1 http://www.uniprot.org/locations/?query=*.

2 http://www.proteinatlas.org/.

3 http://www.uniprot.org/.

4 Note that a real protein sequence should have more than six amino acid residues. For ease of presentation, we truncate the length to six.

5 To distinguish the PairAA-based vector from the AA-based vector, we use [fi,21,fi,22,…] instead of [fi,1,fi,2,…] to represent the elements of a PairAA-based vector. Similar notations apply to GapAA.

6 When m = 1, the feature vectors represent the sequence-order correlation factor of dipeptides.

7 http://www.geneontology.org.

8 ftp://ftp.ebi.ac.uk/pub/databases/interpro/interpro2go.

9 http://www.ebi.ac.uk/GOA

10 http://www.ebi.ac.uk/GOA.

11 http://www.geneontology.org.

12 ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/ ...

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