|
| Status |
Public on Aug 31, 2011 |
| Title |
USC_ChipSeq_NT2-D1_H3K9me3_UCDavis |
| Sample type |
SRA |
| |
|
| Source name |
NT2-D1
|
| Organism |
Homo sapiens |
| Characteristics |
lab: USC
lab description: Farnham - University of Southern California
datatype: ChipSeq
datatype description: ChIP-Seq
cell: NT2-D1
cell organism: human
cell description: malignant pluripotent embryonal carcinoma (Ntera2), "The NTERA-2 cl.D1 cell line is a pluripotent human testicular embryonal carcinoma cell line derived by cloning the NTERA-2 cell line." - ATCC. (PMID: 6694356)
cell karyotype: cancer
cell lineage: inner cell mass
cell sex: M
treatment: None
treatment description: No special treatment or protocol applies
antibody: H3K9me3
antibody antibodydescription: rabbit polyclonal, ChIP grade
antibody targetdescription: Histone H3 (tri methyl K9). Is associated with repressive heterochromatic state (silenced chromatin). NOTE CONTRAST to H3K9me1 which is associated with active and accessible regions.
antibody vendorname: Abcam
antibody vendorid: ab8898
control: UCDavis
control description: Input library was prepared at UC Davis.
control: UCDavis
control description: Input library was prepared at UC Davis.
controlid: wgEncodeEH000654
replicate: 1
replicate description: tier 1
|
| Biomaterial provider |
ATCC
|
| Treatment protocol |
None
|
| Growth protocol |
NT2-D1_protocol.pdf
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeSydhHistone
|
| |
|
| 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=wgEncodeSydhHistone
|
| |
|
| Submission date |
Aug 30, 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) |
| GSE31755 |
Histone Modifications by ChIP-seq from ENCODE/Stanford/Yale/Davis/Harvard |
|
| Relations |
| SRA |
SRX095375 |
| BioSample |
SAMN00715079 |
| Named Annotation |
GSM788080_wgEncodeSydhHistoneNt2d1H3k09me3UcdSig.bigWig |
