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

G. Dieterich, U. Karst, J. Wehland, L. Jansch
2005 Bioinformatics  
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 webbased 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 in order to find and present relevant  ...  Conflict of Interest: none declared.  ... 
doi:10.1093/bioinformatics/bti528 pmid:15941742 fatcat:q44ockzpnrbvnga5rcmnjqa65u

LEGER: knowledge database and visualization tool for comparative genomics of pathogenic and non-pathogenic Listeria species

G. Dieterich
2006 Nucleic Acids Research  
and Genome Viewer, alleviate the functional exploration of complex data; and (iii) LEGER presents results of systematic postgenome studies, thus facilitating analyses com-35 bining computational and experimental  ...  The Proteome database LEGER (http://leger2.gbf.de/cgi-bin/expLeger.pl) was developed to support functional genome ana-25 lyses by combining information obtained by applying bioinformatics methods and from  ...  A genome-wide MineBlast query was already completed and adapted result pages shortcut the alternative processing using the public NCBI services (BLAST and PubMed queries).  ... 
doi:10.1093/nar/gkj071 pmid:16381897 pmcid:PMC1347434 fatcat:incf3r7corhbvlxcyczdri3b7e

Computational Method For Annotation Of Protein Sequence According To Gene Ontology Terms

Razib M. Othman, Safaai Deris, Rosli M. Illias
2007 Zenodo  
Annotation of a protein sequence is pivotal for the understanding of its function.  ...  The methodology of this study and Gene Ontology based protein sequence annotation tool namely extended UTMGO is presented.  ...  [95] introduced a data mining technique that calculates the probabilistic relationships between the GO annotations of proteins on protein-protein interaction data.  ... 
doi:10.5281/zenodo.1072129 fatcat:vz5sofxjgvbi7dqdyyp5pzgl3e

Community Classification of the Protein Universe

Matthew Jacob Jeffryes, Apollo-University Of Cambridge Repository, Apollo-University Of Cambridge Repository, Alex Bateman
2019
I then develop a system for performing literature search based on protein families, exploiting the manually annotated links between literature and proteins found in the Swiss-Prot subset of the UniProt  ...  In the third chapter, I discuss the use of literature search in protein family database curation, and the existing literature resources used by protein family database curators.  ...  novel approach to literature curation, allowing them to mine information from the literature which is not yet present in Pfam.  ... 
doi:10.17863/cam.45148 fatcat:rrufdst7ovdd5hynk42nwztszm