Table 6.
Classification of candidate ORFs into categories, according to several criteria.
| Functional annotation (A) | |
| Comparison of the previous functional annotations for the candidate ORFs [5] with the function of interest | |
| A | function assigned to the candidate ORF consistent with function of interest |
| A* | function assigned to the candidate ORF not contradicting function of interest (e.g. aldose reductase versus xylose reductase; mitochondrial isocitrate dehydrogenase versus cytosolic isocitrate dehydrogenase) |
| A-NA | no function assigned to the candidate ORF (e.g. hypothetical protein) |
| A-X | function assigned to the candidate ORF not consistent with function of interest |
| Protein families (F) | |
| Comparison of the protein domains originally predicted for the candidate ORF [5] with those of the enzymes catalysing the function of interest [6] | |
| F | protein family of candidate ORF consistent with protein family of function of interest |
| F-NA | no protein family associated to the candidate ORF |
| F-X | protein family of candidate ORF not consistent with protein family of function of interest |
| Comparative genomics with yeast (Y) | |
| BLASTP searches of all proteins in S. cerevisiae [35] against all predicted proteins in A. nidulans [5] | |
| Y | function of the protein in yeast (that has a match with the candidate ORF) consistent with missing function |
| Y* | function of the protein in yeast (that has a match with the candidate ORF) not contradicting missing function (e.g. aldose reductase versus xylose reductase; mitochondrial isocitrate dehydrogenase versus cytosolic isocitrate dehydrogenase) |
| Y-NA | no match of protein in yeast with the candidate ORF |
| Y-X | function of the protein in yeast (that has a match with the candidate ORF) not consistent with missing function |
| Comparative genomics with other organisms (O) | |
| BLASTP searches of candidate ORF in A. nidulans against (non-redundant) protein database at NCBI [26] | |
| O | functions of proteins in other organisms (that have a match with the candidate ORF) consistent with missing function |
| O* | functions of proteins in other organisms (that have a match with the candidate ORF) not contradicting missing function (e.g. aldose reductase versus xylose reductase; mitochondrial isocitrate dehydrogenase versus cytosolic isocitrate dehydrogenase) |
| O-NA | no matches of candidate ORF with proteins in other organisms |
| O-X | functions of proteins in other organisms (that have a match with the candidate ORF) not consistent with missing function |