|
| Status |
Public on May 15, 2014 |
| Title |
Hela cell CFIm25 knock down rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Hela
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: CFIm25 knockdown
cell line: HeLa
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using TriZol reagent and ~10 ug was submitted to LC Sciences for Sequencing
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Uniquely aligned to the reference genome using TopHat 2.0.10 with provided Ensembl GTF gene annotation
Calculate the coverage Wig/bedgraph file based on Aligned BAM files using tool wiggles from TopHat package
Genome_build: hg19
Supplementary_files_format_and_content: Read coverage Wig/bedgraph files for 4 samples
|
| |
|
| Submission date |
Apr 15, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Zheng Xia |
| E-mail(s) |
xiaz@ohsu.edu
|
| Organization name |
Oregon Health & Science University
|
| Department |
Department of Biomedical Engineering
|
| Lab |
Xia Lab
|
| Street address |
3181 SW Sam Jackson Park Rd
|
| City |
Portland |
| State/province |
Oregon |
| ZIP/Postal code |
97239 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE42420 |
CFIm25 links alternative polyadenylation to glioblastoma tumour suppression |
|
| Relations |
| BioSample |
SAMN02727883 |
| SRA |
SRX517306 |
