-
1
-
-
84888275483
-
BiomedLEE: A natural-language processor for extracting and representing phenotypes, underlying molecular mechanisms and their relationships
-
Lussier Y, Friedman C: BiomedLEE: a natural-language processor for extracting and representing phenotypes, underlying molecular mechanisms and their relationships. ISMB: 2007. 2007
-
(2007)
ISMB: 2007
-
-
Lussier, Y.1
Friedman, C.2
-
2
-
-
84882647236
-
Towards building a disease-phenotype knowledge base: Extracting disease-manifestation relationship from literature
-
Xu R, Li L, Wang Q: Towards building a disease-phenotype knowledge base: extracting disease-manifestation relationship from literature. Bioinformatics. 2013, 29 (17): 2186-2194. 10.1093/bioinformatics/btt359.
-
(2013)
Bioinformatics
, vol.29
, Issue.17
, pp. 2186-2194
-
-
Xu, R.1
Li, L.2
Wang, Q.3
-
3
-
-
13444266370
-
Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders
-
539987 1:CAS:528:DC%2BD2MXisVektA%3D%3D 15608251
-
Hamosh A, Scott AF, Amberger JS, Bocchini CA, McKusick VA: Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic acids research. 2005, 33 (suppl 1): D514-D517.
-
(2005)
Nucleic Acids Research
, vol.33
, pp. D514-D517
-
-
Hamosh, A.1
Scott, A.F.2
Amberger, J.S.3
Bocchini, C.A.4
McKusick, V.A.5
-
4
-
-
84891749517
-
The Human Phenotype Ontology project: Linking molecular biology and disease through phenotype data
-
Köhler S, Doelken SC, Mungall CJ, Bauer S, Firth HV, Bailleul-Forestier I, Black GC, Brown DL, Brudno M, Campbell J: The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data. Nucleic acids research. 2014, 42 (D1): D966-D974. 10.1093/nar/gkt1026.
-
(2014)
Nucleic Acids Research
, vol.42
, Issue.D1
, pp. D966-D974
-
-
Köhler, S.1
Doelken, S.C.2
Mungall, C.J.3
Bauer, S.4
Firth, H.V.5
Bailleul-Forestier, I.6
Black, G.C.7
Brown, D.L.8
Brudno, M.9
Campbell, J.10
-
5
-
-
59349088021
-
Perspectives for medical informatics
-
1:STN:280:DC%2BD1M%2FotFCktA%3D%3D 19151882
-
Prokosch H-U, Ganslandt T: Perspectives for medical informatics. Methods Inf Med. 2009, 48: 38-44.
-
(2009)
Methods Inf Med
, vol.48
, pp. 38-44
-
-
Prokosch, H.-U.1
Ganslandt, T.2
-
6
-
-
80052329143
-
Using electronic patient records to discover disease correlations and stratify patient cohorts
-
Roque FS, Jensen PB, Schmock H, Dalgaard M, Andreatta M, Hansen T, Bredkjær S, Juul A, Werge T, Jensen LJ, Brunak S: Using electronic patient records to discover disease correlations and stratify patient cohorts. PLoS Computational Biology. 2011, 7 (8): e1002141-10.1371/journal.pcbi.1002141.
-
(2011)
PLoS Computational Biology
, vol.7
, Issue.8
, pp. e1002141
-
-
Roque, F.S.1
Jensen, P.B.2
Schmock, H.3
Dalgaard, M.4
Andreatta, M.5
Hansen, T.6
Bredkjær, S.7
Juul, A.8
Werge, T.9
Jensen, L.J.10
Brunak, S.11
-
7
-
-
77952822074
-
PheWAS: Demonstrating the feasibility of a phenome-wide scan to discover gene-disease associations
-
2859132 1:CAS:528:DC%2BC3cXlt1equ7w%3D 20335276
-
Denny JC, Ritchie MD, Basford MA, Pulley JM, Bastarache L, Brown-Gentry K, Wang D, Masys DR, Roden DM, Crawford DC: PheWAS: demonstrating the feasibility of a phenome-wide scan to discover gene-disease associations. Bioinformatics. 2010, 26 (91): 1205-1210.
