|
| Status |
Public on May 15, 2019 |
| Title |
HU8110 |
| Sample type |
SRA |
| |
|
| Source name |
Primary hepatocytes
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Human plateable hepatocytes, Metabolism qualified
|
| Biomaterial provider |
Thermo Fisher Scientific
|
| Growth protocol |
For RNA-seq analysis, primary human hepatocytes from each vial (Thermo Fisher Scientific) were thawed and spun down and then immediately processed for RNA isolation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
miRNeasy Mini Kit (QIAGEN)
TruSeq Stranded mRNA Library Prep Kit (Illumina)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
For RNA-seq analysis, primary human hepatocytes from each vial (Thermo Fisher Scientific) were thawed and spun down and then immediately processed for RNA isolation
|
| Data processing |
Quality control for raw fastq files were assessed using FastQC
Adaptor trimming for Illumina paired-end libraries was applied using TrimGalore!
Sequenced reads were aligned with reference genome using STAR aligner
RNA-seq quantified as transcripts per million (TPMs) using RSEM
Genome_build: hg19/GRCh37
Supplementary_files_format_and_content: TPM measurements
|
| |
|
| Submission date |
May 14, 2019 |
| Last update date |
May 15, 2019 |
| Contact name |
Daniel J Rader |
| E-mail(s) |
rader@pennmedicine.upenn.edu
|
| Organization name |
University of Pennsylvania
|
| Department |
ITMAT
|
| Lab |
Rader Lab
|
| Street address |
3400 Civic Center Blvd
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19103 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE131159 |
Large, Diverse Population Cohorts of hiPSCs and Derived Hepatocyte-like Cells Reveal Functional Genetic Variation at Blood Lipid-Associated Loci |
|
| Relations |
| BioSample |
SAMN11638250 |
| SRA |
SRX5827766 |
