BioTextRetriever: A Tool to Retrieve Relevant Papers.

Whenever new sequences of DNA or proteins have been decoded it is almost compulsory to look at similar sequences and papers describing those sequences in order to both collect relevant information concerning the function and activity of the new sequences and/or know what is known already about simil...

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Bibliographic Details
Main Author: Célia Talma Gonçalves (author)
Other Authors: Rui Camacho (author), Eugénio Oliveira (author)
Format: article
Language:eng
Published: 2011
Subjects:
Online Access:https://hdl.handle.net/10216/67120
Country:Portugal
Oai:oai:repositorio-aberto.up.pt:10216/67120
Description
Summary:Whenever new sequences of DNA or proteins have been decoded it is almost compulsory to look at similar sequences and papers describing those sequences in order to both collect relevant information concerning the function and activity of the new sequences and/or know what is known already about similar sequences. In current web sites and data bases of sequences there are, usually, a set of curated paper references linked to each sequence. Those links are a good starting point to look for relevant information related to a set of sequences. One way to implement such approach is to do a blast with the new decoded sequences, and collect similar sequences. Then one looks at the papers linked with the similar sequences. Most often the number of retrieved papers is small and one has to search large data bases for relevant papers. This paper proposes a process of generating a classifier based on the initially set of relevant papers. First, the authors collect similar sequences using an alignment algorithm like Blast. Then, the authors use the enlarges set of papers to construct a classifier. Finally a classifier is used to automatically enlarge the set of relevant papers by searching the MEDLINE using the automatically constructed classifier.