Wrzesinski, Matthew Jefferson, Stuart Armstrong, Lindsay Hall, Alastair Watson, Simon Carding, Wilfried Haerty, Federica Di Palma, Ulrike Mayer, Penny Powell, Isabelle Hautefort, Tom Wileman, Tamas Korcsmaros. Disease Models and Mechanisms 2019. http://dmm.biologists.org/content/early/2019/02/26/dmm.037069. (* joint first authors) |
| Title | Additional file 11 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 11. Metabolome-proteome correlation (Pearson) . |
| Type Of Material | Database/Collection of data |
| Year Produced | 2020 |
| Provided To Others? | Yes |
| URL | https://springernature.figshare.com/articles/dataset/Additional_file_11_of_Faecal_microbiota_transpl... |
| Title | Additional file 12 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 12. Cytokine levels in the hippocampi. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2020 |
| Provided To Others? | Yes |
| URL | https://springernature.figshare.com/articles/dataset/Additional_file_12_of_Faecal_microbiota_transpl... |
| Title | Additional file 2 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 2. List of protein evaluated by free-label proteomics. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2020 |
| Provided To Others? | Yes |
| URL | https://springernature.figshare.com/articles/dataset/Additional_file_2_of_Faecal_microbiota_transpla... |
| Title | Additional file 6 of Faecal microbiota transplant from aged donor mice affects spatial learning and memory via modulating hippocampal synaptic plasticity- and neurotransmission-related proteins in young recipients |
| Description | Additional file 6. Raw data for the cognitive and behavioural tests (XLS file). |
| Type Of Material | Database/Collection of data |
| Year Produced | 2020 |
| Provided To Others? | Yes |
| URL | https://springernature.figshare.com/articles/dataset/Additional_file_6_of_Faecal_microbiota_transpla... |
| Title | Autophagy Regulatory Network |
| Description | A manually curated dataset of autophagy components and their interactions. Integrated resource with known protein regulators of autophagy. Contains possible transcriptional and post-transcriptional regulators (ie., transcription factors and miRNA) of autophagy and its protein regulators. Links all autophagy component and regulators to major signaling pathways. Predict novel regulators and interactions. Can be downloaded in a user-specified content and format. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2015 |
| Provided To Others? | Yes |
| Impact | Autophagy Regulatory Network - a systems-level bioinformatics resource for studying autophagy components and their regulation (2015). Türei D, Földvári-Nagy L, Fazekas D, Módos D, Kubisch J, Kadlecsik T, Demeter A, Lenti K, Csermely P, Vellai T, Korcsmáros T. Autophagy, 11(1):155-165. - 26 citations |
| URL | http://autophagyregulation.org |
| Title | Paneth cell, stem cell - Salmonella infection transcriptomics data |
| Description | We orally infected mice with GFP-tagged Salmonella, and then isolated small intestinal crypts, containing Paneth cells and stem cells. We also did the same for uninfected (control) mice. Follwoing the cell isolation, we sorted the cells for those that were GFP positive (contained Salmonella). Then we generated a transcriptomics profile of Paneth cells directly infected with Salmonella; stem cells directly infected with Salmonella; Paneth cells not directly infected with Salmonella but cells from the infected mice; stem cells not directly infected with Salmonella but cells from the infected mice as well as Paneth cells and stem cells from the control mice. |
| Type Of Material | Database/Collection of data |
| Year Produced | 2019 |
| Provided To Others? | No |
| Impact | The data now enables us to identify transcriptomics changes in host cells directly or indirectly infected by Salmonella. Also, we can now test Salmonella mutants and compare those gene expression profiles with this wild-type Salmonella induced changes. |
| Title | SalmoNet2.0 |
| Description | An integrated network resource containing regulatory, metabolic and protein-protein interactions For multiple Salmonella strains classified as gastro-intestinal or extra-intestinal pathogens An interaction resource with manually curated, high-throughput and predicted interactions Provides a strain specific and consensus networks Can be downloaded in a user-specified content and format |
| Type Of Material | Database/Collection of data |
| Year Produced | 2017 |
| Provided To Others? | Yes |
| Impact | SalmoNet, an integrated network of ten Salmonella enterica strains reveals common and distinct pathways to host adaptation Métris A., Sudhakar P., Fazekas D., Demeter A., Ari E., Branchu P, Kingsley R.A., Baranyi J., Korcsmáros T. npj Systems Biology and Applications 3, Article number: 31 (2017) doi:10.1038/s41540-017-0034-z |
| URL | http://salmonet.org/ |
| Title | Strain delineation based on phylogenies |
| Description | Metagenomic based reconstruction of genomes & subsequent delineation at strain resolution. |
| Type Of Material | Computer model/algorithm |
| Year Produced | 2021 |
| Provided To Others? | Yes |
| Impact | This method, implemented in the MATAFILER pipeline, is being used in multiple collaborations and within the group. |
| URL | https://github.com/hildebra/MATAFILER |
| Description | Analysis of IBD large scale metatranscriptomic datasets, Dr Rob Finn, Sequence Families Team Leader, European Bioinformatics Institute, Cambridge |
| Organisation | EMBL European Bioinformatics Institute (EMBL - EBI) |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Decoding the molecular functions of the microbial protein-coding elements in the IBD metatranscriptomes using the microbe-host interaction analysis approach. |
| Collaborator Contribution | Functional annotation of the multiple IBD metatranscriptomic datasets |
| Impact | No outputs yet |
| Start Year | 2018 |
| Description | Collaboration with Daniel Erny |
| Organisation | University Medical Center Freiburg |
| Country | Germany |
| Sector | Hospitals |
| PI Contribution | We have provide study material. |
| Collaborator Contribution | Analyses of study material. |
| Impact | Transfer of materials for further investigation. |
| Start Year | 2021 |
| Description | Collaboration with Dr Brian Hudson |
| Organisation | University of Glasgow |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Validating succinate activity via the SUCNR1 receptor using synthetic compounds. Provided data to demonstrate succinate and expression of the SUCNR1 receptor (in human gut tissue) is a key regulator of enteric nervous system function. |
| Collaborator Contribution | Supply of agonist and antagonists targeting human and mouse SUCNR1 receptor. |
| Impact | Data has not yet been published but has been obtained and further experiments are currently on-going. |
| Start Year | 2022 |
| Description | Collaboration with Dr Melanie Rutkowski, UVa |
| Organisation | University of Virginia (UVa) |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | We have been collaborating on multiple projects that have led to multiple publications. |
| Collaborator Contribution | Exchange of experimental data sets. |
| Impact | Multiple publications |
| Start Year | 2020 |
| Description | Collaboration with EAGLE genomics, Cambridge |
| Organisation | Eagle Genomics Ltd |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | Engagement with industry, resulting in knowledge sharing |
| Collaborator Contribution | in kind contributions to HPC usage |
| Impact | -shared studentship -shared knowledge & data |
| Start Year | 2019 |
| Description | Collaboration with Kathleen Sim |
| Organisation | Imperial College London |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Anonymous search of patient records to explore retinal health in infants. |
| Collaborator Contribution | Access to records. |
| Impact | Correlations between microbiota composition and retinal health. |
| Start Year | 2022 |
| Description | Collaboration with Melanie Rutkowski |
