|
Status |
Public on Oct 04, 2016 |
Title |
iPSC_2 |
Sample type |
SRA |
|
|
Source name |
Induced pluripotent stem cells derived from CD4+ T-cells
|
Organism |
Homo sapiens |
Characteristics |
cell line: ATR2 days_differentiated: 0 passage_number: 5 genotype/variation: WT
|
Treatment protocol |
No treatment
|
Growth protocol |
iPSC culture and mDA differentiation protocols are described in the methods section of the article
|
Extracted molecule |
total RNA |
Extraction protocol |
Total cellular RNA was prepared using a Qiagen Rneasy kit Libraries were built using the PureLink Kit
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Data processing |
Base-calling performed by Illumina pipeline Alignment to hg19 UCSC transcript map using TopHat Comparisons between groups performed using Cuffdiff Data analysis and visualization using Cummerbund in R Genome_build: hg19 Supplementary_files_format_and_content: Processed data obtained using the fpkmMatrix function in Cummerbund, results are FPKM per replicate
|
|
|
Submission date |
Apr 01, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Ronald P. Hart |
E-mail(s) |
rhart@rutgers.edu
|
Phone |
848-445-1783
|
Organization name |
Rutgers University
|
Department |
Cell Biology & Neuroscience
|
Street address |
604 Allison Rd Rm B430
|
City |
Piscataway |
State/province |
NJ |
ZIP/Postal code |
08854 |
Country |
USA |
|
|
Platform ID |
GPL16791 |
Series (1) |
GSE56398 |
Increased response to nicotine in human dopaminergic neurons derived from iPSC carrying the risk-associated SNP rs16969968 |
|
Relations |
SRA |
SRX495155 |
BioSample |
SAMN02691700 |