|
| Status |
Public on Nov 01, 2014 |
| Title |
EWS-Fli and LNC regulated genes in comparison to GFP samples |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
RNA from A673 cells with shRNA-mediated knockdown of GFP (4 libraries), EWS-FLI1 (4 libraries), or lnc277 (7 libraries) was isolated with TRIzol (Invitrogen). Each sample was DNase treated and further purified on an RNeasy Mini column (Qiagen) before quality analysis on an Agilent 2100 Bioanalyzer. For each sample, 100-150ng of RNA was synthesized into cDNA, sheared on a Covaris ultrasonicator, and amplified using the NuGen Encore Complete kit (NuGen) to produce strand-specific and rRNA-depleted libraries. Samples were multiplexed (4/lane) for 2x100bp paired-end sequencing on an Illumina HiSeq 2000
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| |
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| Overall design |
RNA from A673 cells with shRNA-mediated knockdown of GFP (4 libraries), EWS-FLI1 (4 libraries), or lnc277 (7 libraries) was isolated with TRIzol (Invitrogen).
|
| |
|
| Contributor(s) |
Sweet-Cordero A |
| Citation(s) |
25401475 |
| |
| Submission date |
Aug 29, 2014 |
| Last update date |
Aug 16, 2019 |
| Contact name |
Dedeepya Vaka |
| E-mail(s) |
dvaka@stanford.edu
|
| Organization name |
Stanford
|
| Department |
Pediatrics
|
| Lab |
Alejandro Sweet-Cordero
|
| Street address |
265 Campus Drive
|
| City |
Palo Alto |
| ZIP/Postal code |
94035 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (15)
|
|
| Relations |
| BioProject |
PRJNA259885 |
| SRA |
SRP045905 |
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