|
| Status |
Public on Feb 01, 2018 |
| Title |
GIST48_Day3_siETV1_2 |
| Sample type |
SRA |
| |
|
| Source name |
GIST48 cells with siETV1 knockdown
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: GIST48 cells
|
| Treatment protocol |
Cells were transfected with siRNA and harvested 3 days after transfection
|
| Growth protocol |
Cells were grown in F-12 media containing 15% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent and 1 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
The sequenced reads from fastq files were mapped to hg19 using STAR and and downstream processing was done usig cuffquant
Genome_build: hg19
Supplementary_files_format_and_content: xls file including FPKM values for each Sample ...
|
| |
|
| Submission date |
Nov 07, 2017 |
| Last update date |
Feb 01, 2018 |
| Contact name |
Yuedan Chen |
| E-mail(s) |
cheny2@mskcc.org
|
| Phone |
9178682542
|
| Organization name |
Memorial Sloan Kettering Cancer Center
|
| Department |
HOPP
|
| Lab |
Ping Chi
|
| Street address |
417 E 68TH ST., Room 527
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
11101 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE106625 |
Expression profile of GIST48 cells with siETV1 or siFOXF1 knockdown |
| GSE106626 |
FOXF1 defines the core-regulatory circuitry in gastrointestinal stromal tumor (GIST) |
|
| Relations |
| BioSample |
SAMN07988779 |
