FP7 Network of Excellence EpiGeneSys: Epigenetics towards systems biology
Lead Research Organisation:
Babraham Institute
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
Epigenetic regulation of the genome entails modifications to DNA and histones as well as noncoding RNAs and higher order chromatin structure. These modifications of the genome (collectively known as the epigenome) are particularly important for our understanding of how diet affects health throughout life since epigenome patterns in the cell are at least partly heritable and can be affected by diet and nutrition. We are part of a large European Network of Excellence (NoE) funded by the EU called EpiGeneSys. The postdoc funded on this project will try to understand how the environment, nutrients and metabolism, growth factors, cytokines and developmental programmes shape the epigenome through signalling pathways from the cell surface to DNA organised into chromatin. Cells respond continually to their environment and to their nutritional state by inducing new programmes of gene expression, which in turn modulates cell behaviour. These studies will ultimately lead to an understanding of how diet affects health throughout life, with the prospect of making recommendations on human nutrition in order to improve healthspan.
Planned Impact
unavailable
People |
ORCID iD |
| Wolf Reik (Principal Investigator) |
Publications
Berrens RV
(2017)
An endosiRNA-Based Repression Mechanism Counteracts Transposon Activation during Global DNA Demethylation in Embryonic Stem Cells.
in Cell stem cell
Angermueller C
(2017)
DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning.
in Genome biology
Guo G
(2017)
Epigenetic resetting of human pluripotency
in Development
Ficz G
(2013)
FGF signaling inhibition in ESCs drives rapid genome-wide demethylation to the epigenetic ground state of pluripotency.
in Cell stem cell
Von Meyenn F
(2015)
Forget the Parents: Epigenetic Reprogramming in Human Germ Cells.
in Cell
Reik W
(2015)
Germline and Pluripotent Stem Cells.
in Cold Spring Harbor perspectives in biology
Radford EJ
(2014)
In utero effects. In utero undernourishment perturbs the adult sperm methylome and intergenerational metabolism.
in Science (New York, N.Y.)
Guo G
(2016)
Naive Pluripotent Stem Cells Derived Directly from Isolated Cells of the Human Inner Cell Mass.
in Stem cell reports
Lee HJ
(2014)
Reprogramming the methylome: erasing memory and creating diversity.
in Cell stem cell
Takashima Y
(2014)
Resetting transcription factor control circuitry toward ground-state pluripotency in human.
in Cell
| Description | This was the second european network of excellence in which I was involved, and I was a co-coordinator of the network. This network was a substantial driver to bring together in Europe the epigenetics and systems biology communities, including providing significant training and career progression opportunities especially for young researchers. We made significant research findings especially linking naive pluripotency with global epigenetic reprogramming in both mouse and human. What is particularly pleasing is that the research community we built during this network came together (and included others) for a H2020 Flagship application called LifeTime which has just been approved for a Coordination and Support Action. |
| Exploitation Route | These findings have been taken up by the community as judged by research publications that build on our results |
| Sectors | Healthcare Pharmaceuticals and Medical Biotechnology |
| Description | Flagship |
| Amount | € 1,000,000 (EUR) |
| Organisation | European Commission |
| Sector | Public |
| Country | Belgium |
| Start | 02/2019 |
| End | 03/2020 |
| Description | MRC Collaboration Grant (deep sequencing in Epigenomics) |
| Amount | £960,000 (GBP) |
| Funding ID | G0801156 |
| Organisation | Medical Research Council (MRC) |
| Sector | Public |
| Country | United Kingdom |
| Start | |
| Description | Consultancy Cambridge Epigenetix |
| Organisation | Cambridge Epigenetix |
| Country | United Kingdom |
| Sector | Private |
| PI Contribution | I am a consultant for the company |
| Collaborator Contribution | None at present |
| Impact | Oxidative bisulfite sequencing |
| Start Year | 2012 |
| Description | Human Cell Atlas |
| Organisation | Broad Institute |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Contributed to formulating the white paper of the Human Cell Atlas. |
| Collaborator Contribution | Conceived the project and brought the international consortium together. |
| Impact | The white paper was published Regev et al 2017. It involves single cell biologists and computational and modelling scientists. |
| Start Year | 2016 |
| Description | Jurkowski |
| Organisation | University of Stuttgart |
| Country | Germany |
| Sector | Academic/University |
| PI Contribution | Helped with reagents and interpretation. |
| Collaborator Contribution | Conceived and conducted study. |
| Impact | Publication Stepper et al 2017. Involves biochemists, epigeneticists. |
| Start Year | 2016 |
| Description | Shankar Balasubramanian - nucleosome positioning depending on DNA modifications |
| Organisation | University of Cambridge |
| Department | Cancer Research UK Cancer Institute |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | Provided embryonic stem cell and mouse embryo samples |
| Collaborator Contribution | Analysed nucleosome positioning in samples provided by our lab |
| Impact | See publications. Chemistry, biochemistry, developmental biology, epigenomics. |
| Start Year | 2016 |
| Title | Consortium agreement |
| Description | Consortium agreement between the Babraham Institute and the Max Delbrück Centre on LifeTime EU |
| IP Reference | |
| Protection | Protection not required |
| Year Protection Granted | 2019 |
| Licensed | No |
| Impact | The LifeTime consortium is now up and running as a Coordination and Support Action supported by the EU |
| Description | Cheltenham Science Festival |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | Yes |
| Type Of Presentation | Keynote/Invited Speaker |
| Geographic Reach | National |
| Primary Audience | Public/other audiences |
| Results and Impact | A panel discussion and public debate on epigenetics at the Cheltenham Science Festival 2013 Several enquiries from members of the public who attended |
| Year(s) Of Engagement Activity | 2013 |
| URL | http://www.cheltenhamfestivals.com/science/whats-on/2013/flexible-inheritance-epigenetic-effects-on-... |
| Description | Royal Society Summer Exhibition 2012 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | Yes |
| Type Of Presentation | Workshop Facilitator |
| Geographic Reach | National |
| Primary Audience | Public/other audiences |
| Results and Impact | Large public audience attendance over one week of all day exhibition Much positive feedback from members of the public and scientists attending |
| Year(s) Of Engagement Activity | 2012 |