|
Status |
Public on Jul 19, 2021 |
Title |
Huh751_D10_2 |
Sample type |
SRA |
|
|
Source name |
Huh751_D10_2
|
Organism |
Homo sapiens |
Characteristics |
objective response: Huh751 DMSO differentiation Day 10 Replicate 2 cell line: Huh751
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA from each sample was collected using TRIzol (Invitrogen) and quantified by nanodrop (Thermo Fisher). Only RNA samples with RNA integrity number (RIN) > 9 by Agilent 2100 bioanalyzer (Cat# G2939BA, Agilent Technologies) were used. RNA-Seq libraries were prepared by using TruSeq kit (Cat# RS-122-2001, Illumina) NextSeq genome sequencer (Cat# SY-415-1002, Illumina), 75nt, Single-End Read, 4 samples per lane
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|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
NextSeq 550 |
|
|
Data processing |
The Illumina TruSeq RNA kit was used for 75nt/single end reads, 4 samples were run per lane using the standard Truseq indices. Raw cDNA reads are aligned to the hg19 reference with the spliced gap aligner STAR, with count-based quantitation carried out via the Subread package featureCounts at the geneic levels for annotation builds. Genome_build: hg19 Supplementary_files_format_and_content: txt format; the read count for each gene
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|
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Submission date |
Mar 17, 2021 |
Last update date |
Jun 29, 2022 |
Contact name |
Shijia Zhu |
E-mail(s) |
shijia.zhu@utsouthwestern.edu
|
Organization name |
University of Texas Southwestern Medical Center
|
Street address |
5323 Harry Hines Blvd
|
City |
DALLAS |
State/province |
Texas |
ZIP/Postal code |
75390 |
Country |
USA |
|
|
Platform ID |
GPL21697 |
Series (2) |
GSE66843 |
A cell-based model unravels drivers for hepatocarcinogenesis and targets for clinical chemoprevention |
GSE169084 |
A human liver cell-based system modeling a clinical prognostic liver signature combined with single-cell RNA-Seq for discovery of liver disease therapeutics |
|
Relations |
BioSample |
SAMN18334891 |
SRA |
SRX10366605 |