| Organisation | University of Virginia (UVa) |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Exchange of intellectual material |
| Collaborator Contribution | Exchange of intellectual material |
| Impact | Co-authors on manuscript under revision. Planning grant applications together. |
| Start Year | 2020 |
| Description | Collaboration with Professor Simon Milling |
| Organisation | University of Glasgow |
| Department | School of Life Sciences Glasgow |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | We provide access to cancer models and microbiota analyses. |
| Collaborator Contribution | Professor Milling assist us with our understanding and analyses of mucosal immunology. |
| Impact | Grant proposals Publications (pre-prints) |
| Start Year | 2017 |
| Description | Collaboration with School Biosciences Univ. Kent |
| Organisation | University of Kent |
| Country | United Kingdom |
| PI Contribution | Production of bacterial extracellular vesicles (BEVs) for mucosal vaccine antigen delivery; purification, biophysical/biochemical/immunological characterisation and pre-clinical testing of vaccine formulations. |
| Collaborator Contribution | Expertise in production and modification of recombinant viral protein antigens for conjugating to BEVs for pre-clinical evaluation. |
| Impact | UKRI, Innovate UK grant applications to develop the technology for first in man studies. BBSRC Discovery Fellowship application by UoK investigator |
| Start Year | 2020 |
| Description | Gut - microbiome single cell project |
| Organisation | University of Toronto |
| Country | Canada |
| Sector | Academic/University |
| PI Contribution | We have sequenced and analysed samples provided by the partner. |
| Collaborator Contribution | These samples were from an experiment the partner have previously carried out. We were not able to generate such samples, and as the cell isolation protocol was the same that we normally use, processing their samples and then compare the different conditions were straightforward for us. |
| Impact | Single-cell sequence data generated (stem cell, Paneth cell, transit amplifying cells) from mouse (germ-free, ex-germ-free, normal). Data analysis and publication is ongoing. |
| Start Year | 2018 |
| Description | IBD Multi-omics, Prof. Severine Vermeire, KU Leuven |
| Organisation | University of Leuven |
| Country | Belgium |
| Sector | Academic/University |
| PI Contribution | Stemming from our strategic collaboration with the IBD unit headed by Prof. Séverine Vermeire at KU Leuven, we have access to patient -omic datasets (such as genotyping, tissue and immune cell transcriptomics, blood proteomics, gut microbiome etc). We use data integration approaches aided by systems biology and machine learning to disentangle the complexity of IBD by exploiting the benefits delivered by the cumulative insights rendered by multiple -omic layers. |
| Collaborator Contribution | Clinical datasets including -omic and phenotypic trait data. Scientific advice on grants |
| Impact | The project is multi-disciplinary involving concepts from systems biology, statistics, microbiology, mathematics, computational biology (software resources etc) and experimental validation where appropriate and necessary. Outcomes Machine Learning and Big Data integration in the clinical research of Inflammatory Bowel Disease. Seyed-Tabib N, Madgwick M, Sudhakar P, Verstockt B, Korcsmaros T, Vermeire S. (under review) Systems genomics of ulcerative colitis: combining GWAS and signalling networks for patient stratification and individualised drug targeting in ulcerative colitis. J. Brooks*, D. Modos*, P. Sudhakar*, D. Fazekas, A. Zoufir, A. Watson, M. Tremelling, B. Verstockt, S. Vermeire, A. Bender, S. Carding, T. Korcsmaros. (in preparation - to be submitted March 2019) (*joint first authors) |
| Start Year | 2018 |
| Description | Influence of diet on human IBD and the microbiome (Brazil) |
| Organisation | State University of Campinas |
| Country | Brazil |
| Sector | Academic/University |
| PI Contribution | We will provide expertise on the analysis of the microbiome to the study led by our partners. |
| Collaborator Contribution | Our partners have received funding to support the stay of a postdoctoral researcher at the Quadram Institute to develop this research. |
| Impact | no outputs yet |
| Start Year | 2020 |
| Description | MTA Biodonostia |
| Organisation | Biodonostia Health Research Institute |
| Country | Spain |
| Sector | Hospitals |
| PI Contribution | We provided intellectual input and performed experimental work that generated results included in a high-impact publication using the material contributed by our collaborators. |
| Collaborator Contribution | Our collaborators provided us with material (cell lines) and technical input to do experiments. |
| Impact | The main output of this collaboration is the folowing publication: PMID: 30229970 DOI: 10.1002/hep.30275 |
| Start Year | 2015 |
| Description | Mucosal vaccines |
| Organisation | University of Liverpool |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Production and characterisation of native and engineered bacterial extracellular vesicles for pre-clinical testing |
| Collaborator Contribution | Use of rodent models of viral (influenza, SARS-CoV-2) infection to evaluate efficacy and safety of BEV vaccine formulations |
| Impact | UKRI grant applications to further develop BEV drug delivery technology for first in man studies |
| Start Year | 2019 |
| Description | Transfer of mice deficient in LAP |
| Organisation | Lanzhou Veterinary Research Institute |
| Country | China |
| Sector | Learned Society |
| PI Contribution | Mice deficient in LAP generated at UEA/QIB have been sent to Lanzhou Veterinary Research Institute (LVRI). T. Wileman, P. S. Carding, Regis Stentz from Norwich Research Park, and James Stewart from University of Liverpool visited State Key Laboratory of Lanzhou Veterinary Research Institute (LVRI) , and Pasteur Institute Shanghai in June 2016 to discuss research projects and collaboration. T. Wileman, P. Powell, S. Carding, Regis Stentz from Norwich research Park, and James Stewart from University of Liverpool visited three research institutes (Institute of Microbiology, Beijing Academy of Sciences, State Key Laboratory of Lanzhou Veterinary Research Institute, Northwest Agricultural and Forestry University,Yangling, Shaanxi) in October 2018 to discuss further research projects and collaboration. Mice deficient in LAP generated at UEA/QIB have been sent to University of New Mexico, USA, St Judes Medical Centre, Memphis USA, University of South Florida. USA, |
| Collaborator Contribution | LAP deficient mice will be used in infection studies focusing on Foot and Mouth Disease virus at LVRI, and possibly Zika virus at Pasteur Institute in Shanghai. Scientists from the Chinese Academy of Agricultural Sciences (Zhidong Zhang, Yanmin Li, Xiaodong Qin) and Gang Long from Pasteur Institute Shanghai, visited Norwich Research Park 06:2017 to discuss collaborative work. Dr Yang Yang from LVRI has been sent on a six month secondment (October 2018-May 2019) to UEA to learn how to characterise LAP deficient mice. Mice deficient in LAP will be used in studies of infection and age dependent cognitive decline DOI: 10.1126/sciadv.abb9036 |
| Impact | DOI: 10.1126/sciadv.abb9036 |
| Start Year | 2019 |
| Description | immunometabolism |
| Organisation | University of East Anglia |
| Department | School of Medicine UEA |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | performed experiments, provided access to equipment |
| Collaborator Contribution | performed experiments and key analyses |
| Impact | Collaborative research publication. |
| Start Year | 2018 |
| Title | Bif and compositions thereof for BrCa treatment |
| Description | priotry patent application filed 21 December 2021 |
| IP Reference | GB2118611.9 |
| Protection | Patent application published |
| Year Protection Granted | 2021 |
| Licensed | No |
