|
| Status |
Public on Oct 14, 2011 |
| Title |
Duke_DnaseSeq_Gliobla |
| Sample type |
SRA |
| |
|
| Source name |
Gliobla
|
| Organism |
Homo sapiens |
| Characteristics |
datatype: DnaseSeq
datatype description: DNaseI HS Sequencing
controlid: Gliobla/Input
labversion: baseAlignCounts.pl v 1,fseq v 1.84, iff_H54,p-value cutoff: 0.05
replicate: 1,2
cell organism: human
cell description: glioblastoma, these cells (aka H54 and D54) come from a surgical resection from a patient with glioblastoma multiforme (WHO Grade IV). D54 is a commonly studied glioblastoma cell line (Bao et al., 2006) that has been thoroughly described by S Bigner (1981). (PMID: 7252524)
cell karyotype: cancer
cell lineage: ectoderm
cell sex: U
controlid: Gliobla/Input
labversion: align_on_cluster_bwa.pl v 1
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
Dr. Darrell Bigner at Duke University Medical Center
|
| Growth protocol |
D54_Crawford_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=wgEncodeOpenChromDnase
|
| |
|
| Library strategy |
DNase-Hypersensitivity |
| Library source |
genomic |
| Library selection |
DNAse |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Data processing |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeOpenChromDnase
|
| |
|
| Submission date |
Oct 13, 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 (1) |
| GSE32970 |
Open Chromatin by DNaseI HS from ENCODE/OpenChrom(Duke University) |
|
| Relations |
| Reanalyzed by |
GSM1002662 |
| Reanalyzed by |
GSE53962 |
| Reanalyzed by |
GSE54296 |
| Reanalyzed by |
GSE59016 |
| SRA |
SRX100916 |
| BioSample |
SAMN00739127 |
| Named Annotation |
GSM816668_hg19_wgEncodeOpenChromDnaseGlioblaBaseOverlapSignal.bigWig |
| Named Annotation |
GSM816668_hg19_wgEncodeOpenChromDnaseGlioblaSig.bigWig |
