NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM736565 Query DataSets for GSM736565
Status Public on Jun 03, 2011
Title Stam_LNCaP_1
Sample type SRA
 
Source name LNCaP
Organism Homo sapiens
Characteristics cell: LNCaP
cell organism: Human
cell description: prostate adenocarcinoma, "LNCaP clone FGC was isolated in 1977 by J.S. Horoszewicz, et al., from a needle aspiration biopsy of the left supraclavicular lymph node of a 50-year-old Caucasian male (blood type B+) with confirmed diagnosis of metastatic prostate carcinoma." - ATCC. (Horoszewicz et al. LNCaP Model of Human Prostatic Carcinoma. Cancer Research 43, 1809-1818, April 1983.)
cell karyotype: cancer
cell lineage: endoderm
cell sex: M
replicate: 1
Biomaterial provider ATCC
Growth protocol Cells were grown according to ENCODE cell culture protocols: http://genome.ucsc.edu/ENCODE/protocols/cells/human/Duke/UNC/UTA/EBI_Open_Chromatin:LNCaP_Crawford_protocol.pdf Yale_TFBS(Farnham):LNCaP_protocol.pdf UW_Stam:LNCaP_Stam_protocol.pdf
Extracted molecule genomic DNA
Extraction protocol For extraction protocol details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeUwDnase
 
Library strategy DNase-Hypersensitivity
Library source genomic
Library selection DNAse
Instrument model Illumina Genome Analyzer II
 
Data processing For data processing details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeUwDnase
 
Submission date Jun 02, 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 GPL9115
Series (2)
GSE29692 DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington
GSE51336 Mouse regulatory DNA landscapes reveal global principles of cis-regulatory evolution
Relations
Reanalyzed by GSE53962
Reanalyzed by GSE54296
Reanalyzed by GSE59016
SRA SRX069158
BioSample SAMN00622283
Named Annotation GSM736565_hg19_wgEncodeUwDnaseLncapRawRep1.bigWig

Supplementary file Size Download File type/resource
GSM736565_hg19_wgEncodeUwDnaseLncapAlnRep1.bam 1.6 Gb (ftp)(http) BAM
GSM736565_hg19_wgEncodeUwDnaseLncapHotspotsRep1.broadPeak.gz 3.1 Mb (ftp)(http) BROADPEAK
GSM736565_hg19_wgEncodeUwDnaseLncapPkRep1.narrowPeak.gz 2.0 Mb (ftp)(http) NARROWPEAK
GSM736565_hg19_wgEncodeUwDnaseLncapRawRep1.bigWig 142.5 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap