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Sample GSM507264 Query DataSets for GSM507264
Status Public on Mar 01, 2011
Title Dnmt3L heterozygous spermatocytes 1
Sample type RNA
 
Source name Mouse pachytene spermatocytes
Organism Mus musculus
Characteristics strain: C57Bl/6
age: 8-12 weeks
tissue: Testis
genome/variation: Dnmt3L heterozygous
cell type: spermatocytes
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. RNA quality was assessed with Agilent Bioanalyser.
Label Cy3
Label protocol Standard Illumina protocol
 
Hybridization protocol Standard Illumina protocol
Scan protocol Standard Illumina protocol
Description no additional information
Data processing Un-normalized summary probe profiles were output from BeadStudio for two Illumina Mouse Whole-Genome Version 1.1 BeadChips. The raw intensities were transformed by variance stabilising transformation (vst) and quantile normalised using the lumi package of the Bioconductor open-source software project (http://www.bioconductor.org).
 
Submission date Feb 09, 2010
Last update date Mar 01, 2011
Contact name Gordon K Smyth
E-mail(s) smyth@wehi.edu.au
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
URL http://www.wehi.edu.au
Organization name Walter and Eliza Hall Institute of Medical Research
Department Bioinformatics
Lab Smyth
Street address 1G Royal Pde
City Parkville
State/province Vic
ZIP/Postal code 3052
Country Australia
 
Platform ID GPL6481
Series (1)
GSE20241 Genome-wide analysis of Dnmt3L heterozygous and wildtype spermatocytes and spermatids

Data table header descriptions
ID_REF
VALUE lumi (bioc) normalized log2 signal intensity
Detection Pval

Data table
ID_REF VALUE Detection Pval
102450270 6.729223717 0.602
104200035 6.794771708 0.36245
100730138 6.901528269 0.17966
104230390 7.010868808 0.0811
102630735 6.68709104 0.7879
100450435 6.903607699 0.17467
101230594 6.698626549 0.73612
100780541 6.742321775 0.53337
104200184 6.732952754 0.58578
105360286 6.790478713 0.37243
103060411 6.703739473 0.72115
100630193 6.6614531 0.86712
105270286 6.755830878 0.48409
101690685 6.713403852 0.66812
100060180 6.842033541 0.26575
107100563 6.690802308 0.77417
100450451 6.653887047 0.88522
100610092 6.712029501 0.67748
104810452 13.49445724 0
6840019 10.89366473 0

Total number of rows: 46643

Table truncated, full table size 1258 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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