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Series GSE31570 Query DataSets for GSE31570
Status Public on Oct 13, 2011
Title The Dynamic Architecture of Hox Gene Clusters
Organism Mus musculus
Experiment type Expression profiling by array
Genome binding/occupancy profiling by high throughput sequencing
Summary The spatial and temporal control of Hox gene transcription is essential for patterning the vertebrate body axis. Although this process involves changes in histone posttranslational modifications, the existence of particular three-dimensional (3D) architectures remained to be assessed in vivo. Using high-resolution chromatin conformation capture methodology, we examined the spatial configuration of Hox clusters in embryonic mouse tissues where different Hox genes are active. When the cluster is transcriptionally inactive, Hox genes associate into a single 3D structure delimited from flanking regions. Once transcription starts, Hox clusters switch to a bimodal 3D organization where newly activated genes progressively cluster into a transcriptionally active compartment. This transition in spatial configurations coincides with the dynamics of chromatin marks, which label the progression of the gene clusters from a negative to a positive transcription status. This spatial compartmentalization may be key to process the collinear activation of these compact gene clusters.
Overall design Examination of gene expression in 3 cell types. Examination of 2 different histone modifications in 2 cell types.
Contributor(s) Noordermeer D, Leleu M, Duboule D
Citation(s) 21998387, 24843030
Submission date Aug 22, 2011
Last update date May 15, 2019
Contact name Marion LELEU
Organization name EPFL
Department School of Life Sciences
Lab Laboratory of developmental genomics
Street address EPFL-SV-ISREC-UPDUB- Station 19
City Lausanne
ZIP/Postal code 1015
Country Switzerland
Platforms (2)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (11)
GSM783825 anterior trunk expression replicate1
GSM783826 anterior trunk expression replicate2
GSM783827 forebrain expression replicate1
SRA SRP007952
BioProject PRJNA145705

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

Supplementary file Size Download File type/resource
GSE31570_RAW.tar 4.8 Gb (http)(custom) TAR (of BED, BW, CEL)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data included within Sample table
Processed data provided as supplementary file

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