EpiID SIGNED
Single-cell epigenomics: quantifying epigenetic changes in individual cells using DamID
Total Cost €
0EC-Contrib. €
0Partnership
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0EpiID project word cloud
Explore the words cloud of the EpiID project. It provides you a very rough idea of what is the project "EpiID" about.
Project "EpiID" data sheet
The following table provides information about the project.
| Coordinator |
KONINKLIJKE NEDERLANDSE AKADEMIE VAN WETENSCHAPPEN - KNAW
Organization address contact info |
| Coordinator Country | Netherlands [NL] |
| Total cost | 1˙500˙000 € |
| EC max contribution | 1˙500˙000 € (100%) |
| Programme |
1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC)) |
| Code Call | ERC-2015-STG |
| Funding Scheme | ERC-STG |
| Starting year | 2016 |
| Duration (year-month-day) | from 2016-04-01 to 2021-03-31 |
Partnership
Take a look of project's partnership.
| # | ||||
|---|---|---|---|---|
| 1 | KONINKLIJKE NEDERLANDSE AKADEMIE VAN WETENSCHAPPEN - KNAW | NL (AMSTERDAM) | coordinator | 1˙500˙000.00 |
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Project objective
Phenotypic variation arises from the heritable acquisition of cell-type specific gene-expression programs. Key in understanding cellular specification is to elucidate the epigenetic mechanism that underlies transcriptional heterogeneity. Thus a central question in biology is how cell-to-cell variability in the epigenome contributes to the emergence of phenotypic differences. However, current techniques to profile the epigenome require populations of cells and consequently present ensemble averages of the underlying biology. Therefore, to grasp the molecular concept behind the cellular acquisition of heritable traits it is essential to develop techniques to profile the epigenome at the single-cell level. The advent of single-cell genomics enabled profiling of few epigenetic features and transcriptomics in single cells; however, this toolbox is still very restricted and moreover, to directly correlate the variability in the epigenome to changes in gene-expression activity it is pivotal to device methods to obtain both measurements from the same cell. Therefore, to bridge these shortcomings in the epigenetic toolbox, we plan to develop and apply novel techniques to profile the epigenome in single cells. With this proposal we aim to (1) develop a method to map histone modifications in single cells (2) develop a method to map chromatin organization in single cells (3) develop a method to obtain combined measurements of the epigenome and the transcriptome of the same cell (4) apply these and previously developed single-cell methods, to different biological systems to study how the epigenome contributes to lineage specification. Collectively, the goal of this proposal is to develop a comprehensive single-cell toolbox to take the field to the next (epigenomic) level and to work towards elucidating the molecular mechanism behind cellular specification.
Publications
| year | authors and title | journal | last update |
|---|---|---|---|
| 2019 |
Máté Borsos, Sara M. Perricone, Tamás Schauer, Julien Pontabry, Kim L. de Luca, Sandra S. de Vries, Elias R. Ruiz-Morales, Maria-Elena Torres-Padilla, Jop Kind Genome–lamina interactions are established de novo in the early mouse embryo published pages: 729-733, ISSN: 0028-0836, DOI: 10.1038/s41586-019-1233-0 |
Nature 569/7758 | 2020-03-05 |
| 2019 |
Koos Rooijers, Corina M. Markodimitraki, Franka J. Rang, Sandra S. de Vries, Alex Chialastri, Kim L. de Luca, Dylan Mooijman, Siddharth S. Dey, Jop Kind Simultaneous quantification of protein–DNA contacts and transcriptomes in single cells published pages: 766-772, ISSN: 1087-0156, DOI: 10.1038/s41587-019-0150-y |
Nature Biotechnology 37/7 | 2020-03-05 |
| 2019 |
Isabel Guerreiro, Jop Kind Spatial chromatin organization and gene regulation at the nuclear lamina published pages: 19-25, ISSN: 0959-437X, DOI: 10.1016/j.gde.2019.04.008 |
Current Opinion in Genetics & Development 55 | 2020-03-05 |
| 2019 |
Josef Redolfi, Yinxiu Zhan, Christian Valdes-Quezada, Mariya Kryzhanovska, Isabel Guerreiro, Vytautas Iesmantavicius, Tim Pollex, Ralph S. Grand, Eskeatnaf Mulugeta, Jop Kind, Guido Tiana, Sebastien A. Smallwood, Wouter de Laat, Luca Giorgetti DamC reveals principles of chromatin folding in vivo without crosslinking and ligation published pages: 471-480, ISSN: 1545-9993, DOI: 10.1038/s41594-019-0231-0 |
Nature Structural & Molecular Biology 26/6 | 2020-03-05 |
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