| Impact | Priority patent application filed 21 December 2021 |
| Title | Medium Production of Bacterial Extracellular Vesicles |
| Description | The present invention relates to a growth medium or media and the use and/or manufacture thereof for the production of bacterial extracellular vesicles. |
| IP Reference | 2102001.1 |
| Protection | Patent application published |
| Year Protection Granted | 2021 |
| Licensed | No |
| Impact | None as yet. Patent filed 12 Feb. 2021 |
| Title | iSNP - A stratified medicine pipeline; |
| Description | Systems biology based software programme to stratify patients with ulcerative colitis to identify best treatment options |
| IP Reference | |
| Protection | Patent application published |
| Year Protection Granted | 2018 |
| Licensed | No |
| Impact | None to date |
| Title | Mucosodom cohort |
| Description | This is the creation of a novel cohort researching & cataloguing the mucosa associated microbiome, congruent with transcriptomic profiles at such sites. This is an early stage cohort, that is already ~30% complete currently. We will investigate the healthy microbiome and the microbiome in inflamed gut microbiomes. |
| Type | Diagnostic Tool - Non-Imaging |
| Current Stage Of Development | Initial development |
| Year Development Stage Completed | 2021 |
| Development Status | On hold |
| Impact | -first use of this technology -allows high resolution gut metagenomics in a spatial context |
| Title | RESTORE-ME |
| Description | The Aim of the RESTORE-ME study is to undertake a clinical study of microbiota replacement therapy (MRT) in ME/CFS to provide evidence of efficacy and determine if a futher clinical trial is justified. This will be achieved by providing evidence for efficacy and providing evidence for safety in this patient group, the acceptability of the treatment for patients and willingness to be recruited and randomised into a trial. Study Design: A UK dual centre, double blinded, placebo-controlled, parallel group MRT study with a 6-month follow-up: |
| Type | Therapeutic Intervention - Drug |
| Current Stage Of Development | Early clinical assessment |
| Year Development Stage Completed | 2021 |
| Development Status | On hold |
| Impact | Until recently our understanding of the cause(s) of ME/CFS had advanced only incrementally since the first cases of an atypical polio like illness were first described in the 1930's. In proposing a clinical trial to seek evidence of a causal relationship between intestinal microbial dysbiosis and ME/CFS the RESTORE-ME project builds on the latest findings from microbiota research worldwide as highlighted in this application and promising positive results from treating small numbers of patients with cocktails of gut microbes. Currently there is no curative treatment for ME/CFS. Whilst numerous therapies have been utilised to ease the symptoms of ME/CFS, once established it is hard to cure. Fewer than 6% of patients return to premorbid levels of functioning, and with the significant socioeconomic burden of the disease, with direct and indirect costs estimated to be $18.5 billion per annum, there is a pressing and urgent need to translate the most promising research findings into patient care: A successful outcome to the trial will have significant patient benefit, improving their quality of life, as well as reducing reliance on primary and secondary NHS care provision. |
| Title | LotuS2 |
| Description | Amplicon sequencing pipeline |
| Type Of Technology | Webtool/Application |
| Year Produced | 2024 |
| Open Source License? | Yes |
| Impact | Already internationally used by collaborators. Currently (Feb 24) >30,000 installs through BioConda |
| URL | http://lotus2.earlham.ac.uk/ |
| Title | MATAFILER |
| Description | MATAFILER pipeline to process shotgun metagenomics datasets |
| Type Of Technology | Webtool/Application |
| Year Produced | 2023 |
| Open Source License? | Yes |
| Impact | Allows for fast and streamlined analysis of shotgun metagenomics datasets, widely used in group's work and collaborations. The software is constantly being updated, last big release was in 2021 (MATAF3) |
| URL | https://github.com/hildebra/MATAFILER |
| Title | sdm |
| Description | sdm (simple demultiplexer) is a general applicable, fast and scalable software, that can demultiplex, quality filter and dereplicate input read sequences, transfer file formats and be used for various utility functions related to raw reads. Ongoing developments, last major release in 2021 |
| Type Of Technology | Webtool/Application |
| Year Produced | 2021 |
| Open Source License? | Yes |
| Impact | Central part in group's pipelines, e.g. LotuS2 (https://github.com/hildebra/lotus2) and MATAFILER (https://github.com/hildebra/MATAFILER). |
| Description | 17-21 July 2017_2nd Interdisciplinary Signaling Workshop |
| 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 | In this interdisciplinary workshop advanced science was combined with informal summer activities to solve multi-disciplinary scientific questions, by bringing early career scientists together with more established researchers in a relaxing and beautiful location. Invited speakers presented talks on the topics of cell regulation, network modelling, genomics, systems biology, bioinformatics, structural biology, biochemistry, and cheminformatics. Then, selected talks from other participants will be followed by multi-disciplinary teamwork sessions in the afternoon, followed by cultural and social activities, such as medieval team building and handicraft activities in the Visegrad Castle. Poster sessions and plenty of informal opportunities allowed the participants to discuss complex and exciting questions as well as develop new collaborations. The renaissance surroundings of the venue nicely matched with the interdisciplinary nature of the workshop. |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://signalingworkshop.org/ |
| Description | 24-25 April 2017_Multiscale analysis of host-microbe interactions in plants, animals and humans |
| 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 | The aim of this workshop was to bring together key experts and early-stage scientists working on host-microbe interactions, including pathogen infections, commensals and microbiome level studies, to share novel scientific ideas on the multiscale investigation of host-microbe interactions and to provide an exciting opportunity to establish and improve cross-disciplinary and UK-wide collaborations. After kick off with three keynote speakers on current challenges, the program provides structured study groups to discuss 1) novel methodological approaches; 2) potential future projects requiring participants from different disciplines; 3) the best ways to get funding for such multi-disciplinary projects. We facilitated these goals with short presentations and brainstorming opportunities in coordinated team works, and with panel discussion with representatives of key relevant funding agencies and charities. |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://www.multiscalebiology.org.uk/events/event/multiscale-analysis-of-host-microbe-interactions/ |
| Description | 3 day Numerical ecology training |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Undergraduate students |
| Results and Impact | 30person course organized by the VIB, Belgium with international participants. I organize this 3 day course, including talks and hands-on sessions by Stefano Romano, Ezgi Ozkurt, Rebecca Ansorge, Nicola Soranzo, Duncan Ng and Joachim Fritscher. |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://training.vib.be/all-trainings/analysis-16s-rrna-metagenomic-experiments-online-0 |
| Description | 3 day Numerical ecology training |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Undergraduate students |
| Results and Impact | 25 person course organized by the VIB, Belgium with international participants. I organize this 3 day course, including talks and hands-on sessions by Stefano Romano, Ezgi Ozkurt, Rebecca Ansroge, Angela Del Castillo, Nicola Soranzo and Joachim Fritscher. |
