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Knowledge-based analysis

This section incorporates all aspects of knowledge-based analysis in biology including but not limited to: methods for the processing of text, ontologies and other computational representations of biological knowledge, as well as applications of knowledge-based systems for gaining insight into biology and biological data.

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1.

Software   Open Access

search GenBank: interactive orchestration and ad-hoc choreography of Web services in the exploration of the biomedical resources of the National Center For Biotechnology Information

Dariusz Mrozek, Bo¿ena Ma¿ysiak-Mrozek, Artur Si¿¿nik BMC Bioinformatics 2013, 14:73 (1 March 2013)

Abstract | Provisional PDF

2.

Research article   Open Access

Evaluating the use of different positional strategies for sentence selection in biomedical literature summarization

Laura Plaza, Jorge Carrillo-de-Albornoz BMC Bioinformatics 2013, 14:71 (27 February 2013)

Abstract | Provisional PDF | PubMed

3.

Software   Open Access Highly Accessed

Gimli: open source and high-performance biomedical name recognition

David Campos, Sérgio Matos, José Luís Oliveira BMC Bioinformatics 2013, 14:54 (15 February 2013)

Abstract | Provisional PDF | PubMed

4.

Methodology article   Open Access Highly Accessed

STOP using just GO: a multi-ontology hypothesis generation tool for high throughput experimentation

Tobias Wittkop, Emily TerAvest, Uday S Evani, K Mathew Fleisch, Ari E Berman, Corey Powell, Nigam H Shah, Sean D Mooney BMC Bioinformatics 2013, 14:53 (14 February 2013)

Abstract | Provisional PDF | PubMed

5.

Research article   Open Access Highly Accessed

Discovery of novel biomarkers and phenotypes by semantic technologies

Carlo A Trugenberger, Christoph Wälti, David Peregrim, Mark E Sharp, Svetlana Bureeva BMC Bioinformatics 2013, 14:51 (13 February 2013)

Abstract | Provisional PDF | PubMed

6.

Research article   Open Access

Semantic representation of monogenean haptoral Bar image annotation

Arpah Abu, Lee Hong Lim, Amandeep S Sidhu, Sarinder K Dhillon BMC Bioinformatics 2013, 14:48 (12 February 2013)

Abstract | Provisional PDF | PubMed

7.

Research article   Open Access Highly Accessed

Negated bio-events: analysis and identification

Raheel Nawaz, Paul Thompson, Sophia Ananiadou BMC Bioinformatics 2013, 14:14 (16 January 2013)

Abstract | Full text | PDF | PubMed

8.

Research article   Open Access

A detailed error analysis of 13 kernel methods for protein-protein interaction extraction

Domonkos Tikk, Illés Solt, Philippe Thomas, Ulf Leser BMC Bioinformatics 2013, 14:12 (16 January 2013)

Abstract | Provisional PDF | PubMed

9.

Software   Open Access

XperimentR: painless annotation of a biological experiment for the laboratory scientist

Chris D Tomlinson, Geraint R Barton, Mark Woodbridge, Sarah A Butcher BMC Bioinformatics 2013, 14:8 (16 January 2013)

Abstract | Full text | PDF | PubMed

10.

Research article   Open Access Highly Accessed

BioCause: Annotating and analysing causality in the biomedical domain

Claudiu Mihaila, Tomoko Ohta, Sampo Pyysalo, Sophia Ananiadou BMC Bioinformatics 2013, 14:2 (16 January 2013)

Abstract | Provisional PDF | PubMed

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