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Nat Methods. 2010 Apr;7(4):287-9. doi: 10.1038/nmeth.1439. Epub 2010 Mar 7.

Cell type-specific gene expression differences in complex tissues.

Author information

1
Department of Pediatrics, Stanford University School of Medicine, Stanford, California, USA.

Abstract

We describe cell type-specific significance analysis of microarrays (csSAM) for analyzing differential gene expression for each cell type in a biological sample from microarray data and relative cell-type frequencies. First, we validated csSAM with predesigned mixtures and then applied it to whole-blood gene expression datasets from stable post-transplant kidney transplant recipients and those experiencing acute transplant rejection, which revealed hundreds of differentially expressed genes that were otherwise undetectable.

PMID:
20208531
PMCID:
PMC3699332
DOI:
10.1038/nmeth.1439
[Indexed for MEDLINE]
Free PMC Article

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