-
(2010)
Bioinformatics
, vol.26
, Issue.91
, pp. 1205-1210
-
-
Denny, J.C.1
Ritchie, M.D.2
Basford, M.A.3
Pulley, J.M.4
Bastarache, L.5
Brown-Gentry, K.6
Wang, D.7
Masys, D.R.8
Roden, D.M.9
Crawford, D.C.10
-
8
-
-
0030273030
-
Development and evaluation of a computerized admission diagnoses encoding system
-
Gundersen ML, Haug PJ, Pryor TA, van Bree R, Koehler S, Bauer K, Clemons B: Development and evaluation of a computerized admission diagnoses encoding system. Computers and Biomedical Research. 1996, 29 (5): 351-372. 10.1006/cbmr.1996.0026.
-
(1996)
Computers and Biomedical Research
, vol.29
, Issue.5
, pp. 351-372
-
-
Gundersen, M.L.1
Haug, P.J.2
Pryor, T.A.3
Van Bree, R.4
Koehler, S.5
Bauer, K.6
Clemons, B.7
-
9
-
-
70349466623
-
Building a semantically annotated corpus of clinical texts
-
Roberts A, Gaizauskas R, Hepple M, Demetriou G, Guo Y, Roberts I, Setzer A: Building a semantically annotated corpus of clinical texts. Journal of Biomedical Informatics. 2009, 42 (5): 950-966. 10.1016/j.jbi.2008.12.013.
-
(2009)
Journal of Biomedical Informatics
, vol.42
, Issue.5
, pp. 950-966
-
-
Roberts, A.1
Gaizauskas, R.2
Hepple, M.3
Demetriou, G.4
Guo, Y.5
Roberts, I.6
Setzer, A.7
-
10
-
-
0028186027
-
A natural language understanding system combining syntactic and semantic techniques
-
247 American Medical Informatics Association
-
Haug P, Koehler S, Lau LM, Wang P, Rocha R, Huff S: A natural language understanding system combining syntactic and semantic techniques. Proceedings of the Annual Symposium on Computer Application in Medical Care:. 1994, American Medical Informatics Association: 247
-
(1994)
Proceedings of the Annual Symposium on Computer Application in Medical Care
-
-
Haug, P.1
Koehler, S.2
Lau, L.M.3
Wang, P.4
Rocha, R.5
Huff, S.6
-
12
-
-
0032624184
-
Learning information extraction rules for semi-structured and free text
-
Soderland S: Learning information extraction rules for semi-structured and free text. Machine learning. 1999, 34 (1-3): 233-272.
-
(1999)
Machine Learning
, vol.34
, Issue.1-3
, pp. 233-272
-
-
Soderland, S.1
-
13
-
-
30744459862
-
What makes a gene name? Named entity recognition in the biomedical literature
-
Leser U, Hakenberg J: What makes a gene name? Named entity recognition in the biomedical literature. Briefings in Bioinformatics. 2005, 6 (4): 357-369. 10.1093/bib/6.4.357.
-
(2005)
Briefings in Bioinformatics
, vol.6
, Issue.4
, pp. 357-369
-
-
Leser, U.1
Hakenberg, J.2
-
14
-
-
77951600909
-
Event extraction with complex event classification using rich features
-
Miwa M, Sætre R, Kim JD, Tsujii Ji: Event extraction with complex event classification using rich features. Journal of bioinformatics and computational biology. 2010, 8 (1): 131-146. 10.1142/S0219720010004586.
-
(2010)
Journal of Bioinformatics and Computational Biology
, vol.8
, Issue.1
, pp. 131-146
-
-
Miwa, M.1
Sætre, R.2
Kim, J.D.3
Tsujii, Ji.4
-
15
-
-
80053292637
-
2010 i2b2/VA challenge on concepts, assertions, and relations in clinical text
-
Uzuner Ö, South BR, Shen S, DuVall SL: 2010 i2b2/VA challenge on concepts, assertions, and relations in clinical text. Journal of the American Medical Informatics Association. 2011, 18 (5): 552-556. 10.1136/amiajnl-2011-000203.
