|
| Status |
Public on Jun 02, 2011 |
| Title |
Bernstein_GM12878_H3K4me3 |
| Sample type |
SRA |
| |
|
| Source name |
GM12878
|
| Organism |
Homo sapiens |
| Characteristics |
lab: Broad
lab description: Bernstein - Broad Institute
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell organism: human
cell description: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
cell karyotype: normal
cell lineage: mesoderm
antibody antibodydescription: rabbit polyclonal. Antibody Target: H3K4me3
antibody targetdescription: Histone H3 (tri methyl K4). Marks promoters that are active or poised to be activated.
antibody vendorname: 1)abcam; 2)Millipore
antibody vendorid: ab8580; 07-473
treatment: None
treatment description: No special treatment or protocol applies
control: std
control description: Standard input signal for most experiments.
controlid: wgEncodeEH000037
replicate: 1,2
softwareversion: ScriptureVPaperR3
|
| Biomaterial provider |
Coriell; http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM12878
|
| Growth protocol |
GM12878_protocol.pdf
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
For extraction protocol details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeBroadHistone
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Data processing |
For data processing details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeBroadHistone
|
| |
|
| Submission date |
May 27, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
[email protected]
|
| Organization name |
ENCODE DCC
|
| Street address |
300 Pasteur Dr
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
| |
|
| Platform ID |
GPL10999 |
| Series (2) |
| GSE29611 |
Histone Modifications by ChIP-seq from ENCODE/Broad Institute |
| GSE51334 |
DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions |
|
| Relations |
| Reanalyzed by |
GSM936082 |
| SRA |
SRX067459 |
| BioSample |
SAMN00622129 |
| Named Annotation |
GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k04me3StdSigV2.bigWig |
| Named Annotation |
GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k4me3StdSig.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k04me3StdAlnRep2V2.bam |
1.6 Gb |
(ftp)(http) |
BAM |
| GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k04me3StdPkV2.broadPeak.gz |
1.1 Mb |
(ftp)(http) |
BROADPEAK |
| GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k04me3StdSigV2.bigWig |
484.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k4me3StdAlnRep1.bam |
1.2 Gb |
(ftp)(http) |
BAM |
| GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k4me3StdAlnRep2.bam |
257.9 Mb |
(ftp)(http) |
BAM |
| GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k4me3StdPk.broadPeak.gz |
924.0 Kb |
(ftp)(http) |
BROADPEAK |
| GSM733708_hg19_wgEncodeBroadHistoneGm12878H3k4me3StdSig.bigWig |
434.3 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
