Gene expression profiles identify inflammatory signatures in dendritic cells.
Dendritic cells (DCs) constitute a heterogeneous group of antigen-presenting leukocytes important in activation of both innate and adaptive immunity. We studied the gene expression patterns of DCs incubated with reagents inducing their activation or inhibition. Total RNA was isolated from DCs and gene expression profiling was performed with oligonucleotide microarrays. Using a supervised learning algorithm based on Random Forest, we generated a molecular signature of inflammation from a training set of 77 samples. We then validated this molecular signature in a testing set of 38 samples. Supervised analysis identified a set of 44 genes that distinguished very accurately between inflammatory and non inflammatory samples. The diagnostic performance of the signature genes was assessed against an independent set of samples, by qRT-PCR. Our findings suggest that the gene expression signature of DCs can provide a molecular classification for use in the selection of anti-inflammatory or adjuvant molecules with specific effects on DC activity.
Torri
Anna
A
Department of Biotechnology and Bioscience, University of Milano-Bicocca, Milan, Italy.
Beretta
Ottavio
O
Ranghetti
Anna
A
Granucci
Francesca
F
Ricciardi-Castagnoli
Paola
P
Foti
Maria
M
D000818:Animals; D002478:Cells, Cultured; D016000:Cluster Analysis; D003713:Dendritic Cells / Q000187:drug effects / Q000276:immunology / Q000378:metabolism*; D015870:Gene Expression / Q000187:drug effects; D020869:Gene Expression Profiling; D007249:Inflammation / Q000235:genetics* / Q000276:immunology; D008070:Lipopolysaccharides / Q000494:pharmacology; D051379:Mice; D008810:Mice, Inbred C57BL; D015999:Multivariate Analysis; D020411:Oligonucleotide Array Sequence Analysis / Q000706:statistics & numerical data; D025341:Principal Component Analysis; D020133:Reverse Transcriptase Polymerase Chain Reaction
D008070:Lipopolysaccharides