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Series GSE24948 Query DataSets for GSE24948
Status Public on Nov 17, 2010
Title Renormalized GSE3889 by using the parametric method
Sample organism Mus musculus
Experiment type Third-party reanalysis
Expression profiling by array
Summary The GeneChip data was normalized and summarized by using SuperNORM data service (Skylight Biotech Inc.).
Overall design PM data of samples in GSE3889, GSM88872-GSM88891, were parametrically normalized in chip-wise manner according to the three-parameter lognormal distribution method (Konishi et. al., 2009 PLoS ONE 3: e3555. Expression level of a gene was estimated by summarizing the corresponding PM data. A pseudo data was then derived in a form of antilog of the z-scores; the center of the pseudo data was 256. The pseudo data, ABS_CALL, and the normalized data (z-scores) are presented in the summary matrix file. The normalized PM data of a chip were presented in separate ascii text files. In each of the text files, the PM data is presented in matrix form where each row of the matrix corresponds a gene and the order of PM probe data in the row is identical to that of the chip's CDF file. The parameters found in each chip data were presented in the "parameters" text file. For details for the parameters, see Konishi et al. 2009.
Contributor(s) Konishi T
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Submission date Oct 27, 2010
Last update date Mar 23, 2012
Contact name Tomokazu Konishi
Phone +81-18-872-1603
Organization name Akita Prefectural University
Department Bioresource Sciences
Lab Molecular Genetics
Street address Shimoshinjyo Nishi
City Akita
State/province Akita
ZIP/Postal code 010-0195
Country Japan
This SubSeries is part of SuperSeries:
GSE25410 The suitability of statistical tests according to characteristics in variation of expression microarray data
Reanalysis of GSM88872
Reanalysis of GSM88873
Reanalysis of GSM88874
Reanalysis of GSM88875
Reanalysis of GSM88876
Reanalysis of GSM88877
Reanalysis of GSM88878
Reanalysis of GSM88879
Reanalysis of GSM88880
Reanalysis of GSM88881
Reanalysis of GSM88882
Reanalysis of GSM88883
Reanalysis of GSM88884
Reanalysis of GSM88885
Reanalysis of GSM88886
Reanalysis of GSM88887
Reanalysis of GSM88888
Reanalysis of GSM88889
Reanalysis of GSM88890
Reanalysis of GSM88891
BioProject PRJNA142721

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE24948_Normalized_PM.tar.gz 36.2 Mb (ftp)(http) TAR
GSE24948_Parameters.txt.gz 904 b (ftp)(http) TXT
GSE24948_Summarized_Matrix.txt.gz 4.6 Mb (ftp)(http) TXT
Processed data are available on Series record

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