Two-transcript gene expression classifiers in the diagnosis and prognosis of human diseases

BMC Genomics

Table 1 Diagnostic Classification Tasks

Classification Task	Tissue Source	Samples (Positive/Negative)	GEO ID	# Probes
GI Stromal Tumor vs Leiomyosarcoma	GI Biopsy	68 (37/31)	N/A	43,931
Crohn's Disease vs Healthy Controls	PBMC	101 (59/42)	GDS1615	22,283
Ischemic vs Idiopathic Cardiomyopathy	Cardiac Biopsy	194 (86/108)	GSE5406	22,283
Type I Diabetes vs Healthy Controls	PBMC	105 (81/24)	GSE9006	22,283
Type II Diabetes vs Healthy Controls	PBMC	35 (12/23)	GSE9006	22,645
Ulcerative Colitis W/WO Transformation	Colon Biopsy	54 (11/43)	GSE3629	54,681
Gram-Negative vs Gram-Positive Infection	PBMC	73 (29/44)	GSE6269	22,283
Gram-Negative vs Viral Infection	PBMC	62 (18/44)	GSE6269	22,283
HIV Infection vs Healthy Controls	PBMC	86 (74/12)	GDS1449	8793

Microarray gene expression datasets obtained from the Gene Expression Omnibus. Transcriptional analysis was performed on either local tissue biopsies or peripheral blood mononuclear cells using commercially available oligonucleotide probe arrays. For sensitivity and specificity analysis, gastrointestinal stromal tumor (GIST), ischemic cardiomyopathy, transformed ulcerative colitis, and viral infection were defined as 'positive' diagnoses.

ISSN: 1471-2164