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GEO help: Mouse over screen elements for information. |
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| Status |
Public on May 22, 2012 |
| Title |
Stanford_ChipSeq_GM12878_TNFa_NFKB_IgG-rab |
| Sample type |
SRA |
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| Source name |
GM12878
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| Organism |
Homo sapiens |
| Characteristics |
lab: Stanford
lab description: Snyder - Stanford University
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell: GM12878
cell organism: human
cell description: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
cell karyotype: normal
cell lineage: mesoderm
cell sex: F
treatment: TNFa
treatment description: human recombinant TNF-alpha from eBioscience [product# 14-8329-62] (Snyder)
antibody: NFKB
antibody antibodydescription: Rabbit polyclonal. Antibody Target: NFKB
antibody targetdescription: Epitope mapping at the C-terminus of NF-kappa-B p65 of human origin, recommended for detection of NFkB p65 of m, r and h origin by WB, IP, IF and ELISA
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-372
control: IgG-rab
control description: Input signal from Normal Rabbit IgG ChIP-seq.
control: IgG-rab
control description: Input signal from Normal Rabbit IgG ChIP-seq.
controlid: wgEncodeEH002034
labversion: remapped from hg18, Illumina 2.0, low confidence sequences excluded
replicate: 1
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| Biomaterial provider |
Coriell
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| Treatment protocol |
TNFa
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| Growth protocol |
GM12878_protocol.pdf
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeSydhTfbs
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| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
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| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeSydhTfbs
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| Submission date |
May 22, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
[email protected]
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| Organization name |
ENCODE DCC
|
| Street address |
300 Pasteur Dr
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
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| Platform ID |
GPL9052 |
| Series (1) |
| GSE31477 |
ENCODE Transcription Factor Binding Sites by ChIP-seq from Stanford/Yale/USC/Harvard |
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| Relations |
| SRA |
SRX150557 |
| BioSample |
SAMN01001017 |
| Named Annotation |
GSM935478_hg19_wgEncodeSydhTfbsGm12878NfkbTnfaIggrabSig.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM935478_hg19_wgEncodeSydhTfbsGm12878NfkbTnfaIggrabPk.narrowPeak.gz |
150.1 Kb |
(ftp)(http) |
NARROWPEAK |
| GSM935478_hg19_wgEncodeSydhTfbsGm12878NfkbTnfaIggrabSig.bigWig |
436.6 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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