|
| Status |
Public on Sep 21, 2012 |
| Title |
Tag_seq_eye-antennal_imaginal_disc_D.yakuba |
| Sample type |
SRA |
| |
|
| Source name |
third instar wandering larvae eye-antennal imaginal disc
|
| Organism |
Drosophila yakuba |
| Characteristics |
developmental stage: third instar wandering larvae
tissue: eye-antennal imaginal disc
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Illumina TAG-Profiling protocol. Restriction enzyme NlaIII.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Data processing |
The base-calling software was Bustard1.4.0 (Bentley et al. 2008).
Mapping to corresponding species genome [Drosophila melanogaster 5; Drosophila yakuba FB1 / UCSC droYak2; Drosophila virilis FB1 / UCSC droVir3] using bowtie version 0.12.1 allowing two mismatches. Only uniquely mapped reads were taken into consideration.
File: positions.txt
Mapped total counts. Mappings were performed using bowtie (Langmead et al. 2009) with maximally two mismatches per read.
Genome_build: Drosophila yakuba FB1 / UCSC droYak2
Supplementary_files_format_and_content: positions.txt files contain the mapped positions assigned to a gene and the number of counts per position.
|
| |
|
| 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 |
GPL15872 |
| Series (2) |
| GSE39782 |
Tag-seq profiling in eye-antennal and wing imaginal discs of D. melanogaster, D. yakuba and D. virilis |
| 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 |
| SRA |
SRX172476 |
| BioSample |
SAMN01096262 |
