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Status |
Public on May 01, 2009 |
Title |
OD00001_HCP3_N2_MXEMB |
Project |
modENCODE
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Organism |
Caenorhabditis elegans |
Experiment type |
Genome binding/occupancy profiling by genome tiling array
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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
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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
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Web link |
http://www.modencode.org http://www.ncbi.nlm.nih.gov/projects/geo/info/ENCODE.html
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Contributor(s) |
Gassmann R, Desai A |
Citation missing |
Has this study been published? Please login to update or notify GEO. |
BioProject |
PRJNA63461 |
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Submission date |
Mar 02, 2009 |
Last update date |
Jun 28, 2012 |
Contact name |
DCC modENCODE |
E-mail(s) |
help@modencode.org
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Phone |
416-673-8579
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Organization name |
Ontario Institute for Cancer Research
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Lab |
modENCODE DCC
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Street address |
MaRS Centre, South Tower, 101 College Street, Suite 800
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City |
Toronto |
State/province |
Ontario |
ZIP/Postal code |
M5G 0A3 |
Country |
Canada |
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Platforms (3) |
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Samples (9)
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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 |
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