| Year(s) Of Engagement Activity | 2021 |
| Description | 4th Annual European Microbiome Congress |
| 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 | Attendance to 4th Annual European Microbiome Congress. This Conference has a high representation from the Industry: Pharmaceutical companies and Biotechnology companies and provided an excellent opportunity to make contact and discuss work relevant to the Institute Strategic Programmes. The PROMOTING WOMEN IN SCIENCE lunch session was inspiring. |
| Year(s) Of Engagement Activity | 2018 |
| Description | A systems-level approach in studying autophagy modification by Salmonella Typhimurium. Early Career Researcher Symposium on Microbial Interactions Norwich |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | A systems-level approach in studying autophagy modification by Salmonella Typhimurium. Early Career Researcher Symposium on Microbial Interactions Norwich |
| Year(s) Of Engagement Activity | 2019 |
| Description | A talk at the U. of Campinas, Brazil |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Around 50 PhD medical students attended my talk about how to write a scientific paper. The talk was very welcomed and the students found it very helpful. |
| Year(s) Of Engagement Activity | 2021 |
| Description | ARN2: Uncovering the multi-layered regulation of autophagy From Functional Genomics to Systems Biology |
| 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 | ARN2: Uncovering the multi-layered regulation of autophagy From Functional Genomics to Systems Biology |
| Year(s) Of Engagement Activity | 2019 |
| Description | Academia-Industry Networking CarboMet event |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | I co-organised and chaired a two day workshop on 'The Role of Carbohydrates in the Gut Microbiome' June 2018 in Brussels attended by 40 delegates from academia and industry as apart of CarboMet. CarboMet (Metrology of Carbohydrates for European Bioindustries) is a four-year Coordination and Support Action (CSA) funded by Horizon 2020 FET-OPEN. It is an European Network that facilitates engagement between key players and stakeholders of the glycoscience community across Europe to identify the current state of the art and in particular future innovation and technological challenges in carbohydrate metrology. I co-wrote and edited the CarboMet positioning paper on 'The Essential Roles of Carbohydrates in Promoting Gut Microbiota Function Through All Stages of Life' which summarises discussions that took place during the workshop. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://carbomet.eu/news/positioning-paper-on-role-of-carbohydrates-in-gut-microbiota-function/ |
| Description | Analysing dynamic changes in the microbiome through systems biology approaches Scientific Advisory Board Meeting |
| 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 | Analysing dynamic changes in the microbiome through systems biology approaches Scientific Advisory Board Meeting |
| Year(s) Of Engagement Activity | 2019 |
| Description | Analysing intestinal organoids in a multi-omics, systems biology framework to investigate gut health and host-microbe interactions Scientific Advisory Board Meeting Earlham Institute |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Other audiences |
| Results and Impact | Analysing intestinal organoids in a multi-omics, systems biology framework to investigate gut health and host-microbe interactions Scientific Advisory Board Meeting Earlham Institute |
| Year(s) Of Engagement Activity | 2019 |
| Description | Analyzing intestinal organoids in a multi-omics, systems biology framework to investigate gut health and host-microbe interactions SYSBIO 2018 - Advanced Lecture Course on Systems Biology |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Analyzing intestinal organoids in a multi-omics, systems biology framework to investigate gut health and host-microbe interactions SYSBIO 2018 - Advanced Lecture Course on Systems Biology |
| Year(s) Of Engagement Activity | 2019 |
| Description | BBSRC Gut-Brain axis |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Policymakers/politicians |
| Results and Impact | Expert group to discuss UKRI BBSRC Bioscience for Integrated Understanding of Health (BIUH) |
| Year(s) Of Engagement Activity | 2021 |
| Description | Bacterial regulation of host processes. A seminar in the Technical School of Agronomy and Engineering to BsC and MsC students. UPCT, Cartagena, Spain |
| 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 | Bacterial regulation of host processes. A seminar in the Technical School of Agronomy and Engineering to BsC and MsC students. UPCT, Cartagena, Spain |
| Year(s) Of Engagement Activity | 2019 |
| Description | Bioinformatics training for PostDocs and PhD Students at QIB, 2018 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | 13 junior scientist trained working in biological research have been trained to extend their bioinformatics skills. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://seq.space/notes/doku.php?id=bash-beginners |
| Description | Bioinformatics training for PostDocs and PhD Students at QIB, 2019 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | New session of bioinformatics training, following the requests |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://seq.space/notes/doku.php?id=bash-beginners |
| Description | CLIMB computing workshop |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Undergraduate students |
| Results and Impact | I thought bioinformatics at a CLIMB workshop in Edinburgh organized by Mark Pallen. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Comparative analysis of Paneth cell and enteroendocrine cell transcriptomics: organoid and signalling network based approaches Research in progress talk at Quadram Institute. |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Comparative analysis of Paneth cell and enteroendocrine cell transcriptomics: organoid and signalling network based approaches Research in progress talk at Quadram Institute. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Conference Poster at Gordon Research Conference |
| 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 | I presented my poster about the upcoming update to the SalmoNet database at the 2019 Gordon Research Conference on Salmonella Pathogenesis. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Cytokine responsive transcriptional networks in inflammatory bowel disease |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Oral presentation to ~50 scientists and clinicians at the 6th Young European Crohns and colitis organisation basic science program in Vienna, Austria. |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://www.ecco-ibd.eu/discover-the-programme-2020/educational-programme-2020/6th-y-ecco-basic-scie... |
| Description | Defining Person-specific Microbiomes with high-resolution Metagenomics |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Public/other audiences |
| Results and Impact | Festival of Genomics presentation |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.festivalofgenomics.com/ |
| Description | Dept Seminar APC |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Postgraduate students |
| Results and Impact | APC Microbiome Ireland invited Department Seminar, title: From 16S to high-resolution metagenomics |
| Year(s) Of Engagement Activity | 2021 |
| Description | Dialogue event with Older People's Community (public) Group about the microbiome and potential idea for future clinical trial |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Public/other audiences |
