|
| Status |
Public on Feb 09, 2015 |
| Title |
Discovery of cis-spliced chimeric RNAs between adjacent genes in human prostate cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Total RNA extracted from prostate cancer LNCaP cells transfected with siRNA against CTCF(siCTCF), or negative control siRNA (si-)were processed, and sequenced by two different companies using Illumina Hi-seq 2000 platform to generate RNA sequencing with two output sequences: paired-end 50bp and 101bp in read length. Nearly 100 million and 50 million raw reads were yielded from each sample respectively. We used FastQC to confirm the quality of raw fastq sequencing data, and SOAPfuse software to detect fusion transcripts.
|
| |
|
| Overall design |
Discovering fusion genes from siCTCF and si- in LNCaP cells.
|
| |
|
| Contributor(s) |
Qin F, Li H |
| Citation(s) |
25658338 |
| Submission date |
Nov 19, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Fujun Qin |
| E-mail(s) |
qinfujun1981@gmail.com
|
| Phone |
434-982-6680
|
| Organization name |
University of Virginia
|
| Department |
Pathology
|
| Lab |
Dr.Hui LI
|
| Street address |
345 Crispell Dr.
|
| City |
Charlottesville |
| State/province |
VA |
| ZIP/Postal code |
22908 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (6)
|
|
| Relations |
| BioProject |
PRJNA268024 |
| SRA |
SRP050061 |
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