Accession |
PRJCA002842 |
Title |
Single-Cell 5-Formylcytosine Landscapes of Mammalian Early Embryos and ESCs at Single-Base Resolution |
Relevance |
Medical |
Data types |
Epigenomics
|
Organisms |
Mus musculus
Homo sapiens
|
Description |
Active DNA demethylation in mammals involves TET family protein-mediated oxidation of 5-methylcytosine (5mC). However, base- resolution landscapes of 5fC (an oxidized derivative of 5mC) at the single-cell level remain unexplored. Here, we present CLEVER- seq (chemical-labeling-enabled C-to-T conversion sequencing), which is a single-cell, single-base resolution 5fC-sequencing technology, based on biocompatible, selective chemical labeling of 5fC and subsequent C-to-T conversion during amplification and sequencing. CLEVER-seq shows intrinsic 5fC heterogeneity in mouse early embryos, Epi stem cells (EpiSCs), and embryonic stem cells (ESCs). CLEVER- seq of mouse early embryos also reveals the highly patterned genomic distribution and parental-specific dynamics of 5fC during mouse early pre-implantation development. Integrated analysis demonstrates that promoter 5fC production precedes the expression up-regulation of a clear set of developmentally and metabolically critical genes. Collectively, our work reveals the dynamics of active DNA demethylation during mouse pre-implantation development and provides an important resource for further functional studies of epigenetic reprogramming in single cells. |
Sample scope |
Single cell |
Release date |
2020-06-16 |
Publication |
PubMed ID |
Article title |
Journal name |
DOI |
Year |
28343982
|
|
|
|
|
|
Grants |
Agency |
program |
Grant ID |
Grant title |
National Natural Science Foundation of China (NSFC)
|
|
91519325
|
|
Ministry of Science and Technology of the People
|
|
2016YFC0900300
|
|
National Natural Science Foundation of China (NSFC)
|
|
21522201
|
|
National Natural Science Foundation of China (NSFC)
|
|
2014CB964900
|
|
National Natural Science Foundation of China (NSFC)
|
|
31271543
|
|
National Natural Science Foundation of China (NSFC)
|
|
81561138005
|
|
|
Accessions in other database |
Accession |
Database name |
GSE84833
|
NCBI
|
|
Submitter |
He
Bo (hebo@pku.edu.cn)
|
Organization |
Peking University |
Submission date |
2020-06-13 |