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Series GSE16621 Query DataSets for GSE16621
Status Public on Nov 16, 2009
Title Analysis of SDC-2, DPY-26, MIX-1, DPY-27 and RNA Polymerase II ChIP-chip and RNA abundance in C. elegans
Project modENCODE
Organism Caenorhabditis elegans
Experiment type Expression profiling by array
Genome binding/occupancy profiling by genome tiling array
Summary In C. elegans, a condensin-like protein complex associates specifically with both X chromosomes of XX animals to execute dosage compensation. Dosage Compensation Complex (DCC) reduces the level of transcripts arising from each of the two X chromosomes. Recruitment to X is specified in part by discrete DNA sequence motifs, but following recruitment, the DCC is targeted to the promoters of individual active genes by an unknown mechanism. Here, we investigated three outstanding questions regarding the molecular mechanism of DCC recruitment and spreading along X. By examining the genome-wide binding patterns of several DCC subunits in different stages of C. elegans development, and in strains harboring X:Autosome chromosomal fusions, we provide evidence that: (1) DCC binding is dynamically specified according to gene activity during development (2) The condensin-like subunits of the DCC spread from recruitment sites to active promoters more readily than the non-conserved SDC subunits, which are involved in initial X-targeting and (3) the mechanism of DCC spreading is independent of X-chromosome DNA sequence, and will proceed onto any active promoter near a recruitment site. Our results contribute to understanding how chromatin complexes can be targeted to achieve domain-scale transcriptional regulation during development.
For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf
 
Overall design ChIP-chip analysis of SDC-2, DPY-26 and MIX-1 were done in C elegans N2 embryos. DPY-27 and RNA Polymerase II ChIP-chip were performed in N2 L4s. DPY-27 ChIP-chip in X-autosome fusions were done, X chromosome fused to either V (YPT47), II (YPT41) or I (11dh). RNA abundance analysis in N2, YPT41 and YPT47 embryos are included.
 
Contributor(s) Ercan S, Dick LL, Lieb JD
Citation(s) 19853451, 21177964
BioProject PRJNA63461
Submission date Jun 15, 2009
Last update date Jun 24, 2014
Contact name Jason D Lieb
E-mail(s) jlieb@bio.unc.edu
Phone 919-843-3228
Organization name University of North Carolina at Chapel Hill
Department Biology
Lab Jason Lieb
Street address 408 Fordham Hall, CB# 3280
City Chapel Hill
State/province NC
ZIP/Postal code 27599-3280
Country USA
 
Platforms (7)
GPL7484 C. elegans 385K ChIP03
GPL7685 UNC Celegans 2.1mil HX1 (C elegans ChIP HX1)
GPL7743 2007-05-17_C_elegans_ChIP_01
Samples (39)
GSM417006 N2_totalRNA_replicate1
GSM417007 N2_totalRNA_replicate2
GSM417008 N2_totalRNA_replicate3
This SubSeries is part of SuperSeries:
GSE26186 Broad chromosomal domains of histone modification patterns in C. elegans

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
GSE16621_RAW.tar 1.9 Gb (http)(custom) TAR (of CALLS, PAIR)
Processed data included within Sample table
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