| Results and Impact | Dialogue with Broadland Older People's Partnership Group about the microbiome and its impact on health and immunity in older age. Discussion of the components of the microbiome and what and how this can be affected - and the implications for other organ systems. Plenty of discussion with many opinions and questions expressed. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Dialogue events with Patient Participation Groups (PPGs) about the microbiome and potential idea for future clinical trial |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Patients, carers and/or patient groups |
| Results and Impact | Seven (separate) dialogue events with Patient Participation Groups (PPG) at GP practices across Norfolk to discuss the microbiome with patients and a potential idea for a future clinical trial. Discussions included: composition of microbiome, importance of gut health and impact on immunity and effect on other organs, FMT, gut-brain link, changes in microbiome throughout the life course, probiotics, prebiotics and superfoods, immunosenescence, antibiotics. Plenty of discussion and debate at each event with opinions often expressed as changing by the end of each dialogue. |
| Year(s) Of Engagement Activity | 2019,2020 |
| Description | EI LotuS training |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Undergraduate students |
| Results and Impact | I organized the session (lecture + hands-on training) for amplicon sequencing, that was part for the EI metagenomics workshop. |
| Year(s) Of Engagement Activity | 2019 |
| Description | EI innovate talk & panel discussion |
| 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 | Talk at EI Innovate: High-resolution metagenomics without the need for reference genomes member of the subsequent panel discussion |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://www.earlham.ac.uk/ei-innovate-2021-linking-datasets-and-bioscience |
| Description | ELSA workshop |
| 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 | 3 part ELSA virtual workshop, this was organized by Colin Murrell, Alison Matther and myself. |
| Year(s) Of Engagement Activity | 2020,2021 |
| Description | Evidence for microbiome alterations in Parkinsons disease |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Leiden University Medical Center Departmental seminar, virtual |
| Year(s) Of Engagement Activity | 2022 |
| Description | Evolution and ecological interactions of gut bacterial taxa in challenged ecosystems |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | I was invited to give a talk "Evolution and ecological interactions of gut bacterial taxa in challenged ecosystems" at the SMBE conference in Manchester, 2019 |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://smbe2019.org/ |
| Description | Evolution and persistence of human associated microbiomes |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Postgraduate students |
| Results and Impact | Short talk at ELSA virtual workshop |
| Year(s) Of Engagement Activity | 2020 |
| Description | Evolutionary arms race pits out cellular defence mechanisms against invading bacteria - 26/03/2019 |
| Form Of Engagement Activity | Engagement focused website, blog or social media channel |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Media (as a channel to the public) |
| Results and Impact | A website article outlining a new systemic analysis of the complex molecular interactions between bacteria and our own cells has mapped out an arms race that may provide clues to what makes bacteria successful invaders through work led by Dr Tamás Korcsmáros, a research leader at EI and Quadram Bioscience. News stories highlight important updates that also have broad relevance and interest to the national and/or specialised media. |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://www.earlham.ac.uk/newsroom/evolutionary-arms-race-pits-our-cellular-defence-mechanisms-agains... |
| Description | Gut feeling: a network approach to studying IBD - 10/12/2019 |
| Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Media (as a channel to the public) |
| Results and Impact | Website article on the development of a novel combined experimental and computational pipeline that tells us what genes are the important 'master regulators' in the gut, and which of these genes overlap with those associated with IBD, suggesting new angles to research in the future in collaboration from Korcsmaros Group at EI and the Quadram Bioscience. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.earlham.ac.uk/newsroom/gut-feeling-network-approach-towards-understanding-ibd |
| Description | I'm a Scientist Get me out of here" programme 2019. |
| Form Of Engagement Activity | Engagement focused website, blog or social media channel |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Schools |
| Results and Impact | Engaging with school students about STEM related questions and promoting discussions between scientists and students. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://drugm19.imascientist.org.uk/ |
| Description | IBCarb |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | Contributed to the final IBCarb workshop Glycobiotechnology 2018. IBCarb (Glycoscience Tools for Biotechnology and Bioenergy) is a growing network of glycoscientists from academia and industry. IBCarb was one of the Networks in Industrial Biotechnology and Bioenergy funded by the BBSRC. The workshop was very successful and attracted around 150 attendees (international audience from academia and industry) . This was an opportunity to showcase the Glycosciences carried out in the UK and in partnership with industrial/business partners. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://ibcarb.com/events/ |
| Description | Identification of master regulators in goblet cells and Paneth cells using transcriptomics profiling of gut organoids and multi-layered networks. QIB Research in Progress |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Other audiences |
| Results and Impact | Identification of master regulators in goblet cells and Paneth cells using transcriptomics profiling of gut organoids and multi-layered networks. QIB Research in Progress |
| Year(s) Of Engagement Activity | 2019 |
| Description | Identification of prognostic indicators of healthy ageing with a machine learning based systems biology approach using gut microbiome data Microbes in Norwich 2019 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Identification of prognostic indicators of healthy ageing with a machine learning based systems biology approach using gut microbiome data Microbes in Norwich 2019 |
| Year(s) Of Engagement Activity | 2019 |
| Description | Identification of prognostic indicators of healthy ageing with a machine learning based systems biology approach using gut microbiome data RECOMB/ISCB Conference on Regulatory and Systems Genomics, with DREAM Challenges |
| 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 | Identification of prognostic indicators of healthy ageing with a machine learning based systems biology approach using gut microbiome data RECOMB/ISCB Conference on Regulatory and Systems Genomics, with DREAM Challenges |
| Year(s) Of Engagement Activity | 2019 |
| Description | Identifying signalling pathways regulating antimicrobial peptide production in the gut using network biology and organoid transcriptomics Modularity of signaling proteins and networks |
| 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 | Identifying signalling pathways regulating antimicrobial peptide production in the gut using network biology and organoid transcriptomics Modularity of signaling proteins and networks |
| Year(s) Of Engagement Activity | 2018 |
| Description | Interview for local news |
| Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Media (as a channel to the public) |
| Results and Impact | PhD student Ali McKee gave interview to local TV station discussing his work on understanding how the microbiota programmes the immune system. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.youtube.com/watch?v=HfGmynoqmNE |
| Description | Intestinal autophagy regulation by Salmonella Typhimurium. Coffee Break Science |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Intestinal autophagy regulation by Salmonella Typhimurium. Coffee Break Science |