-
(2011)
Journal of the American Medical Informatics Association
, vol.18
, Issue.5
, pp. 552-556
-
-
Uzuner, Ö.1
South, B.R.2
Shen, S.3
DuVall, S.L.4
-
16
-
-
85031008452
-
A shared task involving multi-label classification of clinical free text
-
97-104 Association for Computational Linguistics: Biological, Translational, and Clinical Language Processing: 2007
-
Pestian JP, Brew C, Matykiewicz P, Hovermale D, Johnson N, Cohen KB, Duch W: A shared task involving multi-label classification of clinical free text. Proceedings of the Workshop on BioNLP. 2007, Association for Computational Linguistics: 97-104,: Biological, Translational, and Clinical Language Processing: 2007
-
(2007)
Proceedings of the Workshop on BioNLP
-
-
Pestian, J.P.1
Brew, C.2
Matykiewicz, P.3
Hovermale, D.4
Johnson, N.5
Cohen, K.B.6
Duch, W.7
-
17
-
-
67649352145
-
Recognizing obesity and comorbidities in sparse data
-
Uzuner Ö: Recognizing obesity and comorbidities in sparse data. Journal of the American Medical Informatics Association. 2009, 16 (4): 561-570. 10.1197/jamia.M3115.
-
(2009)
Journal of the American Medical Informatics Association
, vol.16
, Issue.4
, pp. 561-570
-
-
Uzuner, Ö.1
-
19
-
-
50649122567
-
Extracting information from textual documents in the electronic health record: A review of recent research
-
Meystre SM, Savova GK, Kipper-Schuler KC, Hurdle JF: Extracting information from textual documents in the electronic health record: a review of recent research. Yearb Med Inform. 2008, 35: 128-144.
-
(2008)
Yearb Med Inform
, vol.35
, pp. 128-144
-
-
Meystre, S.M.1
Savova, G.K.2
Kipper-Schuler, K.C.3
Hurdle, J.F.4
-
20
-
-
85119204319
-
Building a semantically annotated corpus for congestive heart and renal failure from clinical records and the literature
-
Gothenburg Sweden
-
Alnazzawi N, Thompson P, Ananiadou S: Building a semantically annotated corpus for congestive heart and renal failure from clinical records and the literature. Proceedings of Louhi '14. 2014, Gothenburg, Sweden, 69-74.
-
(2014)
Proceedings of Louhi '14
, pp. 69-74
-
-
Alnazzawi, N.1
Thompson, P.2
Ananiadou, S.3
-
21
-
-
80054087451
-
PhenomeNET: A whole-phenome approach to disease gene discovery
-
Hoehndorf R, Schofield PN, Gkoutos GV: PhenomeNET: a whole-phenome approach to disease gene discovery. Nucleic acids research. 2011, 39 (18): e119-10.1093/nar/gkr538.
-
(2011)
Nucleic Acids Research
, vol.39
, Issue.18
, pp. e119
-
-
Hoehndorf, R.1
Schofield, P.N.2
Gkoutos, G.V.3
-
22
-
-
43249114206
-
Network-based global inference of human disease genes
-
Wu X, Jiang R, Zhang MQ, Li S: Network-based global inference of human disease genes. Mol Syst Biol. 2008, 4 (1)
-
(2008)
Mol Syst Biol.
, vol.4
, Issue.1
-
-
Wu, X.1
Jiang, R.2
Zhang, M.Q.3
Li, S.4
-
23
-
-
85020352942
-
Overview of BioNLP shared task 2013
-
Nédellec C, Bossy R, Kim JD, Kim Jj, Ohta T, Pyysalo S, Zweigenbaum P: Overview of BioNLP shared task 2013. Proceedings of the BioNLP Shared Task 2013 Workshop. 2013, 1-7.
-
(2013)
Proceedings of the BioNLP Shared Task 2013 Workshop
, pp. 1-7
-
-
Nédellec, C.1
Bossy, R.2
Kim, J.D.3
Kim, Jj.4
Ohta, T.5
Pyysalo, S.6
Zweigenbaum, P.7
-
24
-
-
0035752429
-
Effective Mapping of Biomedical Text to the UMLS Metathesaurus: The MetaMap Program
-
Aronson Alan: Effective Mapping of Biomedical Text to the UMLS Metathesaurus: The MetaMap Program. American Medical Informatics Association:AMIA. 2001, 17-21.
-
(2001)
American Medical Informatics Association:AMIA
, pp. 17-21
-
-
Aronson, A.1
-
26
-
-
0345863927
-
The unified medical language system (UMLS): Integrating biomedical terminology
-
308795 1:CAS:528:DC%2BD3sXhtVSrurvM 14681409
-
Bodenreider O: The unified medical language system (UMLS): integrating biomedical terminology. Nucleic acids research. 2004, 32 (suppl 1): D267-D270.
-
(2004)
Nucleic Acids Research
, vol.32
, pp. D267-D270
-
-
Bodenreider, O.1
-
27
-
-
0022594196
-
An introduction to hidden Markov models
-
Rabiner L, Juang B-H: An introduction to hidden Markov models. ASSP Magazine, IEEE. 1986, 3 (1): 4-16.
