Table I. Number of genes encoding the matrisome within the human and mouse genomes. The core matrisome comprises 278 genes in the human genome (274 in the mouse) and includes genes encoding ECM glycoproteins, collagens, and proteoglycans. The subsequent assignment to each category was based on presence of signature domains (for example, the decorin/asporin/biglycan domain is a proteoglycan-specific domain, whereas, the type 4 procollagen, C-terminal repeat is a collagen-specific domain) and on prior knowledge and data from the literature (see Extended Experimental Procedures).
The matrisome-associated set of genes includes: 1) genes encoding ECM-affiliated proteins ie. proteins that share either some architectural or biochemical similarities with ECM proteins (ficolins, mucins, etc.) or that are known to be associated with ECM proteins, either from prior information or from our own results (semaphorins, annexins, galectins, etc.), 2) ECM regulators, including ECM-remodeling enzymes such as transglutaminases, lysyl oxidases, matrix metalloproteinases, serpins etc. and their regulators and 3) genes encoding secreted factors such as growth factors, cytokines etc.
| Categories | Gene count corrected for pseudo/noncoding genes |
||
|---|---|---|---|
| Human | Mouse | ||
| Core matrisome | ECM Glycoproteins | 200 | 195 |
| Collagens | 43 | 43 | |
| Proteoglycans | 35 | 36 | |
| Matrisome-associated | ECM-affiliated Proteins | 176 | 164 |
| ECM Regulators | 250 | 297 | |
| Secreted Factors | 352 | 363 | |