| Year(s) Of Engagement Activity | 2019 |
| Description | Introduction to Multiomics Data Integration |
| 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 | Tamas Korcsmaros delivered a talk on the nature of different data types, and provided a training on Cytoscape |
| Year(s) Of Engagement Activity | 2009,2018 |
| URL | https://www.ebi.ac.uk/training/events/2018/introduction-multiomics-data-integration-0 |
| Description | Invited talk Kings College London |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Postgraduate students |
| Results and Impact | Invited talk by colleagues at Kings College London. The talk lead to fruitful discussions and potential future collaborations. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Invited talk Microbiome Virtual International Forum |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Invited talk at virtual seminar: Dispersal strategies shape persistence and evolution of human gut bacteria (Microbiome Virtual International Forum) |
| Year(s) Of Engagement Activity | 2021 |
| URL | https://www.microbiome-vif.org/ |
| Description | Invited talk at the Centre de Recherche sur l'Inflammation, INSERM, UMR1149 in Paris, France |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Invited talk at the Centre de Recherche sur l'Inflammation, INSERM, UMR1149, CNRS, ERL 8252, Paris, France |
| Year(s) Of Engagement Activity | 2020 |
| Description | Invited talk to the Institute of Hepatology in London |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Postgraduate students |
| Results and Impact | Invited talk by colleagues at the Institute of Hepatology London. The talk lead to fruitful discussions and potential future collaborations. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Jolly good fellows: building a career at Earlham Institute - 20/02/2020 |
| 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 | Website article showcasing fellowship programmes at EI including Tamas Korcsmaros, whose five year fellowship which has led to a large and successful group investigating computational and network-based approaches to understanding complex systems such as the gut. Dr Korcsmaros is the CSP WP2 Lead. |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://www.earlham.ac.uk/articles/jolly-good-fellows-building-career-earlham-institute |
| Description | Lebanon Symposium |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | 2:00 p.m. - 5:30 p.m. Workshop: "Using the Command Line to Analyze Metagenomics Data" Dr. Andrea Telatin, Quadram Institute Bioscience - UK |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://eventscal.lau.edu.lb/conferences/ybs2018/program.php |
| Description | LotuS workshop |
| 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 | I co-organized (with VIB, Belgium) and led a 1 day workshop on the usage of the lab developed LotuS, teaching about 20 participants in Leuven, Belgium. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://wiki.bits.vib.be/index.php/NGS_data_analysis#Training_5:_metagenomics |
| Description | Lotus tutorial: website |
| Form Of Engagement Activity | Engagement focused website, blog or social media channel |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Training website for the LotuS software that is under active development in my lab |
| Year(s) Of Engagement Activity | 2019,2020 |
| URL | https://github.com/telatin/lotus-tutorial |
| Description | Media interviews |
| Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Media (as a channel to the public) |
| Results and Impact | Insight into research undertaken at Quadram Institute relevant to healthy ageing |
| Year(s) Of Engagement Activity | 2017,2018,2019 |
| Description | Metagenomic analysis of the impact of antibiotics on soil and gut bacteria, and their interaction networks |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Undergraduate students |
| Results and Impact | I was invited to give a Department Seminar at the UEA entitled "Metagenomic analysis of the impact of antibiotics on soil and gut bacteria, and their interaction networks" |
| Year(s) Of Engagement Activity | 2019 |
| Description | Microbes in Norwich (MICRON) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Invited talk to the biannual Microbes in Norwich (MICRON) conference. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Network biology approaches to understanding life - 29/04/2019 |
| 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 | Website article highlighting the work of a PhD student in the Korcsmaros group on how systems biology approaches can help us to understand the interactions between living systems and how the information we can glean is important for improving human health and better understanding the evolution of host-specificity of bacteria, among many other things. This article also provide insight into carrying out a PhD at EI and working in the field of systems biology and Salmonella research. |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://www.earlham.ac.uk/articles/network-biology-approaches-to-understanding-life |
| Description | 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 | Participation in the Norwich Science Festival with several activities focused on the liver capacity to regenerate and how poor diets can affect liver health. These concepts were communicated to the public through a series of games and activities. This activity reached over 200 children in addition to parents and other adult populations. |
| Year(s) Of Engagement Activity | 2023 |
| Description | Organoid transcriptomics to study cell regulation Internal research presentation at the Earlham Institute |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Organoid transcriptomics to study cell regulation Internal research presentation at the Earlham Institute |
| Year(s) Of Engagement Activity | 2019 |
| Description | Outreach to BHF donors |
| 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 | BHF outreach day at UEA, to disseminate research to BHF donors. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Padhmanand Sudhakar : Selected and Participated in the "ECR Policy Lab on the determinants of food choice for healthy and sustainable diets" organized by Global Food Security (a UK cross-government programme on food security research). |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Policymakers/politicians |
| Results and Impact | Selected and Participated in the "ECR Policy Lab on the determinants of food choice for healthy and sustainable diets" organized by Global Food Security (a UK cross-government programme on food security research). |
| Year(s) Of Engagement Activity | 2018 |
| Description | Padhmanand Sudhakar : participated in 2018 Royal Society's pairing programme between Scientists and Parliamentarians. |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Policymakers/politicians |
| Results and Impact | Padhmanand Sudhakar : participated in 2018 Royal Society's pairing programme between Scientists and Parliamentarians. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Padua Microbiome - High school dissemination activity (Liceo Curiel) |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Schools |
| Results and Impact | Two presentations for high school students held at the "Liceo Curiel, Padova" but open to all high school students in Padua. Topics: "What is bioinformatics, a new profession at the intersection between biological sciences, computer science and statistics", and "The human gut microbiome". The presentations have been tailored to engage with students that will need to choose their university studies, and at the same time, to disseminate scientifically accurate information on the studies on the human microbiome. Science teachers have been a relevant part of the audience, with some parents/guests also present. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Paneth cells secrete lysozyme via secretory autophagy during bacterial infection of the intestine Stem Cells @ Lunch, a fortnightly lunchtime seminar series, hosted by Dr. Davide Danovi at the Centre for Stem Cells & Regenerative Medicine at Guy's Hospital, King's College London, UK. |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Professional Practitioners |
