|
| Status |
Public on Jun 01, 2019 |
| Title |
knock-out pupae1 (rna-seq) |
| Sample type |
SRA |
| |
|
| Source name |
knock-out pupae
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: whole fly
developmental stage: pupae
genotype/variation: CG7804 knock-out
|
| Treatment protocol |
NA
|
| Growth protocol |
Flies were reared on standard medium at 25C, 12hr/12hr light and dark cycle
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Embryos were collected on standard apple juice plate. Before collection, pre-collection for 1hr was performed. Embryos were then collected for 4 hours and aged for 4 hours in 25C. L3 larva and mixed pupa were collected with wetted paintbursh.
Illumina TreSeq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
processed data files are read counts for each gene
|
| Data processing |
raw reads were pre-processed with trim-galore to remove adatoprs and low quality bases
processed reads were mapped to reference genomes with TopHat
read counts for each gene were generated by htseq-count
Genome_build: D. melanogaster release 6 (fly base)
Supplementary_files_format_and_content: read counts for the exons of each gene
|
| |
|
| Submission date |
Jun 23, 2017 |
| Last update date |
Jun 01, 2019 |
| Contact name |
Grace Yuh Chwen Lee |
| E-mail(s) |
grylee@uci.edu
|
| Organization name |
University of California, Irvine
|
| Street address |
UCI
|
| City |
Irvine |
| State/province |
CA |
| ZIP/Postal code |
92617 |
| Country |
USA |
| |
|
| Platform ID |
GPL13304 |
| Series (2) |
| GSE100419 |
Fast evolution of gained essential function by a young gene through gained interaction with other essential genes [RNA-Seq] |
| GSE100420 |
Fast evolution of gained essential function by a young gene through gained interaction with other essential genes |
|
| Relations |
| BioSample |
SAMN07271403 |
| SRA |
SRX2950535 |
