MineBlast: a literature presentation service supporting protein annotation by data mining of BLAST results

MineBlast is a web service for literature search and presentation based on data-mining results received from UniProt. Users can submit a simple list of protein sequences via a web-based interface. MineBlast performs a BLASTP search in UniProt to identify names and synonyms based on homologous proteins and subsequently queries PubMed, using combined search terms inorder to find and present relevant literature.

[1]  Bin Tian,et al.  A large-scale analysis of mRNA polyadenylation of human and mouse genes , 2005, Nucleic acids research.

[2]  L. Gautier,et al.  Comparative Genomics of Listeria Species , 2001, Science.

[3]  Zhilei Chen,et al.  A highly sensitive selection method for directed evolution of homing endonucleases , 2005, Nucleic acids research.

[4]  Miguel A. Andrade-Navarro,et al.  Update on XplorMed: a web server for exploring scientific literature , 2003, Nucleic Acids Res..

[5]  Cathy H. Wu,et al.  InterPro, progress and status in 2005 , 2004, Nucleic Acids Res..

[6]  R. Schoenfeld,et al.  Comparative Genomics of Listeria Species , 1976 .

[7]  L Hunter,et al.  MedMiner: an Internet text-mining tool for biomedical information, with application to gene expression profiling. , 1999, BioTechniques.

[8]  Putnam Nc.  Searching MEDLINE free on the Internet using the National Library of Medicine's PubMed. , 1998 .

[9]  Tiffani J. Bright,et al.  PubMatrix: a tool for multiplex literature mining , 2003, BMC Bioinformatics.

[10]  Christian von Mering,et al.  STRING: known and predicted protein–protein associations, integrated and transferred across organisms , 2004, Nucleic Acids Res..

[11]  Matthew R. Pocock,et al.  The Bioperl toolkit: Perl modules for the life sciences. , 2002, Genome research.

[12]  T. Jenssen,et al.  A literature network of human genes for high-throughput analysis of gene expression , 2001, Nature Genetics.

[13]  Cathy H. Wu,et al.  The Universal Protein Resource (UniProt) , 2006, Nucleic Acids Research.

[14]  Burkhard Rost,et al.  NLProt: extracting protein names and sequences from papers , 2004, Nucleic Acids Res..