|
| Status |
Public on Apr 29, 2024 |
| Title |
SK-HEP1 Non-Target Expressing cells (Replicate_2) |
| Sample type |
SRA |
| |
|
| Source name |
SK-HEP1 cell lines
|
| Organism |
Homo sapiens |
| Characteristics |
genotype/variation: Non-Target ALK Expressing control cells
cell line: SK-HEP1
|
| Treatment protocol |
HepG2, SK-HEP1 and SNU449 cells stably expressing either Non-Targeting or ALK targeted inhibition were used for preparing the total RNA and to perfrom gene expression array.
|
| Growth protocol |
HepG2 and SK-HEP1 cells stably expressing either Non-Targeting or ALK Targeted inhibition were grown in DMEM medium with 10% Fetal bovine serum and Penicilline and Streptomycin at 37 C under 5% CO2 condition. SNU449 cells were growth in RPMI-1640 with 10% FBS plus Penicilline and Streptomycin at the same condition as the other two cell lines.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol reagent (Invitrogen) as per the instruction from the manufacture and then purified using RNAeasy mini columns (Qiagen) as per the manufactures instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
C8
|
| Data processing |
The reads were first mapped to the latest UCSC transcript set using Bowtie2 version 2.1.0 and the gene expression level was estimated using RSEM v1.2.15.
Genome_build: hg38
Supplementary_files_format_and_content: tab-delimited text files include raw count values for each Sample
|
| |
|
| Submission date |
Jun 15, 2021 |
| Last update date |
Apr 29, 2024 |
| Contact name |
Narendra Wajapeyee |
| E-mail(s) |
nwajapey@uab.edu
|
| Phone |
205-934-5331
|
| Organization name |
University of Alabama at Birmingham
|
| Department |
Department of Biochemistry and Molecular Genetics
|
| Street address |
720 20th Street South, Kaul 540A
|
| City |
Birmingham |
| State/province |
AL |
| ZIP/Postal code |
35233 |
| Country |
USA |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE178211 |
ALK inhibitors suppress HCC and synergize with anti-PD-1 therapy and ABT-263 in preclinical models |
|
| Relations |
| BioSample |
SAMN19708246 |
| SRA |
SRX11146093 |
