|
| Status |
Public on Apr 26, 2013 |
| Title |
E8.5_Head_het-2 |
| Sample type |
RNA |
| |
|
| Source name |
E8.5 head
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
age: E8.5
genotype/variation: Jarid1b heterozygote
body part: head
|
| Treatment protocol |
no treatment, Heterozygote versus knockout
|
| Growth protocol |
In vivo, E8.5 embryos
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNAeasy Microkit (Qiagen)
|
| Label |
biotin
|
| Label protocol |
samples were processed with the Whole Transcript Assay Kit as recommended by the manufacterer (Affymetrix)
|
| |
|
| Hybridization protocol |
Affymetrix standard procedure
|
| Scan protocol |
Affymetrix standard procedure
|
| Data processing |
Gene Array Analyzer (Gellert et al, NAR, 2012) webtool.
Gene Array Analyzer uses Affymetrix Power Tools (see www.affymetrix.com) to calculate RMA probe set summation values. The Gene Array Analyzer command is: apt-probeset-summarize -a rma-bg,quant-norm.sketch=-1.bioc=true.lowprecision=false.usepm=true,pm-only,med-polish.expon=true -a pm-only,dabg.chisq=true -p ./affy/MoGene-1_0-st-v1.r4.pgf -c ./affy/MoGene-1_0-st-v1.r4.clf -b ./affy/MoGene-1_0-st-v1.r4.bgp --qc-probesets ./affy/MoGene-1_0-st-v1.r4.qcc -m affy/MoGene-1_0-st-v1.r4.mps upload/e9ccb98b714934751de47d6304ca7f320434/*.CEL -o upload/e9ccb98b714934751de47d6304ca7f320434/apt-result #plus various filtering
|
| |
|
| Submission date |
Sep 26, 2012 |
| Last update date |
Apr 26, 2013 |
| Contact name |
Sandra Ursula Schmitz |
| E-mail(s) |
sandra.schmitz@bric.ku.dk
|
| Organization name |
Biotech Research and Innovation Centre
|
| Street address |
Ole Maaløes Vej 5
|
| City |
Copenhagen |
| ZIP/Postal code |
2200 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL6246 |
| Series (2) |
| GSE41171 |
The histone demethylase Jarid1b ensures faithful mouse development by protecting developmental genes from aberrant H3K4me3 [Affymetrix] |
| GSE41174 |
The histone demethylase Jarid1b ensures faithful mouse development by protecting developmental genes from aberrant H3K4me3 |
|
