|
| Status |
Public on Mar 05, 2013 |
| Title |
H3K9/14Ac |
| Sample type |
SRA |
| |
|
| Source name |
TC-797
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: NUT Midline Carcinoma cell line
cell line: TC-797
Sex: female
antibody_target: Histone H3 Lysine 9/14 acetylation
|
| Growth protocol |
DMEM supplemented with 10% fetal bovine serum, pen-strep, and L-glutamine
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP-seq libraries were constructed per the Illumnia ChIP DNA library preparation kit.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
acetylated H3K9/K14 ChIP-Seq in TC-797 cells
|
| Data processing |
Reads were uniquely aligned (--best -k 1 --strata -M 10) to the human genome (hg19 assembly) excluding chromosome Y (to avoid rejecting reads mapping to the pseudo-autosomal region) using the bowtie short read aligner (http://bowtie-bio.sourceforge.net/index.shtml) to report the single best match per read. Replicate reads with identical start and end positions were collapsed before using SPP (http://compbio.med.harvard.edu/Supplements/ChIP-seq/) to generate smoothed density maps of H3K9/K14ac ChIP reads corrected for IgG input.
Genome Build:
TC797_H3K9K14ac.map.gz: hg19
TC797_H3K9K14ac.bw.gz: hg19
|
| |
|
| Submission date |
Mar 14, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Chris A French |
| E-mail(s) |
cfrench@partners.org
|
| Phone |
6175254415
|
| Organization name |
BWH
|
| Department |
Pathology
|
| Street address |
75 francis st.
|
| City |
boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL9052 |
| Series (1) |
|
| Relations |
| SRA |
SRX129680 |
| BioSample |
SAMN00828616 |
