|
Status |
Public on Nov 03, 2014 |
Title |
LCL12878_H3K4me1 |
Sample type |
SRA |
|
|
Source name |
Lymphoblastoid cell lines
|
Organism |
Homo sapiens |
Characteristics |
cell type: lymphoblastic cell line chip antibody: H3K4me1 (abcam; ab8895)
|
Growth protocol |
Lymphoblastic cell lines were cultured in RPMI 1640 medium supplemented with penicillin/streptomycin, 2 mM L-Glutamine and 15% heat-inactivated fetal bovine serum. The cells were grown at 37°C and 5% CO2. The cell growth was monitored using a hemocytometer and cultures were harvested at a density of 0.8–1.1×106 cells/ml. The cells were lyzed by resuspension in Trizol reagent.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Libraries were prepared according to the Illumina TruSeq protocol, and quality assessed by Agilent 2100 BioAnalyzer.
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
Trimmomatic v0.22 was used for trimming reads for quality (phred33>=30) and length (n>=32) For ChIP-seq, filtered reads were aligned to hg19 using BWA v0.6.1. Genome_build: hg19
|
|
|
Submission date |
Jul 11, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Tony Kwan |
E-mail(s) |
tony.kwan@mcgill.ca
|
Phone |
514-398-3311
|
Organization name |
McGill University
|
Department |
Human Genetics
|
Street address |
740 Dr. Penfield
|
City |
Montreal |
State/province |
Quebec |
ZIP/Postal code |
H3A 0G1 |
Country |
Canada |
|
|
Platform ID |
GPL11154 |
Series (1) |
GSE53837 |
Allelic expression mapping across cell lineages reveal repressor disruption among disease SNPs |
|
Relations |
BioSample |
SAMN02910205 |
SRA |
SRX651495 |