|
Status |
Public on May 02, 2020 |
Title |
RNA_Dmel_CS_wing: wing_imaginal_disc_WT_cs |
Sample type |
SRA |
|
|
Source name |
wing imaginal disc
|
Organism |
Drosophila melanogaster |
Characteristics |
developmental time point: third instar wandering larvae tissue: wing imaginal disc genotype: Canton S stock: Bloomington: 1
|
Treatment protocol |
Wandering 3rd instar larvae were dissected in PBS to extract the tissues of interest
|
Growth protocol |
All flies were raised at 25 degrees Celsius on standard fly food
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted with the RNAqueous micro kit (Ambion) RNA libraries were generated for sequencing using standard Illumina TruSeq protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
Reads with residual adapter sequences were discarded (FastX cliper version 0.012 option -M15) Reads were mapped against their own-species genome by TOPHAT v2.0 (default parameters) Gene expression counts were computed by HTSeq (str=no) with the following genome annotations (D.melanogaster 5.46, D.simulans 1.4, D.yakuba 1.3, D.ananassae 1.3, D.pseudoobscura 2.30, D.willistoni 1.3, D.mojavensis 1.3 and D.virilis 1.2) Genome_build: Drosophila melanogaster FB5, D.pseudoobscura FB2 and the rest of species, D.simulans, D.yakuba, D.ananassae, D.willistoni, D.mojavensis and D.virilis FB1 Supplementary_files_format_and_content: RNAseq samples:Gene counts in original species annotation and normalized data across species and tissues in D.melanogaster gene annotation.
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|
|
Submission date |
Jul 23, 2014 |
Last update date |
May 02, 2020 |
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 (1) |
GSE59707 |
Evolutionary changes in cis regulation are associated with altered chromatin activity and gene expression levels in the Drosophila eye development (RNA-Seq) |
|
Relations |
Reanalysis of |
GSM1425360 |
BioSample |
SAMN02934570 |
SRA |
SRX660286 |