|
Status |
Public on Jun 01, 2014 |
Title |
GM12878-37C-Input-Rep1-SL45100 |
Sample type |
SRA |
|
|
Source name |
GM12878
|
Organism |
Homo sapiens |
Characteristics |
chip-antibody: n/a, input sample
|
Biomaterial provider |
http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM12878
|
Growth protocol |
GM12878 cells were grown under the standard ENCODE protocols (http://genome.ucsc.edu/encode/protocols/cell/human/Jurkat_protocol.pdf and http://genome.ucsc.edu/encode/protocols/cell/human/GM12878_protocol.pdf)
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Cells were fixed using 1% formaldehyde or 1% formaldehyde at 37C Libraries were generated following Illumina's DNA Sample Prep Kit protocol
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
base calling: Casava1.8 read alignment: Bowtie 0.12.7 bedgraph track generation: custom-written python script Genome_build: mm9 Supplementary_files_format_and_content: bedgraph of read coverage, normalized to RPM (Read Per Million)
|
|
|
Submission date |
Feb 25, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Georgi Kolev Marinov |
Organization name |
STANFORD UNIVERSITY
|
Department |
Genetics
|
Street address |
279 Campus Drive West, Beckman Center, B-257A/259
|
City |
Stanford |
State/province |
California |
ZIP/Postal code |
94305-5101 |
Country |
USA |
|
|
Platform ID |
GPL11154 |
Series (1) |
GSE53366 |
Automated high-throughput chromatin immunoprecipitation |
|
Relations |
BioSample |
SAMN02664522 |
SRA |
SRX475745 |