|
| Status |
Public on Sep 21, 2012 |
| Title |
RNA_seq_eye-antennal_imaginal_disc_wild-type [CantonS] |
| Sample type |
SRA |
| |
|
| Source name |
third instar wandering larvae eye-antenna imaginal disc
|
| Organism |
Drosophila melanogaster |
| Characteristics |
strain: CantonS
genotype/variation: wild-type
developmental stage: third instar wandering larvae
tissue: eye-antennal imaginal disc
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Illumina TruSeq protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
G1
|
| Data processing |
The base-calling method is included in the CASAVA v1.8 pipeline.
RNA-Seq reads were mapped to D. melanogaster genome (dm3) using TopHat v.2.0 (default parameters) (Trapnell et al. 2009). Gene expression measures were computed by HT-Seq (Anders and Huber 2010) (option -str=no) using D.melanogaster gene annotation FlyBase release 5.30.
Genome_build: dm3
Supplementary_files_format_and_content: counts files include RNA abundance counts
|
| |
|
| Submission date |
Jul 31, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Stein Aerts |
| Organization name |
KULeuven
|
| Department |
Center for Human Genetics
|
| Lab |
Laboratory of Computational Biology
|
| Street address |
Herestraat 49
|
| City |
Leuven |
| ZIP/Postal code |
3000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL13304 |
| Series (2) |
| GSE39781 |
RNA-seq in wild-type and glass mutant eye-antennal discs in Drosophila melanogaster |
| GSE39784 |
Tag-seq in eye-antennal and wing imaginal discs of D.melanogaster, D.yakuba, and D.virilis; RNA-seq in wild-type and glass mutant D.melanogaster eye-antennal imaginal discs. |
|
| Relations |
| Reanalyzed by |
GSM1425362 |
| Reanalyzed by |
GSM1444010 |
| Reanalyzed by |
GSM3278925 |
| SRA |
SRX172469 |
| BioSample |
SAMN01096256 |
