|
| Status |
Public on Oct 03, 2019 |
| Title |
WT striatum at E18.5, biological rep3 |
| Sample type |
RNA |
| |
|
| Source name |
WT striatum at E18.5
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6J
genotype/variation: wild type
age: E18.5
tissue: striatum
|
| Treatment protocol |
The brain was removed and the striata from both hemispheres dissected in ice cold PBS.
|
| Growth protocol |
Embryonic stage was calculated by vaginal plug check and by controlling the morphological parameters which accord to the respective Theiler stage.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
standard label protocol
|
| |
|
| Hybridization protocol |
The hybridization on the chip was performed on a GeneChip Hybridization oven, 640, then dyed in the GeneChip Fluidics Station 450
|
| Scan protocol |
Scanning was performed with a GeneChip Scanner 3000 from the Affymetrix-Company (Affymetrix, High Wycombe, UK).
|
| Data processing |
A Custom CDF Version 21 with ENTREZ based gene definitions was used to annotate the arrays (Dai et. al, 2005). OneWay-ANOVA was performed to identify differential expressed genes using a commercial software package SAS JMP10 Genomics, version 6, from SAS (SAS Institute, Cary, NC, USA). A false positive rate of a=0.05 with FDR correction was taken as the level of significance. Plots (3D Scatterplots and Venndiagrams) are made with JMP.
The raw fluorescence intensity values were normalized applying quantile normalization and RMA background correction and log 2-transformed.
|
| |
|
| Submission date |
Oct 02, 2019 |
| Last update date |
Oct 03, 2019 |
| Contact name |
Henning Froehlich |
| E-mail(s) |
henning.froehlich@med.uni-heidelberg.de
|
| Organization name |
Institute of Human Genetics
|
| Street address |
Im Neuenheimer Feld 366
|
| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
| |
|
| Platform ID |
GPL23092 |
| Series (1) |
| GSE138337 |
Gene expression in the striatum of Nestin-Cre (Foxp1-/-) mice in comparison to WT animals at embryonic day (E)18.5 |
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