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Items: 1 to 20 of 85

2.
3.

Predicting Protein Function via Semantic Integration of Multiple Networks.

Yu G, Fu G, Wang J, Zhu H.

IEEE/ACM Trans Comput Biol Bioinform. 2016 Mar-Apr;13(2):220-32. doi: 10.1109/TCBB.2015.2459713. Epub 2015 Jul 22.

PMID:
26800544
4.

Hypotheses generation as supervised link discovery with automated class labeling on large-scale biomedical concept networks.

Katukuri JR, Xie Y, Raghavan VV, Gupta A.

BMC Genomics. 2012 Jun 11;13 Suppl 3:S5. doi: 10.1186/1471-2164-13-S3-S5.

5.

Identifying informative subsets of the Gene Ontology with information bottleneck methods.

Jin B, Lu X.

Bioinformatics. 2010 Oct 1;26(19):2445-51. doi: 10.1093/bioinformatics/btq449. Epub 2010 Aug 11.

6.

Empirical distributional semantics: methods and biomedical applications.

Cohen T, Widdows D.

J Biomed Inform. 2009 Apr;42(2):390-405. doi: 10.1016/j.jbi.2009.02.002. Epub 2009 Feb 14. Review.

7.

A relation based measure of semantic similarity for Gene Ontology annotations.

Sheehan B, Quigley A, Gaudin B, Dobson S.

BMC Bioinformatics. 2008 Nov 4;9:468. doi: 10.1186/1471-2105-9-468.

8.

Exploring and linking biomedical resources through multidimensional semantic spaces.

Berlanga R, Jiménez-Ruiz E, Nebot V.

BMC Bioinformatics. 2012 Jan 25;13 Suppl 1:S6. doi: 10.1186/1471-2105-13-S1-S6.

9.

SHOPIN: Semantic Homogeneity Optimization in Protein Interaction Networks.

Trivodaliev K, Kalajdziski S, Ivanoska I, Stojkoska BR, Kocarev L.

Adv Protein Chem Struct Biol. 2015;101:323-49. doi: 10.1016/bs.apcsb.2015.07.004. Epub 2015 Aug 24. Review.

PMID:
26572982
10.

Algorithms and semantic infrastructure for mutation impact extraction and grounding.

Laurila JB, Naderi N, Witte R, Riazanov A, Kouznetsov A, Baker CJ.

BMC Genomics. 2010 Dec 2;11 Suppl 4:S24. doi: 10.1186/1471-2164-11-S4-S24.

11.

Detection of protein complexes from affinity purification/mass spectrometry data.

Cai B, Wang H, Zheng H, Wang H.

BMC Syst Biol. 2012;6 Suppl 3:S4. doi: 10.1186/1752-0509-6-S3-S4. Epub 2012 Dec 17.

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.

A graph-based semantic similarity measure for the gene ontology.

Alvarez MA, Yan C.

J Bioinform Comput Biol. 2011 Dec;9(6):681-95.

PMID:
22084008
14.

BIOSMILE: a semantic role labeling system for biomedical verbs using a maximum-entropy model with automatically generated template features.

Tsai RT, Chou WC, Su YS, Lin YC, Sung CL, Dai HJ, Yeh IT, Ku W, Sung TY, Hsu WL.

BMC Bioinformatics. 2007 Sep 1;8:325.

15.

Evaluating the significance of protein functional similarity based on gene ontology.

Konopka BM, Golda T, Kotulska M.

J Comput Biol. 2014 Nov;21(11):809-22. doi: 10.1089/cmb.2014.0181. Epub 2014 Sep 4.

PMID:
25188814
16.

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.

17.

Spectral affinity in protein networks.

Voevodski K, Teng SH, Xia Y.

BMC Syst Biol. 2009 Nov 29;3:112. doi: 10.1186/1752-0509-3-112.

18.

Measuring semantic similarities by combining gene ontology annotations and gene co-function networks.

Peng J, Uygun S, Kim T, Wang Y, Rhee SY, Chen J.

BMC Bioinformatics. 2015 Feb 14;16:44. doi: 10.1186/s12859-015-0474-7.

19.

Extracting Various Classes of Data From Biological Text Using the Concept of Existence Dependency.

Taha K.

IEEE J Biomed Health Inform. 2015 Nov;19(6):1918-28. doi: 10.1109/JBHI.2015.2392786. Epub 2015 Jan 19.

PMID:
25616086
20.

Bi-directional semantic similarity for gene ontology to optimize biological and clinical analyses.

Bien SJ, Park CH, Shim HJ, Yang W, Kim J, Kim JH.

J Am Med Inform Assoc. 2012 Sep-Oct;19(5):765-74. doi: 10.1136/amiajnl-2011-000659. Epub 2012 Feb 28.

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