|
| Status |
Public on Sep 21, 2016 |
| Title |
KO_2 |
| Sample type |
RNA |
| |
|
| Source name |
Medial ganglionic eminence
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: Nkx2-1flox/+;Olig2tva-cre+
age: embryonic day 13.5
tissue: Medial ganglionic eminence
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from micro-dissected tissue using the RNeasy Mini Kit (Qiagen). RNA quality was assessed using a Pico Chip on an Agilent 2100 Bioanalyzer.
|
| Label |
Cy3-CTP
|
| Label protocol |
RNA was amplified and labeled with Cy3-CTP using the Agilent low RNA input fluorescent linear amplificant kits following the manufacturer's protocol (Agilent). Labeled cRNA was assessed using the Nanodrop ND-100.
|
| |
|
| Hybridization protocol |
Equal amounts of Cy3-labeled target were hybridized to Agilent whole mouse genome 4x44K Ink-ket arrays (Agilent). Hybridizations were performed for 14 hours, according to manufacturer's protocol (Agilent).
|
| Scan protocol |
Arrays were scannd using Agilent microarray scanner (Agilent, G2505B) and raw signal intensities were extracted with Feature Extraction v9.1 software (Agilent) using default parameters (protocol GE1-107, grid 014868_D_F_20080627).
|
| Data processing |
Datasets were normalized using the quantile normalization method (Bolstad et al. 2003). Hybridization performance was assessed by Agilent Feature Extraction v10.1 (Agilent).
|
| |
|
| Submission date |
Aug 16, 2016 |
| Last update date |
Sep 21, 2016 |
| Contact name |
Alex Nord |
| E-mail(s) |
asnord@ucdavis.edu
|
| Phone |
530-754-5022
|
| Organization name |
University of California Davis
|
| Department |
Neurobiology, Physiology, and Behavior
|
| Street address |
1544 Newton Court
|
| City |
Davis |
| State/province |
CA |
| ZIP/Postal code |
95618 |
| Country |
USA |
| |
|
| Platform ID |
GPL7202 |
| Series (2) |
| GSE85703 |
Transcriptional Networks Controlled by NKX2-1 in the Development of Forebrain GABAergic Neurons (microarray) |
| GSE85705 |
Transcriptional Networks Controlled by NKX2-1 in the Development of Forebrain GABAergic Neurons |
|
