|
| Status |
Public on Sep 25, 2011 |
| Title |
eri-7(mg369)_embryo |
| Sample type |
SRA |
| |
|
| Source name |
Embryos
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
strain: eri-7(mg369)
developmental stage: embryo
|
| Growth protocol |
C. elegans were grown at 20C on OP50
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from synchronized worms and small RNAs were size selected, tobacco acid pyrophosphatase (TAP) treated to remove 5'di- and triphosphate groups, ligated to 5'and 3'adapters and subjected to RT-PCR.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Data processing |
Raw datasets are fastq files generated by Illumina. For processed datasets, small RNA sequences were parsed from fastq files using CASHX v. 2.0 with a Q value threshold of 20. Sequences were not filtered for alignment to any genome. Tab delimited files containing unique sequences and corresponding read counts were generated using custom perl scripts.
|
| |
|
| Submission date |
Sep 24, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Taiowa Montgomery |
| E-mail(s) |
montgomery@molbio.mgh.harvard.edu
|
| Phone |
(617) 643-3319
|
| Organization name |
Massachusetts General Hospital
|
| Department |
Molecular Biology
|
| Lab |
Ruvkun
|
| Street address |
185 Cambridge Street, CPZN-7250
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02114-2790 |
| Country |
USA |
| |
|
| Platform ID |
GPL9269 |
| Series (1) |
| GSE32366 |
The ERI-6/7 helicase acts at the first stage of an siRNA amplification pathway that targets recent gene duplications. |
|
| Relations |
| SRA |
SRX098612 |
| BioSample |
SAMN00727658 |
