|
| Status |
Public on Dec 01, 2016 |
| Title |
adrenal cortex-at slaughter 96 |
| Sample type |
RNA |
| |
|
| Source name |
adrenal cortex
|
| Organism |
Bos taurus |
| Characteristics |
gender: female
age at slaughter in days: 1238
year-season of slaughter: winter2008/2009
tissue: adrenal cortex
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from the adrenal cortex of 147 animals using TRI Reagent (Sigma, Taufkirchen, Germany). After DNaseI treatment the RNA was further purified with the RNeasy Kit (QIAGEN, Hilden, Germany) following the manufacturers recommendations. RNA was quantified using the NanoDrop ND-1000 spectrophotometer (Peqlab, Erlangen, Germany). Integrity of RNA was checked by running 1 μg of RNA on a 1% agarose gel. Absence of DNA contamination was verified by PCR amplifying fragments of GAPDH with RNA as a template.
|
| Label |
biotin
|
| Label protocol |
5.5 µg of cDNA was fragmented and labeled using the Affymetrix Terminal Labeling Kit and Affymetrix standard protocols
|
| |
|
| Hybridization protocol |
The fragmented cDNA was hybridized to the microarray using the Affymetrix Hyb-WashStain Kit and Affymetrix standard protocols
|
| Scan protocol |
GeneChips were scanned using the GeneChip scanner 3000 (Affymetrix, St. Clara, USA)
|
| Data processing |
Gene-level analysis and RMA normalization was performed using Affymetrix Expression Console software based on 147 Microarrays. Filtering of Probesets was performed using the detection above background algorithm. Probe sets that were present in 75% of all samples and transcripts with at least 50% of all probe sets present were included in the final analyses. Two samples (30 and 89) were excluded due to misssing phenotypic data.
BovGene-1_0-v1.pgf
BovGene-1_0-v1.mps
|
| |
|
| Submission date |
Nov 24, 2015 |
| Last update date |
Dec 01, 2016 |
| Contact name |
Bodo Brand |
| E-mail(s) |
brand@fbn-dummerstorf.de
|
| Organization name |
Leibniz Institute of Farm Animal Biology
|
| Street address |
Wilhelm-Stahl-Allee 2
|
| City |
Dummerstorf |
| ZIP/Postal code |
18196 |
| Country |
Germany |
| |
|
| Platform ID |
GPL16500 |
| Series (1) |
| GSE75371 |
Adrenal cortex expression data of a German Holstein X Charolaise cross |
|
