|
Status |
Public on May 15, 2014 |
Title |
Hela cell CFIm25 knock down rep2 |
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 |
SAMN02727885 |
SRA |
SRX517307 |