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Series GSE86357 Query DataSets for GSE86357
Status Public on Sep 02, 2016
Title Microenvironment Cell Populations Affymetrix HuGene 1.0ST
Sample organism Homo sapiens
Experiment type Expression profiling by array
Third-party reanalysis
Summary Human tissues harbour a wide array of cellular populations, often including both immune and lymphoid cell populations, endothelial cells and fibroblasts. The goal of this study was to identify transcriptomic markers of these cell populations, in order to quantify their abundances using transcriptomic data. The present super-series is composed of a large number of transcriptomic profiles of these cell populations. These profiles were obtained from public repositories, normalized using the fRMA R package (which allows a consistent normalization of profiles across public series), and consistently annotated. This series corresponds to Affymetrix HuGene 1.0ST profiles. Sample's annotation is available as supplementary material.
 
Overall design 3224 gene expression profiles from immune cell populations, non-immune non-malignant cell populations and non-hematopoietic cancer cell lines were gathered from 81 different studies. Data was normalized using the fRMA R package, version 1.18.0, and hugene.1.0.st.v1frmavecs version 1.0.0. fRMA was applied to single series independantly, and the resulting gene expression matrices were then concatenated.
 
Contributor(s) Becht E, Giraldo NA, Petitprez F, Mouyal S, Sautès-Fridman C, Fridman WH, de Reyniès A
Citation(s) 27765066
Submission date Sep 01, 2016
Last update date Oct 24, 2016
Contact name Etienne Becht
Organization name Fred Hutchison Cancer Research Center
Street address 1100 Fairview Ave N
City Seattle
ZIP/Postal code 98109
Country USA
 
This SubSeries is part of SuperSeries:
GSE86370 Microenvironment Cell Populations
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Reanalysis of GSM1248745
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Reanalysis of GSM1276671
Reanalysis of GSM1281461
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Reanalysis of GSM1351003
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Reanalysis of GSM1351020
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Reanalysis of GSM1351024
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Reanalysis of GSM1351111
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Reanalysis of GSM1351115
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BioProject PRJNA341516

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SOFT formatted family file(s) SOFTHelp
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Supplementary file Size Download File type/resource
GSE86357_harmonized_annotationHG1.txt.gz 23.0 Kb (ftp)(http) TXT
GSE86357_xpHG1.txt.gz 795.5 Mb (ftp)(http) TXT
Processed data provided as supplementary file

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