|
Failure to detect known DIP relationships |
|
| Reason |
Undetected relationships (%) |
|
|
|
| member of protein family (name generalization) |
30.8 |
| incomplete synonym list |
26.5 |
| no reference at abstract level |
22.1 |
| other |
20.6 |
|
Chilibot was used to retrieve information about 770 pairs of known protein interactions obtained from the Database of Interacting Proteins (DIP). A total of 702 relationships were found (recall = 91.2%). Relationships were undetectable (n = 68) for the following reasons: 21 (30.8%) occurred when a specific member of the protein family (e.g. cdc25a) was recorded in DIP, yet only the general family name (e.g. cdc25) appeared in abstracts; 18 (26.5%) were due to synonyms present in abstracts and not in Chilibot's dictionary of nomenclature; 15 (22.1%) were caused by lack of documentation of the relationships in PubMed abstracts. Miscellaneous reasons accounted for the remainder (20.6%). | |
Chen and Sharp BMC Bioinformatics 2004 5:147 doi:10.1186/1471-2105-5-147 |
|