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| Status |
Public on Feb 13, 2018 |
| Title |
A cell cycle-based functional screen to identify lncRNA-based cancer biomarkers |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
We report S-phase cancer associated lncRNAs which were identified using nascent RNA capture assay in HeLa cells. Coupling high throughput RNA sequencing with clinical investigation across TCGA datasets we identified a number of lncRNAs that act as prognostic biomarkers for survival in different cancer types
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| Overall design |
The differential expression levels of S-phase specific lncRNAs across TCGA datasets were assessed. The clinical values of the differentially expressed lncRNAs were predicted using Kaplan-Meir, univariate and multivariate Cox regression analysis. Functional characterization for different lncRNAs was done using knockdown strategies followed by RNA-seq
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| |
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| Contributor(s) |
Kanduri C, Ali MM, Kosalai ST, Subhash S |
| Citation(s) |
29491376 |
| |
| Submission date |
Dec 12, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Subazini TK |
| E-mail(s) |
subazinitk@gmail.com
|
| Organization name |
Gothenburg university
|
| Street address |
Medicineragatan 9A
|
| City |
Gothenburg |
| ZIP/Postal code |
40530 |
| Country |
Sweden |
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| Platforms (2) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL18723 |
AB SOLiD 3 Plus System (Homo sapiens) |
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| Samples (22)
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| Relations |
| BioProject |
PRJNA357034 |
| SRA |
SRP094931 |
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