|
| Status |
Public on Mar 12, 2017 |
| Title |
ChIP-seq from PC-9 (ENCLB187KMZ) |
| Sample type |
SRA |
| |
|
| Source name |
Homo sapiens PC-9 immortalized cell line
|
| Organism |
Homo sapiens |
| Characteristics |
antibody: H3K27ac
line: PC-9
biomaterial_type: immortalized cell line
description: PC-14 was originally deposited with the Riken BioResource Center as a cell line derived from human lung adenocarcinoma (undifferentiated type) in 1989. The RIKEN BioResource Center subsequently informed the European Collection of Cell Cultures (ECACC) that short tandem repeat (STR) DNA profile analysis, undertaken in collaboration Immuno-Biological Laboratories Co., Ltd Japan, has shown this cell line to be identical to PC-9 a cell line derived from human lung adenocarcinoma (differentiated type). The misidentification occurred prior to the cell line being deposited at the RIKEN BioResource Center. The name of the cell line has been changed to PC-9 to reflect this finding
biosample encode accession: ENCBS987JQH (SAMN06464582)
dev stage: unknown
Sex: not collected
age: unknown
lab: Bradley Bernstein, Broad
link: ENCBS987JQH at ENCODE; https://www.encodeproject.org/ENCBS987JQH/
link: Derived from ENCODE donor ENCDO647UHQ; https://www.encodeproject.org/ENCDO647UHQ/
link: ENCODE dbxrefs Cellosaurus CVCL_B260; http://web.expasy.org/cellosaurus/CVCL_B260
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
general protocol: https://www.encodeproject.org/documents/be2a0f12-af38-430c-8f2d-57953baab5f5/@@download/attachment/Epigenomics_Alternative_Mag_Bead_ChIP_Protocol_v1.1_exp.pdf
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
https://www.encodeproject.org/experiments/ENCSR769FOC/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR769FOC
assay title: ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR011GWK
encode release date: 2016-05-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB187KMZ
size range: 200-600
|
| Data processing |
See GSM*_README.txt supplementary file linked below
|
| |
|
| Submission date |
Mar 12, 2017 |
| 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 |
GPL16791 |
| Series (1) |
| GSE96366 |
ChIP-seq from PC-9 (ENCSR769FOC) |
|
| Relations |
| BioSample |
SAMN06464582 |
| SRA |
SRX2636287 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2534418_ENCFF031ZNH_peaks_hg19.bed.gz |
1.6 Mb |
(ftp)(http) |
BED |
| GSM2534418_ENCFF187GWT_signal_p-value_GRCh38.bigWig |
1.5 Gb |
(ftp)(http) |
BIGWIG |
| GSM2534418_ENCFF343ZNB_signal_p-value_hg19.bigWig |
1.4 Gb |
(ftp)(http) |
BIGWIG |
| GSM2534418_ENCFF344GUG_peaks_GRCh38.bed.gz |
1.6 Mb |
(ftp)(http) |
BED |
| GSM2534418_ENCFF530JLU_fold_change_over_control_GRCh38.bigWig |
1.4 Gb |
(ftp)(http) |
BIGWIG |
| GSM2534418_ENCFF533YVZ_peaks_hg19.bigBed |
4.2 Mb |
(ftp)(http) |
BIGBED |
| GSM2534418_ENCFF784QPW_fold_change_over_control_hg19.bigWig |
1.4 Gb |
(ftp)(http) |
BIGWIG |
| GSM2534418_ENCFF886XFH_peaks_GRCh38.bigBed |
4.2 Mb |
(ftp)(http) |
BIGBED |
| GSM2534418_ENCLB187KMZ_README.txt.gz |
1.7 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
| Processed data provided as supplementary file |
