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

Project Data

Resource name Description
BioSample (115)  show -
GSA (2) -
CRA002803 Single-Cell 5-Formylcytosine Landscapes of Mammalian Early Embryos and ESCs at Single-Base Resolution
CRA002802 Single-Cell 5-Formylcytosine Landscapes of Mammalian Early Embryos and ESCs at Single-Base Resolution