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Series GSE38472 Query DataSets for GSE38472
Status Public on Jun 05, 2012
Title Replication-Timing Boundaries Facilitate Cell-type and Species-specific Regulation of a Rearranged Human Chromosome in Mouse
Organisms Homo sapiens; Mus musculus
Experiment type Genome variation profiling by genome tiling array
Summary In multicellular organisms, developmental changes to replication timing occur in 400- 800 kb domains across half the genome. While clear examples of epigenetic control of replication timing have been described, a role for DNA sequence in mammalian replication timing has not been substantiated. To assess the role of DNA sequences in directing these changes, we profiled replication timing in mice carrying a genetically rearranged Human Chromosome 21 [Hsa21]. In two distinct mouse cell types, Hsa21 sequences maintained human-specific replication timing, except at points of Hsa21 rearrangement. Changes in replication timing at rearrangements extended up to 900 kb and consistently reconciled with the wild-type replication pattern at developmental boundaries of replication-timing domains. Our results demonstrate DNA sequencedriven regulation of Hsa21 replication timing during development and provide evidence that mammalian chromosomes consist of multiple independent units of replication timing regulation.
Overall design Profile comparison of fibroblast and T-cell cultures from trans-chromosomic mice and human and mouse controls.
Contributor(s) Pope BD, Chandra T
Citation(s) 22736031
Submission date Jun 04, 2012
Last update date Aug 23, 2016
Contact name Benjamin Pope
Organization name Florida State University
Department Biological Science
Lab David Gilbert
Street address 319 Stadium Dr
City Tallahassee
State/province FL
ZIP/Postal code 32306-4295
Country USA
Platforms (3)
GPL11620 NimbleGen Mouse 385kb array [2006-07-26_MM8_WG_CGH]
GPL15225 NimbleGen Mouse CGH 3x720K Whole-Genome Tiling Array [100718_MM9_WG_CGH]
GPL15656 NimbleGen Human CGH 385K Chromosome 21 Tiling Array [2006-09-22_HG18_CHR21_FT]
Samples (6)
GSM942928 Replication timing of Hsa21 in IMR90 fibroblasts, average of 2 biological replicates
GSM942929 Replication timing of Hsa21 in human CD4+ T lymphocytes, average of 2 biological replicates
GSM942930 Replication timing of Tc1-21 in Tc1 MEFs, average of 3 biological replicates
BioProject PRJNA168029

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
GSE38472_RAW.tar 303.9 Mb (http)(custom) TAR (of PAIR, TXT)
Processed data included within Sample table
Processed data provided as supplementary file

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