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Series GSE94489 Query DataSets for GSE94489
Status Public on Jul 06, 2017
Title Cell cycle dynamics of chromosomal organisation at single-cell resolution
Organism Mus musculus
Experiment type Other
Summary Chromosomes in proliferating metazoan cells undergo dramatic structural metamorphoses every cell cycle, alternating between a highly condensed mitotic structure facilitating chromosome segregation, and a decondensed interphase structure accommodating transcription, gene silencing and DNA replication. These cyclical structural transformations have been evident under the microscope for over a century, but their molecular-level analysis is still lacking. Here we use single-cell Hi-C to study chromosome conformations in thousands of individual cells, and discover a continuum of cis-interaction profiles that finely position individual cells along the cell cycle. We show that chromosomal compartments, topological domains (TADs), contact insulation and long-range loops, all defined by ensemble Hi-C maps, are governed by distinct cell cycle dynamics. In particular, DNA replication correlates with build-up of compartments and reduction in TAD insulation, while loops are generally stable from G1 through S and G2. Analysing whole genome 3D structural models using haploid cell data, we discover a radial architecture of chromosomal compartments with distinct epigenomic signatures. Our single-cell data creates an essential new paradigm for the re-interpretation of chromosome conformation maps through the prism of the cell cycle.
 
Overall design Hi-C: 45 samples analysed
Strand-specific nuclear RNA-seq: 4 samples analysed
 
Contributor(s) Nagano T, Lubling Y, Varnai C, Dudley C, Leung W, Baran Y, Mandelson-Cohen N, Wingett S, Fraser P, Tanay A
Citation(s) 28682332
Submission date Feb 03, 2017
Last update date Mar 25, 2019
Contact name Steven William Wingett
E-mail(s) steven.wingett@mrc-lmb.cam.ac.uk
Organization name MRC Laboratory of Molecular Biology
Department Cell Biology
Street address Francis Crick Avenue, Cambridge Biomedical Campus
City Cambridge
State/province Cambs
ZIP/Postal code CB2 0QH
Country United Kingdom
 
Platforms (4)
GPL15103 Illumina HiSeq 1000 (Mus musculus)
GPL16417 Illumina MiSeq (Mus musculus)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (49)
GSM2476401 Diploid_11
GSM2476402 Diploid_12
GSM2476403 Diploid_13
Relations
BioProject PRJNA369960
SRA SRP098829

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE94489_2i_diploids_features_table.txt.gz 208.6 Kb (ftp)(http) TXT
GSE94489_README.txt 323.8 Kb (ftp)(http) TXT
GSE94489_haploids_features_table.txt.gz 121.0 Kb (ftp)(http) TXT
GSE94489_serum_diploids_features_table.txt.gz 78.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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