 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on May 22, 2012 |
| Title |
USC_ChipSeq_K562_MNaseD_SETDB1_UCDavis |
| Sample type |
SRA |
| |
|
| Source name |
K562
|
| Organism |
Homo sapiens |
| Characteristics |
lab: USC
lab description: Farnham - University of Southern California
datatype: ChipSeq
datatype description: Chromatin IP Sequencing
cell: K562
cell organism: human
cell description: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC
cell karyotype: cancer
cell lineage: mesoderm
cell sex: F
treatment: MNaseD
treatment description: Fragmented using micrococcal nuclease digestion
antibody: SETDB1
antibody antibodydescription: Rabbit polyclonal. Antibody Target: SETDB1
antibody targetdescription: SET domain, bifurcated 1, the SET domain is a highly conserved, approximately 150-amino acid motif implicated in the modulation of chromatin structure
antibody vendorname: Proteintech Group
antibody vendorid: 11231-1-AP
control: UCDavis
control description: Input library was prepared at UC Davis.
control: UCDavis
control description: Input library was prepared at UC Davis.
controlid: wgEncodeEH000672
labversion: remapped from hg18, Fragmented using MNase and used proteinA agarose beads for ChIPs, PeakSeq 1.0 (fdr 0.001)
replicate: 1
|
| Biomaterial provider |
ATCC
|
| Treatment protocol |
MNaseD
|
| Growth protocol |
K562_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=wgEncodeSydhTfbs
|
| |
|
| 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=wgEncodeSydhTfbs
|
| |
|
| Submission date |
May 22, 2012 |
| 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 |
GPL9052 |
| Series (1) |
| GSE31477 |
ENCODE Transcription Factor Binding Sites by ChIP-seq from Stanford/Yale/USC/Harvard |
|
| Relations |
| SRA |
SRX150652 |
| BioSample |
SAMN01001112 |
| Named Annotation |
GSM935573_hg19_wgEncodeSydhTfbsK562Setdb1MnasedUcdSig.bigWig |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM935573_hg19_wgEncodeSydhTfbsK562Setdb1MnasedUcdPk.narrowPeak.gz |
28.3 Kb |
(ftp)(http) |
NARROWPEAK |
| GSM935573_hg19_wgEncodeSydhTfbsK562Setdb1MnasedUcdSig.bigWig |
390.7 Mb |
(ftp)(http) |
BIGWIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
