|
| Status |
Public on May 18, 2017 |
| Title |
AdultTestes_UAS-RNAi-kmg (VDRC# 107395); bam-gal4, UAS-dicer2_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
adult testes without seminal vesicles and accessory glands
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: adult testes
genotype/variation: UAS-RNAi-kmg (VDRC# 107395); bam-gal4, UAS-dicer2 flies 0~1 day post eclosion
|
| Treatment protocol |
kmg ctrl, kmg KD, kmg KD; aly-/-; dMi-2 ctrl, and dMi-2 KD testes without seminal vesicle and accessory glands were dissected in PBS for 30 minutes and immediately frozen in liquid nitrogen before transferred to -80°C. Total RNA was extracted using TRIzol (Invitrogen). RNA quality was assessed by checking rRNA integrity using Bioanalyzer. ~250ngs of total RNA was processed for each replicate.
|
| Growth protocol |
Crosses and experimental flies were grown on cornmeal and molasses media at 30 °C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from ~250ng total RNA (GeneChip 3' IVT expression kit)
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix Scanner 3000-7G
|
| Data processing |
Data were background adjusted and normalized using R program (v3.0.2) with the BioConductor package GCRMA. Samples in the following data were normalized together with bam-/-, aly-/-, sa-/-, wild-type data from GSE28728. All values are log2 transformed.
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| |
|
| Submission date |
May 08, 2015 |
| Last update date |
May 18, 2017 |
| Contact name |
Jongmin J Kim |
| E-mail(s) |
[email protected]
|
| Organization name |
Cornell University
|
| Department |
Biomedical Sciences
|
| Lab |
Kim lab
|
| Street address |
930 Campus Road
|
| City |
Ithaca |
| State/province |
NY |
| ZIP/Postal code |
14853 |
| Country |
USA |
| |
|
| Platform ID |
GPL1322 |
| Series (2) |
| GSE68696 |
Gene expression of fly testes with dMi-2, kumgang (CG5204) knock downs |
| GSE89506 |
Blocking promiscuous activation at cryptic promoters directs cell type–specific gene expression |
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