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Series GSE86362

Query DataSets for GSE86362

Status

Public on Sep 02, 2016

Title

Microenvironment Cell Populations Affymetrix 133 Plus 2.0 series

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 133 Plus 2.0 profiles. Sample's annotation is available as supplementary material.

Overall design

1936 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 frmahgu133plus2frmavecs version 1.3.0. 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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BioProject

Download family	Format
SOFT formatted family file(s)	SOFT
MINiML formatted family file(s)	MINiML
Series Matrix File(s)	TXT

Supplementary file	Size	Download	File type/resource
GSE86362_harmonized_annotation133P2.txt.gz	11.3 Kb	(ftp)(http)	TXT
GSE86362_xp133P2.txt.gz	786.2 Mb	(ftp)(http)	TXT
Processed data provided as supplementary file