|
| Status |
Public on Nov 25, 2013 |
| Title |
WT liver, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Liver, wild-type (AAV-GFP)
|
| Organism |
Mus musculus |
| Characteristics |
genotype: wild-type
age: 3-month old
|
| Treatment protocol |
Livers were put into liquid nitrogen immediately after mice euthanization
|
| Growth protocol |
Mice were maintained on normal chow and the normal 24-hr light/dark cycle
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
GeneChip WT Terminal Labeling and Control Kit (Affymetrix)
|
| |
|
| Hybridization protocol |
RNA were hybridized to the Mouse Gene 2.0 ST Array (Affymetrix).
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner GCS3000.
|
| Description |
wild-type (AAV-GFP)
|
| Data processing |
Microarray image analysis was carried out using Partek Genomics Suite software. Subsequent analysis was carried out using BioConductor. Data from the 8 samples were subjected to background subtraction, quantile normalization, log2 transformation and probeset summarization using the RMA (Robust Multichip Average) algorithm. Only the probe sets that interrogate genes were retained and those meant for QC and normalization purposes were excluded from further analysis. The SAM procedure was then used to obtain multiple test corrected q-values for differential expression of genes between the hearts from MCH3-KO mice and control.
|
| |
|
| Submission date |
Jul 31, 2013 |
| Last update date |
Nov 25, 2013 |
| Contact name |
Zheng Sun |
| E-mail(s) |
zheng.sun@bcm.edu
|
| Organization name |
Baylor College of Medicine
|
| Street address |
1 Baylor Plaza
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL16570 |
| Series (2) |
| GSE49387 |
Gene expression profiling of liver-specific NCOR knockout mice |
| GSE49388 |
Gene expression profiles in mouse livers depleted of HDAC3 or NCOR1 |
|
