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2018 ; 19
(1
): 94
Nephropedia Template TP
gab.com Text
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English Wikipedia
Textpresso Central: a customizable platform for searching, text mining, viewing,
and curating biomedical literature
#MMPMID29523070
Müller HM
; Van Auken KM
; Li Y
; Sternberg PW
BMC Bioinformatics
2018[Mar]; 19
(1
): 94
PMID29523070
show ga
BACKGROUND: The biomedical literature continues to grow at a rapid pace, making
the challenge of knowledge retrieval and extraction ever greater. Tools that
provide a means to search and mine the full text of literature thus represent an
important way by which the efficiency of these processes can be improved.
RESULTS: We describe the next generation of the Textpresso information retrieval
system, Textpresso Central (TPC). TPC builds on the strengths of the original
system by expanding the full text corpus to include the PubMed Central Open
Access Subset (PMC OA), as well as the WormBase C. elegans bibliography. In
addition, TPC allows users to create a customized corpus by uploading and
processing documents of their choosing. TPC is UIMA compliant, to facilitate
compatibility with external processing modules, and takes advantage of Lucene
indexing and search technology for efficient handling of millions of full text
documents. Like Textpresso, TPC searches can be performed using keywords and/or
categories (semantically related groups of terms), but to provide better context
for interpreting and validating queries, search results may now be viewed as
highlighted passages in the context of full text. To facilitate biocuration
efforts, TPC also allows users to select text spans from the full text and
annotate them, create customized curation forms for any data type, and send
resulting annotations to external curation databases. As an example of such a
curation form, we describe integration of TPC with the Noctua curation tool
developed by the Gene Ontology (GO) Consortium. CONCLUSION: Textpresso Central is
an online literature search and curation platform that enables biocurators and
biomedical researchers to search and mine the full text of literature by
integrating keyword and category searches with viewing search results in the
context of the full text. It also allows users to create customized curation
interfaces, use those interfaces to make annotations linked to supporting
evidence statements, and then send those annotations to any database in the
world. Textpresso Central URL: http://www.textpresso.org/tpc.