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Series GSE22703 Query DataSets for GSE22703
Status Public on Jul 07, 2010
Title Lieb validation of SDC-3 (B)
Project modENCODE
Organism Caenorhabditis elegans
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary modENCODE_submission_575
This submission comes from a modENCODE project of Jason Lieb. For full list of modENCODE projects, see http://www.genome.gov/26524648
Project Goal: The focus of our analysis will be elements that specify nucleosome positioning and occupancy, control domains of gene expression, induce repression of the X chromosome, guide mitotic segregation and genome duplication, govern homolog pairing and recombination during meiosis, and organize chromosome positioning within the nucleus. 126 strategically selected targets include key histone modifications, histone variants, RNA polymerase II isoforms, dosage-compensation proteins, centromere components, homolog-pairing facilitators, recombination markers, and nuclear-envelope constituents.
We will integrate information generated with existing knowledge on the biology of the targets, perform ChIP-chip analysis on mutant and RNAi extracts lacking selected target proteins, use extrachromosomal arrays to assess the ability of candidate identified sequence motifs to recruit targets in vivo, identify tissue-specific patterns of selected targets, and create integrated, quantitative models of transcription and whole-chromosome functions.
For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf

Keywords: CHIP-chip
 
Overall design EXPERIMENT TYPE: CHIP-chip. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Mixed Embryo; Genotype: wild type; Sex: mixed Male and Hermaphrodite population; NUMBER OF REPLICATES: 1; EXPERIMENTAL FACTORS: Strain N2; temperature 20; Antibody JL00002 SDC3 (target is SDC-3); Developmental Stage Mixed Embryo
Web link http://www.ncbi.nlm.nih.gov/geo/info/ENCODE.html
http://www.modencode.org
 
Contributor(s) Ikegami K, Lieb J
Citation missing Has this study been published? Please login to update or notify GEO.
BioProject PRJNA63461
Submission date Jul 05, 2010
Last update date Feb 02, 2015
Contact name DCC modENCODE
E-mail(s) help@modencode.org
Phone 416-673-8579
Organization name Ontario Institute for Cancer Research
Lab modENCODE DCC
Street address MaRS Centre, South Tower, 101 College Street, Suite 800
City Toronto
State/province Ontario
ZIP/Postal code M5G 0A3
Country Canada
 
Platforms (1)
GPL7685 UNC Celegans 2.1mil HX1 (C elegans ChIP HX1)
Samples (1)
GSM562601 JL00002_SDC3_N2_MXEMB_1_B extraction1_array1

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
GSE22703_RAW.tar 184.0 Mb (http)(custom) TAR (of PAIR, WIG)
Processed data provided as supplementary file

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