| Results and Impact | Paneth cells secrete lysozyme via secretory autophagy during bacterial infection of the intestine Stem Cells @ Lunch, a fortnightly lunchtime seminar series, hosted by Dr. Davide Danovi at the Centre for Stem Cells & Regenerative Medicine at Guy's Hospital, King's College London, UK. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Parkinson's Disease and gut microbial alteration |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Global webinar on Alzheimers and Dementia |
| Year(s) Of Engagement Activity | 2022 |
| Description | Pint of Science Festival |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Undergraduate students |
| Results and Impact | Pint of Science Festival at QMUL allows students and the general public to hear researchers speak about their work. This was a 20 minute talk which then sparked an interesting debate about how diet and nutrients can regulate our food intake. The organisers of this event reported positive feedback from the audience and asked me to present another talk at the 2023 Festival due to interest and popularity of the subject. |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://pintofscience.co.uk/event/have-i-gut-salty-news-for-you |
| Description | Poster Presentation : Targeted interplay between bacterial pathogens and host autophagy. 2017 EMBO India Conference : Autophagy: Cellular mechanisms and significance in health and disease |
| 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 | Targeted interplay between bacterial pathogens and host autophagy. Autophagy: Cellular mechanisms and significance in health and disease . 2017 |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://meetings.embo.org/event/17-autophagy-health |
| Description | Poster presentation : An integrated computational approach to infer the targeted interplay between bacterial pathogens and host autophagy 2nd Interdisciplinary Signalling Workshop 2017 |
| 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 | Sudhakar P., Jones E., Fatemian K., Samadevam S., Gul L., Korcsmaros T., Nezis I. (2017) An integrated computational approach to infer the targeted interplay between bacterial pathogens and host autophagy 2nd Interdisciplinary Signalling Workshop 2017 |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://signalingworkshop.org/ |
| Description | Poster presentation : Mutational analysis of cell lines to uncover undesired changes in the regulation of autophagy 2nd Interdisciplinary Signalling Workshop 2017 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Demeter A., Sudhakar P., Hautefort I., Korcsmaros T. (2017) Mutational analysis of cell lines to uncover undesired changes in the regulation of autophagy 2nd Interdisciplinary Signalling Workshop 2017 |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://signalingworkshop.org/ |
| Description | Poster presentation : Resistant Escherichia coli Interactome identifies putative novel drug combinations to break antimicrobial resistance 2nd Interdisciplinary Signaling Workshop 2017 |
| 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 | Modos D., Bulusu K., Afzal A., Sudhakar P., Korcsmaros T., Cokol M., Bender A. (2017) Resistant Escherichia coli Interactome identifies putative novel drug combinations to break antimicrobial resistance 2nd Interdisciplinary Signaling Workshop 2017 |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://signalingworkshop.org/ |
| Description | Poster presentation : SalmoNet: an integrated multi-layered network for Salmonella 2nd Interdisciplinary Signaling Workshop |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | Olbei M. L. O., Metris A. M., Sudhakar P. S., Fazekas D. F., Demeter A. D., Ari E. A., Branchu P. B., Kingsley R. K., Baranyi J. B., Korcsmaros T. K. (2017) SalmoNet: an integrated multi-layered network for Salmonella 2nd Interdisciplinary Signaling Workshop |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://signalingworkshop.org/ |
| Description | Poster presentation : SalmoNet: an integrated multi-layered network for Salmonella Genome 10K and Genome Science Conference. Genome 10K and Genome Science Conference 2017 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Study participants or study members |
| Results and Impact | Olbei M. L. O., Metris A. M., Sudhakar P. S., Fazekas D. F., Demeter A. D., Ari E. A., Branchu P. B., Kingsley R. K., Baranyi J. B., Korcsmaros T. K. (2017) SalmoNet: an integrated multi-layered network for Salmonella Genome 10K and Genome Science Conference |
| Year(s) Of Engagement Activity | 2017 |
| URL | https://genome10k.soe.ucsc.edu/node/130 |
| Description | Poster presentation at ICSB2019 |
| 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 | I presented my poster at a prestigious systems biology conference (ICSB) where I got a lot of important feedback about my work. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Poster presentation: SignaLink 3, a tissue specific and extended multi-layered signaling network resource 2nd Interdisciplinary Signalling Workshop 2017 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Fazekas D., Kadlecsik T., Sudhakar P., Modos D., Turei D., Csabai L., Gul L., Korcsmaros T. (2017) SignaLink 3, a tissue specific and extended multi-layered signaling network resource 2nd Interdisciplinary Signalling Workshop 2017 |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://signalingworkshop.org/ |
| Description | Presented poster at the Network Inference in Biology and Disease workshop in Pozzuoli |
| 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 | I presented my poster at the conference, which led to some interesting discussions regarding the project. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Press Release - Network science unravels the secrets of the evolution of Salmonella's disease adaptations |
| Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Press release to introduce SalmoNet, a systems biology approach that uses network biology and bioinformatic techniques to collate molecular interactions within Salmonella, and to link information on how genes and metabolic pathways are regulated in Salmonella, and how proteins interact with each other. -SOCIAL MEDIA- Engagement x45, Impressions x54800 |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://www.earlham.ac.uk/newsroom/network-science-unravels-secrets-evolution-salmonella%E2%80%99s-di... |
| Description | Public Dialogue Event on Lifelong Health - gut microbes and how they interact with the food we eat to promote health |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Public/other audiences |
| Results and Impact | Quadram Institute Bioscience held a public dialogue event at the new Quadram Institute when we were joined by 35 members of the public for an open discussion about gut microbes and how they interact with the food we eat to promote health. Simon Carding and Cat Edwards canvassed the group for their opinions using interactive voting technology and there was plenty of lively discussion. The event was illustrated live by Rebecca Osborne who documented the discussion, including questions and debate, in graphical form. Topics discussed included the microbiome and its role in health and disease, the gut-brain connection, prebiotics and probiotics, faecal microbiota transplantation (FMT), healthy and diverse diets, carbohydrates, glycaemic index and our research to investigate the development of healthier food products and future foods designed to counter health problems such as Type 2 diabetes and cardiovascular disease. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Public engagement |
