|
Status |
Public on Oct 23, 2017 |
Title |
A375-C3 Combo_THZ1_Vem [lab: Hammerman-DFCI] |
Sample type |
SRA |
|
|
Source name |
Melanoma
|
Organism |
Homo sapiens |
Characteristics |
cell line: A375 tissue: Skin drug: Vemurafenib / THZ1 concentration: 1 uM / 50 nM treatment duration: 48h
|
Treatment protocol |
Cells were treated with Vemurafenib / THZ1 (1 uM / 50 nM) for 48h prior to harvesting
|
Growth protocol |
A375 cells were cultured in DMEM media, supplemented with 10% FBS, and penicillin/streptomycin/L-glutamine. Cells were cultured at 37 °C in a humidified chamber in the presence of 5% CO2.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was isolated using the RNeasy micro kit (Qiagen). cDNA libraries were prepared using the NEBNext Ultra™ RNA Library Prep Kit for Illumina (New England Biolabs) according to the manufacturer’s instructions. Library integrity was assessed on an Agilent 2100 Bioanalyzer (Agilent). RNeasy micro kit (Qiagen)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
Aligned using bowtie2 v2.2.1 and quantified using RSEM v1.2.12. hg19 prepared using RSEM with bowtie2 and transcript annotations from Gencode release12. Genome_build: hg19 Supplementary_files_format_and_content: matrix file with expression counts for each sample
|
|
|
Submission date |
Oct 24, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Richard A Young |
E-mail(s) |
young_computation@wi.mit.edu
|
Phone |
617-258-5219
|
Organization name |
Whitehead Institute for Biomedical Research
|
Lab |
Young Lab
|
Street address |
9 Cambridge Center
|
City |
Cambridge |
State/province |
MA |
ZIP/Postal code |
02142 |
Country |
USA |
|
|
Platform ID |
GPL11154 |
Series (2) |
GSE89127 |
Suppression of adaptive responses to targeted cancer therapy by transcriptional repression [RNA-seq] |
GSE89129 |
Suppression of adaptive responses to targeted cancer therapy by transcriptional repression |
|
Relations |
BioSample |
SAMN05937363 |
SRA |
SRX2266573 |