 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Sep 29, 2011 |
| Title |
HudsonAlpha_ChipSeq_GM12878_PAX5-C20_PCR1x |
| Sample type |
SRA |
| |
|
| Source name |
GM12878
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell description: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
antibody antibodydescription: Goat polyclonal IgG, 200 micrograms/ml. Epitope mapping at the C-terminus of Pax-5 of human origin. Recommended for detection of Pax-5 of m, r and h origin by WB, IP, IF, IHC(P) and ELISA. Antibody Target: PAX5
antibody targetdescription: This gene encodes a member of the paired box (PAX) family of transcription factors. The central feature of this gene family is a novel, highly conserved DNA-binding motif, known as the paired box. PAX proteins are important regulators in early development, and alterations in the expression of their genes are thought to contribute to neoplastic transformation.
antibody vendorname: Santa Cruz Biotechnology
antibody vendorid: sc-1974
protocol description: one 15-cycle round of PCR (Myers)
controlid: SL678,SL517
labexpid: SL735,SL675
labversion: 5,6
replicate: 1,2
softwareversion: MACS
antibody vendorname: Santa Cruz Biotech
antibody vendorid: sc-1974
treatment: None
treatment description: No special treatment or protocol applies
protocol: PCR1x
protocol description: 1-cycle of PCR (Myers)
controlid: SL678
labexpid: SL675
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
Coriell; http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM12878
|
| Treatment protocol |
None
|
| Growth protocol |
GM12878_protocol.pdf
|
| 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=wgEncodeHaibTfbs
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs
|
| |
|
| Submission date |
Sep 28, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
ENCODE DCC |
| E-mail(s) |
encode-help@lists.stanford.edu
|
| Organization name |
ENCODE DCC
|
| Street address |
300 Pasteur Dr
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5120 |
| Country |
USA |
| |
|
| Platform ID |
GPL9052 |
| Series (2) |
| GSE32465 |
Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB |
| GSE51334 |
DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions |
|
| Relations |
| SRA |
SRX100436 |
| BioSample |
SAMN00738353 |
| Named Annotation |
GSM803391_hg19_wgEncodeHaibTfbsGm12878Pax5c20Pcr1xRawRep1.bigWig |
| Named Annotation |
GSM803391_hg19_wgEncodeHaibTfbsGm12878Pax5c20Pcr1xRawRep2.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM803391_hg19_wgEncodeHaibTfbsGm12878Pax5c20Pcr1xPkRep1.broadPeak.gz |
808.0 Kb |
(ftp)(http) |
BROADPEAK |
| GSM803391_hg19_wgEncodeHaibTfbsGm12878Pax5c20Pcr1xPkRep2.broadPeak.gz |
435.2 Kb |
(ftp)(http) |
BROADPEAK |
| GSM803391_hg19_wgEncodeHaibTfbsGm12878Pax5c20Pcr1xRawRep1.bigWig |
60.9 Mb |
(ftp)(http) |
BIGWIG |
| GSM803391_hg19_wgEncodeHaibTfbsGm12878Pax5c20Pcr1xRawRep2.bigWig |
17.1 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
