An online literature mining tool for protein phosphorylation

Bioinformatics. 2006 Jul 1;22(13):1668-9. doi: 10.1093/bioinformatics/btl159. Epub 2006 Apr 27.


A web-based version of the RLIMS-P literature mining system was developed for online mining of protein phosphorylation information from MEDLINE abstracts. The online tool presents extracted phosphorylation objects (phosphorylated proteins, phosphorylation sites and protein kinases) in summary tables and full reports with evidence-tagged abstracts. The tool further allows mapping of phosphorylated proteins to protein entries in the UniProt Knowledgebase based on PubMed ID and/or protein name. The literature mining, coupled with database association, allows retrieval of rich biological information for the phosphorylated proteins and facilitates database annotation of phosphorylation features.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Animals
  • Computational Biology / methods*
  • Databases, Bibliographic
  • Databases, Factual
  • Databases, Protein
  • Humans
  • Information Storage and Retrieval
  • Phosphorylation
  • Proteins / chemistry*
  • PubMed
  • Software
  • User-Computer Interface


  • Proteins