| Form Of Engagement Activity | A magazine, newsletter or online publication |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dissemination of research to NHS healthcare professionals |
| Year(s) Of Engagement Activity | 2018,2019 |
| Description | Qiime 2 training |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Local |
| Primary Audience | Postgraduate students |
| Results and Impact | Updating microbiome analysis using Qiime 2. Description of the innovation brought by the new package in terms of reproducibility and traceability, hands-on session with initial handling of 16S amplicons |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.slideshare.net/procionesapiente/flash-introduction-to-qiime2-16s-amplicon-analysis |
| Description | Rome Univ. Seminar |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Undergraduate students |
| Results and Impact | Invited seminar at "La Sapienza University" in Rome on bioinformatics approaches to analysse gut metagenomes |
| Year(s) Of Engagement Activity | 2018 |
| Description | Salmonella, who gives a faeces? - 23/04/2019 |
| Form Of Engagement Activity | Engagement focused website, blog or social media channel |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Public/other audiences |
| Results and Impact | Website article showcasing the CSPs work on a number of different aspects of Salmonella Researchers through understanding its invasiveness, pathogenicity, genetics and evolution, especially with regard to the growing threat of multidrug resistance and alarmingly devastating new strains arising in sub-Saharan Africa. News stories highlight important updates that also have broad relevance and interest to the national and/or specialised media. |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://www.earlham.ac.uk/articles/salmonella-who-gives-a-faeces |
| Description | Selected Talk : Systems genomics of ulcerative colitis: combining GWAS and signalling networks identifies novel pathways in disease pathogenesis 2nd Interdisciplinary Signaling Workshop 2017, Visegrad, Hungary |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Postgraduate students |
| Results and Impact | Brooks J., Modos D., Sudhakar P., Fazekas D., Zoufir A., Kapuy O., Harnisch L., Hall L., Carding S., Korcsmaros T. (2017) Systems genomics of ulcerative colitis: combining GWAS and signalling networks identifies novel pathways in disease pathogenesis 2nd Interdisciplinary Signaling Workshop 2017, Visegrad, Hungary |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://signalingworkshop.org/ |
| Description | Selected Talk : argeted interplay between bacterial pathogens and host autophagy UK Autophagy Meeting, London 2017 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Postgraduate students |
| Results and Impact | Sudhakar P., Jones E., Samavedam S., Fatemian K., Gul L., Korcsmaros T., Nezis I. (2017) Targeted interplay between bacterial pathogens and host autophagy UK Autophagy Meeting, London |
| Year(s) Of Engagement Activity | 2017 |
| URL | http://autophagy.uk/2017-london-meeting-2/ |
| Description | Seminar at Leicester University 2019ì8 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Postgraduate students |
| Results and Impact | "Gut microbes and how to catch them", invited seminar at the Genetics Dept. -- University of Leicester |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.slideshare.net/procionesapiente/a-primer-on-microbial-diversity-16s-amplicons-analysis |
| Description | Signalling Networks: From Data to Modelling |
| 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 | Contributed to a training course run at the Earlham institute entitled 'Signalling Networks: From Data to Modelling'. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.earlham.ac.uk/signalling-networks-data-modelling |
| Description | Signalling and transcriptional network propagation uncovers novel ulcerative colitis pathogenetic pathways from single-nucleotide polymorphisms, 14th congress of European Crohn's and colitis organisation Copenhagen, Denmark |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Signalling and transcriptional network propagation uncovers novel ulcerative colitis pathogenetic pathways from single-nucleotide polymorphisms, 14th congress of European Crohn's and colitis organisation Copenhagen, Denmark |
| Year(s) Of Engagement Activity | 2019 |
| Description | Talk to Edinburgh Immunology group |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Postgraduate students |
| Results and Impact | invited talk to the EIG at Edinburgh university. |
| Year(s) Of Engagement Activity | 2022 |
| Description | Talk to biomedical charities |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Patients, carers and/or patient groups |
| Results and Impact | Engagement and support for relevant research |
| Year(s) Of Engagement Activity | 2017,2018,2019 |
| Description | Talks at academic institutions |
| 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 research outcomes |
| Year(s) Of Engagement Activity | 2017,2018,2019 |
| Description | Teaching population genetics |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Undergraduate students |
| Results and Impact | I was invited to the EMBL, Heidelberg, to teach a course on population genetics and participate in student discussions for EMBL first year PhD candidates. |
| Year(s) Of Engagement Activity | 2019 |
| Description | The regulatory landscape of intestinal cells - investigating the transcriptional effect of autophagy impairment observed in Crohn's disease using organoid and network biology approaches 14th congress of European Crohn's and colitis organisation Copenhagen, Denmark |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Updating the Inflammatory Bowel Disease community about the regulatory landscape and the role of autophagy in various types of intestinal cells |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://academic.oup.com/ecco-jcc/article/13/Supplement_1/S031/5300677 |
| Description | The secret life in our gut and how it influences health and disease |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Policymakers/politicians |
| Results and Impact | ESOF Leiden, virtual conference, Expert panel discussion organized by EMBL including 4 young PIs. Competitive application for this application that we won. |
| Year(s) Of Engagement Activity | 2022 |
| URL | https://www.esof.eu/ |
| Description | Tour for local charity donors |
| Form Of Engagement Activity | Participation in an open day or visit at my research institution |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Supporters |
| Results and Impact | 3 tours of QIB and discussion of our work in 2019 to 3 separate groups of BigC donors. |
| Year(s) Of Engagement Activity | 2019 |
| Description | Women in computing: guts, bioinformatics and yoghurt - 26/03/2019 |
| Form Of Engagement Activity | Engagement focused website, blog or social media channel |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Public/other audiences |
| Results and Impact | Website profile of PhD Student in Korcsmaros group working on Bifidobacteria. News stories highlight important updates that also have broad relevance and interest to the national and/or specialised media, this article also promotes women in science. |
| Year(s) Of Engagement Activity | 2019 |
| URL | http://www.earlham.ac.uk/articles/women-computing-guts-bioinformatics-and-yoghurt |
| Description | interview for Yakult interview series |
| Form Of Engagement Activity | A press release, press conference or response to a media enquiry/interview |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Other audiences |
| Results and Impact | Interview to be published at Yakult website. https://hcp.yakult.co.uk/resources/interview-series# |
| Year(s) Of Engagement Activity | 2022 |
| Description | invited talk to University of Campinas, Brazil |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Undergraduate students |
| Results and Impact | talk on how to write a scientific paper at University of Campinas, Brazil |
| Year(s) Of Engagement Activity | 2022 |