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Items: 14

1.

Tackling the challenges of matching biomedical ontologies.

Faria D, Pesquita C, Mott I, Martins C, Couto FM, Cruz IF.

J Biomed Semantics. 2018 Jan 15;9(1):4. doi: 10.1186/s13326-017-0170-9.

2.

Improving the interoperability of biomedical ontologies with compound alignments.

Oliveira D, Pesquita C.

J Biomed Semantics. 2018 Jan 9;9(1):1. doi: 10.1186/s13326-017-0171-8.

3.

Semantic Similarity in the Gene Ontology.

Pesquita C.

Methods Mol Biol. 2017;1446:161-173.

PMID:
27812942
4.

Ontology Alignment Repair through Modularization and Confidence-Based Heuristics.

Santos E, Faria D, Pesquita C, Couto FM.

PLoS One. 2015 Dec 28;10(12):e0144807. doi: 10.1371/journal.pone.0144807. eCollection 2015.

5.

Automatic background knowledge selection for matching biomedical ontologies.

Faria D, Pesquita C, Santos E, Cruz IF, Couto FM.

PLoS One. 2014 Nov 7;9(11):e111226. doi: 10.1371/journal.pone.0111226. eCollection 2014.

6.

The epidemiology ontology: an ontology for the semantic annotation of epidemiological resources.

Pesquita C, Ferreira JD, Couto FM, Silva MJ.

J Biomed Semantics. 2014 Jan 17;5(1):4. doi: 10.1186/2041-1480-5-4.

7.

Predicting the extension of biomedical ontologies.

Pesquita C, Couto FM.

PLoS Comput Biol. 2012;8(9):e1002630. doi: 10.1371/journal.pcbi.1002630. Epub 2012 Sep 13.

8.

Mining GO annotations for improving annotation consistency.

Faria D, Schlicker A, Pesquita C, Bastos H, Ferreira AE, Albrecht M, Falcão AO.

PLoS One. 2012;7(7):e40519. doi: 10.1371/journal.pone.0040519. Epub 2012 Jul 25.

9.

Chemical Entity Recognition and Resolution to ChEBI.

Grego T, Pesquita C, Bastos HP, Couto FM.

ISRN Bioinform. 2012 Feb 15;2012:619427. doi: 10.5402/2012/619427. eCollection 2012.

10.

Application of gene ontology to gene identification.

Bastos HP, Tavares B, Pesquita C, Faria D, Couto FM.

Methods Mol Biol. 2011;760:141-57. doi: 10.1007/978-1-61779-176-5_9.

PMID:
21779995
11.

Rescue of F508del-CFTR by RXR motif inactivation triggers proteome modulation associated with the unfolded protein response.

Gomes-Alves P, Couto F, Pesquita C, Coelho AV, Penque D.

Biochim Biophys Acta. 2010 Apr;1804(4):856-65. doi: 10.1016/j.bbapap.2009.12.013. Epub 2010 Jan 4.

PMID:
20044041
12.

Semantic similarity in biomedical ontologies.

Pesquita C, Faria D, Falcão AO, Lord P, Couto FM.

PLoS Comput Biol. 2009 Jul;5(7):e1000443. doi: 10.1371/journal.pcbi.1000443. Epub 2009 Jul 31. Review.

13.

Dynamic modularity in protein interaction networks predicts breast cancer outcome.

Taylor IW, Linding R, Warde-Farley D, Liu Y, Pesquita C, Faria D, Bull S, Pawson T, Morris Q, Wrana JL.

Nat Biotechnol. 2009 Feb;27(2):199-204. doi: 10.1038/nbt.1522. Epub 2009 Feb 1.

PMID:
19182785
14.

Metrics for GO based protein semantic similarity: a systematic evaluation.

Pesquita C, Faria D, Bastos H, Ferreira AE, Falcão AO, Couto FM.

BMC Bioinformatics. 2008 Apr 29;9 Suppl 5:S4. doi: 10.1186/1471-2105-9-S5-S4.

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