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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
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
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
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Raw data are available in SRA
Processed data are available on Series record

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