Table 2.
EASE analysis of genes with significant fold differences greater than 2
| GO System | Gene Category | List Hits | List Total | Population Hits | Population Total | EASE Score | Official Gene Symbols |
| Cellular Component | Extracellular | 19 | 37 | 258 | 2760 | 3.27E-10 | CHAD, CILP, CLU, COL2A1, COL9A1, COMP, CP, FMOD, FN1, FRZB, GAS6, LOXL2, NID2, PRELP, SERPINA5, SULF1, THSD1, TIMP2, TNC |
| Cellular Component | Extracellular Matrix | 11 | 37 | 101 | 2760 | 3.17E-07 | CHAD, COL2A1, COL9A1, COMP, FMOD, FN1, NID2, PRELP, THSD1, TIMP2, TNC |
| Molecular Function | Extracellular Matrix Structural Constituent | 6 | 40 | 35 | 2830 | 9.16E-05 | CHAD, COL2A1, COL9A1, COMP, FN1, PRELP |
| Biological Process | Skeletal Development | 6 | 38 | 55 | 2780 | 0.00068 | ANKH, COL2A1, COMP, DLX5, FRZB, PRELP |
| Biological Process | Cell Adhesion | 8 | 38 | 151 | 2780 | 0.00315 | COL2A1, COL9A1, COMP, FN1, LOXL2, NID2, THSD1, TNC |
| Cellular Component | Extracellular Space | 5 | 37 | 71 | 2760 | 0.01273 | CP, FN1, LOXL2, SERPINA5, SULF1 |
| Biological Process | Development | 11 | 38 | 410 | 2780 | 0.03681 | ANKH, BOC, CLU, COL2A1, COL9A1, COMP, DLX5, FRZB, LOXL2, PRELP, TGFBR3 |
| Biological Process | Heparan Sulfate Proteoglycan Metabolism | 2 | 38 | 5 | 2780 | 0.06484 | HS3ST3A1, SULF1 |
| Biological Process | Acute-phase Response | 2 | 38 | 6 | 2780 | 0.07731 | FN1, SERPINA5 |
| Molecular Function | Scavenger Receptor Activity | 2 | 40 | 6 | 2830 | 0.07996 | KIAA1822, LOXL2 |
| Biological Process | Organogenesis | 7 | 38 | 231 | 2780 | 0.08131 | ANKH, COL2A1, COL9A1, FRZB, PRELP |
| Molecular Function | Transmembrane Receptor Activity | 5 | 40 | 122 | 2830 | 0.08470 | FRZB, KIAA1822, LOXL2, PDGFRL, TNC |
| Molecular Function | Receptor Activity | 7 | 40 | 233 | 2830 | 0.09626 | FRZB, KIAA1822, LOXL2, NR1D2, PDGFRL, TGFBR3, TNC |
"GO System" represents the major ontological system (i.e., cellular component, biological process, or molecular function). "Gene category" is 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 GO 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. Gene symbols of differentially expressed probe sets represented for each gene category are given in the last column.