|
| Status |
Public on Aug 15, 2019 |
| Title |
OTX_rep_3 |
| Sample type |
SRA |
| |
|
| Source name |
A549
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: OTX015
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mRNA was extracted from DMSO and OTX015 treated cells
mRNA-seq libraries were prepared using NEBNext Poly(A) mRNA Magnetic Isolation Library Prep Kit for Illumina according to the manusfacture's protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Basecalls performed using bcl2fastq version 2.18
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 whole genome using Tophat 2.1.1
Use Cufflinks version 2.1.1 compute the FPKM, use Refseq GTF file to transcript annotations
RNA-seq data analysis using Excel to compute the Fold change and p-value.
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample processed by cufflinks
|
| |
|
| Submission date |
Aug 16, 2018 |
| Last update date |
Aug 17, 2019 |
| Contact name |
Lingyun Zheng |
| E-mail(s) |
zhenglingyun@gdpu.edu.cn
|
| Organization name |
Guangdong Pharmaceutical University
|
| Department |
School of Life Sciences and Biopharmaceutics
|
| Street address |
280 Wai Huan Dong Lu, Guangzhou Higher Education Mega Center
|
| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510006 |
| Country |
China |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE118645 |
BCL6 confers KRAS-mutant NSCLCs resistance to BET inhibitors |
|
| Relations |
| BioSample |
SAMN09843566 |
| SRA |
SRX4559877 |
