|
| Status |
Public on Oct 23, 2017 |
| Title |
H3122-H4 Criz_7days [lab: Hammerman-DFCI] |
| Sample type |
SRA |
| |
|
| Source name |
Lung Adenocarcinoma
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: H3122
tissue: Lung
drug: Crizotinib
concentration: 250nM
treatment duration: 7D
|
| Treatment protocol |
Cells were treated with Crizotinib (250nM) for 7D prior to harvesting
|
| Growth protocol |
Cells were cultured in RPMI 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 |
SAMN05937488 |
| SRA |
SRX2266612 |
