NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE15064 Query DataSets for GSE15064
Status Public on May 01, 2009
Title OD00001_HCP3_N2_MXEMB
Project modENCODE
Organism Caenorhabditis elegans
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary modENCODE_submission_194

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
 
Overall design DESIGN ONTOLOGY: MO::binding_site_identification_design

EXPERIMENT TYPE: ChIP-chip

BIOLOGICAL SOURCE: strain official name:Strain:N2&oldid=14632, developmental stage:embryo, official name:N2, genotype:wild type, genotype:DR subclone of DB original (Tc1 pattern I)

REPLICATES: 3, replicate 0 applied to 3 arrays, replicate 1 applied to 3 arrays, replicate 2 applied to 3 arrays, NO dye swap

EXPERIMENTAL FACTORS: Ab:OD00001 HCP3:JL:1

Deposited by modENCODE DCC
Web link http://www.modencode.org
http://www.ncbi.nlm.nih.gov/projects/geo/info/ENCODE.html
 
Contributor(s) Gassmann R, Desai A
Citation missing Has this study been published? Please login to update or notify GEO.
BioProject PRJNA63461
Submission date Mar 02, 2009
Last update date Jun 28, 2012
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 (3)
GPL8240 C. elegans 385K ChIP01
GPL8241 C. elegans 385K ChIP02
GPL8242 C. elegans 385K ChIP03
Samples (9)
GSM376935 Hyb2: OD00001_HCP3_N2_MXEMB_1
GSM376936 Hyb1: OD00001_HCP3_N2_MXEMB_1
GSM376937 Hyb3: OD00001_HCP3_N2_MXEMB_1

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
GSE15064_OD00001_HCP3_N2_MXEMB_1.wig.gz 5.4 Mb (ftp)(http) WIG
GSE15064_OD00001_HCP3_N2_MXEMB_2.wig.gz 5.4 Mb (ftp)(http) WIG
GSE15064_OD00001_HCP3_N2_MXEMB_3.wig.gz 5.5 Mb (ftp)(http) WIG
GSE15064_RAW.tar 172.3 Mb (http)(custom) TAR (of PAIR)
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.