|
Status |
Public on Jul 29, 2016 |
Title |
GFP 2 |
Sample type |
SRA |
|
|
Source name |
CD34+ hematopoietic stem cells
|
Organism |
Homo sapiens |
Characteristics |
source: peripheral blood mobilized stem cells passages: primary stem cells cultured for 14 days antibody: anti-FLAG M2 (Sigma-Aldrich, Catalog no. F3165) transduction: GFP lentivirus
|
Treatment protocol |
Transduced with lentivirus
|
Growth protocol |
Grown in X-vivo 15 medium, supplemented with human SCF, Flt3L, TPO and IL-3 for 14 days
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Diagenode ChIP-seq kit University of California, Davis Genomics Core
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina HiSeq 4000 |
|
|
Data processing |
FASTQC (check quality) 0.63 FAST groomer 1.04 BWA for illumina (MAP the reads to the genome) 1.2.3 MACS2 callpeak (Peak identification: Enrichement fold 2.5, FDR:0.05) 2.1.0.20151222.0 IDR (To identified peaks between replicates, FDR:0.05) 2012 Genome_build: hg38, Dec 2013
|
|
|
Submission date |
Jul 28, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Divya Punwani |
E-mail(s) |
divya.punwani@ucsf.edu
|
Phone |
4154763674
|
Organization name |
University of California San Francisco
|
Department |
Pediatrics
|
Street address |
555 Mission bay blvd south
|
City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94158 |
Country |
USA |
|
|
Platform ID |
GPL20301 |
Series (1) |
GSE84941 |
Bcl11b defect in a human severe combined immunodeficiency with multisystem anomalies |
|
Relations |
BioSample |
SAMN05461985 |
SRA |
SRX1986460 |