|
| Status |
Public on Dec 21, 2015 |
| Title |
wild-type embryos replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Multiple Drosophila embryos stages 11-16
|
| Organism |
Drosophila melanogaster |
| Characteristics |
embryonic stages: stages 11-16
genotype: WT
|
| Growth protocol |
Embryos (WT and rib1/ribP7) were collected for 8h at RT and allowed to age for 11 hours prior to their isloation using a COPAS Select embro sorter (Union Biometrica).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated by Trizol (Invitrogen) extraction and cleaned up with the Qiagen RNeasy kit (Qiagen). Total RNA (100ng) was labeled and amplified using standard Affymetrix protocols.
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNAs were prepared with the GeneChip HT 3' IVT Express Kit per manufacturer's instructions.
|
| |
|
| Hybridization protocol |
Following fragmentation cRNAs were hybridized 16hes at 45° C with rotation (60rpm) as described by Affymetrix in their GeneChip Expression Analysis Technical Manual.
|
| Scan protocol |
Using Affymetrix' GeneChip Scanner 3000 7G and default parameters described by the manufacturer.
|
| Description |
Gene expression data from WT embryos
|
| Data processing |
Affymetrix CEL files were extracted and their data normalized with the Partek GS 6.6 platform. RMA normalization was used to create quantile-normalized log2 transcript signal values, which were used in subsequent ANOVA analyses.
|
| |
|
| Submission date |
Sep 01, 2015 |
| Last update date |
Dec 21, 2015 |
| Contact name |
Deborah J Andrew |
| E-mail(s) |
[email protected]
|
| Organization name |
Johns Hopkins University School of Medicine
|
| Department |
Cell Biology
|
| Street address |
725 N. Wolfe St., Hunterian G-1
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21205 |
| Country |
USA |
| |
|
| Platform ID |
GPL1322 |
| Series (2) |
| GSE72598 |
Gene expression data from wild-type (WT) and ribbon (rib) mutant Drosophila mid through late stage embryos |
| GSE73781 |
Genome-wide Ribbon occupancy and gene expression profiling of wildtype and ribbon mutant Drosophila mid through late stage embryos |
|
