|
| Status |
Public on Apr 08, 2015 |
| Title |
tj-GAL4>TN-Drosha |
| Sample type |
SRA |
| |
|
| Source name |
Drosophila ovaries
|
| Organism |
Drosophila melanogaster |
| Characteristics |
genotype: tj-Gal4/+; tub-GAL80[ts], ZAMlacZ/TN-Drosha
tissue: ovary
|
| Growth protocol |
Flies were grown at 20 degrees C exept in the last 5 days (25°C)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Small RNAs (18-30nt) were isolated by manual anion exchange chromatography procedure
Extracted small RNAs were cloned by Fasteris SA (Switzerland) after being selected on acrylamide gel between 18 and 30 nucleotides
|
| |
|
| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Manual anion-exchange chromatography (HiTrapQ column) purification
|
| Data processing |
Sequenced reads were stripped of the adapter in the 3' end and the retrieved small RNA reads were mapped to the genome sequence of Drosophila melanogaster (release 5) according to sequencing quality using Novoalign (www.novocraft.com). Only reads perfectly matching the fly genome were analyzed (one mismatch was nevertheless allowed on low-sequencing quality nucleotides).
After subtracting reads matching abundant cellular species rRNAs, tRNAs and snRNAs identified by mapping on dataset retrieved from modEncode (http://www.modencode.org/ (Celniker et al. 2009), the remainders, composed of siRNAs, piRNAs and miRNAs were called bonafide reads.
Genome_build: Drosophila melanogaster, release 5
Supplementary_files_format_and_content: Simple tabulated format where column 1 represents bonafide read sequences and column 2 the corresponding read counts
|
| |
|
| Submission date |
Sep 02, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
SEVERINE CHAMBEYRON |
| E-mail(s) |
severine.chambeyron@igh.cnrs.fr
|
| Organization name |
CNRS
|
| Department |
Institute of Human Genetics
|
| Lab |
Non-coding RNA, epigenetics and genome stability
|
| Street address |
141, rue de la Cardonille
|
| City |
MONTPELLIER |
| ZIP/Postal code |
34396 |
| Country |
France |
| |
|
| Platform ID |
GPL17275 |
| Series (2) |
| GSE60972 |
MicroRNA-dependent transposable element transcriptional silencing in Drosophila somatic ovarian cells [RNA-Seq] |
| GSE60974 |
MicroRNA-dependent transposable element transcriptional silencing in Drosophila somatic ovarian cells |
|
| Relations |
| BioSample |
SAMN03014952 |
| SRA |
SRX690636 |
