|
| Status |
Public on Jun 26, 2015 |
| Title |
E18 Ctx total 18A |
| Sample type |
RNA |
| |
|
| Source name |
Cortex
|
| Organism |
Mus musculus |
| Characteristics |
developmental stage: E18
|
| Treatment protocol |
There were no specific treatments of the animals prior to collection.
|
| Growth protocol |
Timed pregnant dams were collected at the times indicated. Mice were wild-type CD-1 from Charles River.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was made from frozen tissue samples using standard Trizol protocols.
|
| Label |
biotin
|
| Label protocol |
Single-stranded cDNA was generated from the amplified cRNA with the WT cDNA Synthesis Kit (Affymetrix) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix).
|
| |
|
| Hybridization protocol |
Samples were hybridized with GeneChip Human Exon 1.0 ST Arrays (Affymetrix) and scanned at the UCLA Microarray Core Facility.
|
| Scan protocol |
Array scanning was performed according to the manufacturer's instruction (Affymetrix)
|
| Description |
RMA expression value derived from Expression Console software; core-exon analysis
|
| Data processing |
Raw data were processed with the Exon Array Computational Tool (ExACT) (Affymetrix) for background correction and normalization. Data analysis and statistical evaluations were performed with customized R codes (version 2.3.1, http://www.r-project.org/). We defined a probeset as present when it had a P value <0.001 and an Intensity value >200. These criteria were suggested by the results of preliminary experiments. The SECT includes all probesets present in at least 16 of the 18 arrays. In addition, we refined the SECT to remove GC-rich (i.e., >=80%) probesets. The concordance between the SECT and the normal salivary core transcriptome (NSCT) was evaluated assuming hypergeometric distributions.
|
| |
|
| Submission date |
Sep 25, 2014 |
| Last update date |
Jun 26, 2015 |
| Contact name |
Ronald P. Hart |
| E-mail(s) |
[email protected]
|
| Phone |
848-445-1783
|
| Organization name |
Rutgers University
|
| Department |
Cell Biology & Neuroscience
|
| Street address |
604 Allison Rd Rm B430
|
| City |
Piscataway |
| State/province |
NJ |
| ZIP/Postal code |
08854 |
| Country |
USA |
| |
|
| Platform ID |
GPL6096 |
| Series (1) |
| GSE61751 |
Microarray analysis of developing mouse cortex reveals regulation of ribosomal protein mRNAs throughout development |
|
