Transcriptional profiling differences for articular cartilage and repair tissue in equine joint surface lesions

BMC Medical Genomics

Table 2 Overrepresented ontological categories for transcripts with >2-fold difference in normal articular cartilage versus repair tissue.

GO System	Gene Category	List Hits	List Total	Population Hits	Population Total	EASE Score
Cellular Component	extracellular	69	380	244	2556	2.01E-08
Biological Process	skeletal development	21	379	55	2575	0.00005
Molecular Function	receptor activity	53	385	218	2611	0.00012
Cellular Component	extracellular matrix	30	380	100	2556	0.00015
Biological Process	development	82	379	394	2575	0.00036
Molecular Function	signal transducer activity	81	385	393	2611	0.00059
Molecular Function	calcium ion binding	34	385	134	2611	0.00129
Biological Process	regulation of transcription (3)	82	379	410	2575	0.00134
Molecular Function	glycosaminoglycan binding	12	385	31	2611	0.00318
Molecular Function	endopeptidase inhibitor activity (2)	11	385	27	2611	0.00341
Molecular Function	protease inhibitor activity	11	385	27	2611	0.00341
Cellular Component	membrane (2)	148	380	842	2556	0.00553
Molecular Function	steroid hormone receptor activity	7	385	13	2611	0.00668
Biological Process	transcription	83	379	441	2575	0.00764
Molecular Function	insulin-like growth factor binding	6	385	10	2611	0.00893

Redundant or similar categories were removed. When present, the number of redundant or similar categories are indicated in parentheses within the listed "gene category." "GO System" represents the major gene ontological system (i.e., cellular component, biological process, or molecular function). "Gene category" shows a descriptive term shared by a group of genes. "List hits" are the numbers of differentially abundant transcripts that belong to the gene category. "List total" is the number of differentially expressed genes within the corresponding cellular component, biological process, or molecular function system. "Population hits" represent the total number of genes found on the microarray possessing that specific gene category annotation (e.g., extracellular, skeletal development, etc.). "Population Total" represents the total number of genes found on the microarray possessing that ontological system annotation. "EASE score" is a measure of overrepresentation that scales the results of a statistical analysis (Fisher's exact test) by biasing against categories supported by few genes.

ISSN: 1755-8794