|
| Status |
Public on Jul 15, 2019 |
| Title |
EC-dHey RNAi 3 |
| Sample type |
RNA |
| |
|
| Source name |
drosophila melanogater dHey depleted in EC
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: dHey RNAi gut
|
| Treatment protocol |
2-4 days adult femlaes flies were transferred to 29°C for 2 days prior to RNA extraction.
|
| Growth protocol |
Flies were cultured at 18°C prior to eclosion and 0-2 days post-eclosion
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Guts were dissociated and RNA extracted either from whole guts or from isolated EBs using a RNAeasy extraction Kit (Qiagene), followed by cDNA synthesis (Invitrogene), cRNA amplification (Epicenter biotechnologies),and Double stranded cDNA synthesis.
|
| Label |
Cy3
|
| Label protocol |
Samples were labled using Nimblegene One-Color DNA labeling Kit using standard Nimblegene protocol.
|
| |
|
| Hybridization protocol |
Hybridiztion was performed using a Nimblegen hybridization system on a Drosophila melanogaster gene expression 4x72K Array (A4509001-00-01) according to Nimblegene expression array protocol.
|
| Scan protocol |
arrays were scanned on a Genepix 4000B Microarray scanner (Molecular Devices) and Data was extracted using Nimblegen V2.4 software.
|
| Description |
This sample is of drosophila melanogaster female gut where dHey was depleted in ECs (Myo-Gal4> dHey RNAi) . It is the third of three biological replicates.
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version ? (Roche NimbleGen, Inc.).
|
| |
|
| Submission date |
Oct 12, 2016 |
| Last update date |
Jul 15, 2019 |
| Contact name |
Hector Rincon-Arano |
| E-mail(s) |
hrincon@fhcrc.org
|
| Phone |
2066671556
|
| Organization name |
Fred Hutchinson Cancer Research Center
|
| Department |
Basic Science Division
|
| Lab |
Groudine
|
| Street address |
1100 Fairview Ave N
|
| City |
Seattle |
| State/province |
Washington |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL13782 |
| Series (2) |
| GSE87894 |
Transcriptome analysis of dHey knock down and control enterocytes, as well as isolated enteroblasts |
| GSE87896 |
dHey |
|