-
(1986)
ASSP Magazine, IEEE
, vol.3
, Issue.1
, pp. 4-16
-
-
Rabiner, L.1
Juang, B.-H.2
-
28
-
-
0000747663
-
Maximum Entropy Markov Models for Information Extraction and Segmentation
-
McCallum A, Freitag D, Pereira FC: Maximum Entropy Markov Models for Information Extraction and Segmentation. ICML. 2000, 591-598.
-
(2000)
ICML
, pp. 591-598
-
-
McCallum, A.1
Freitag, D.2
Pereira, F.C.3
-
30
-
-
33646058032
-
A text-mining analysis of the human phenome
-
van Driel MA, Bruggeman J, Vriend G, Brunner HG, Leunissen JA: A text-mining analysis of the human phenome. European Journal of Human Genetics. 2006, 14 (5): 535-542. 10.1038/sj.ejhg.5201585.
-
(2006)
European Journal of Human Genetics
, vol.14
, Issue.5
, pp. 535-542
-
-
Van Driel, M.A.1
Bruggeman, J.2
Vriend, G.3
Brunner, H.G.4
Leunissen, J.A.5
-
31
-
-
51049088874
-
Overview of BioCreative II gene mention recognition
-
Smith L, Tanabe LK, Ando RJ, Kuo CJ, Chung IF, Hsu CN, Lin YS, Klinger R, Friedrich CM, Ganchev K: Overview of BioCreative II gene mention recognition. Genome biology. 2008, 9 (Suppl 2): S2-10.1186/gb-2008-9-s2-s2.
-
(2008)
Genome Biology
, vol.9
, pp. S2
-
-
Smith, L.1
Tanabe, L.K.2
Ando, R.J.3
Kuo, C.J.4
Chung, I.F.5
Hsu, C.N.6
Lin, Y.S.7
Klinger, R.8
Friedrich, C.M.9
Ganchev, K.10
-
32
-
-
84886418080
-
Overview of the ShARe/CLEF eHealth evaluation lab 2013
-
Springer
-
Suominen H, Salanterä S, Velupillai S, Chapman WW, Savova G, Elhadad N, Pradhan S, South BR, Mowery DL, Jones GJ, Leveling J, Kelly L, Goeuriot L, Martinez D, Zuccon G: Overview of the ShARe/CLEF eHealth evaluation lab 2013. Information Access Evaluation Multilinguality, Multimodality, and Visualization. 2013, Springer, 212-231.
-
(2013)
Information Access Evaluation Multilinguality, Multimodality, and Visualization
, pp. 212-231
-
-
Suominen, H.1
Salanterä, S.2
Velupillai, S.3
Chapman, W.W.4
Savova, G.5
Elhadad, N.6
Pradhan, S.7
South, B.R.8
Mowery, D.L.9
Jones, G.J.10
Leveling, J.11
Kelly, L.12
Goeuriot, L.13
Martinez, D.14
Zuccon, G.15
-
33
-
-
84872498777
-
Application of natural language processing to VA electronic health records to identify phenotypic characteristics for clinical and research purposes
-
3041527 21347124
-
Gundlapalli AV, South BR, Phansalkar S, Kinney AY, Shen S, Delisle S, Perl T, Samore MH: Application of natural language processing to VA electronic health records to identify phenotypic characteristics for clinical and research purposes. Summit on translational bioinformatics. 2008, 2008: 36-
-
(2008)
Summit on Translational Bioinformatics
, vol.2008
, pp. 36
-
-
Gundlapalli, A.V.1
South, B.R.2
Phansalkar, S.3
Kinney, A.Y.4
Shen, S.5
Delisle, S.6
Perl, T.7
Samore, M.H.8
-
34
-
-
85044699752
-
Extracting phenotypic information from the literature via natural language processing
-
Chen L, Friedman C: Extracting phenotypic information from the literature via natural language processing. Medinfo. 2004, 11 (Pt 2): 758-762.
-
(2004)
Medinfo
, vol.11
, pp. 758-762
-
-
Chen, L.1
Friedman, C.2
-
35
-
-
84876803741
-
A machine learning approach for phenotype name recognition
-
Mumbai
-
yam Khordad M, Mercer RE, Rogan P: A machine learning approach for phenotype name recognition. Proceedings of Coling. 2012, Mumbai, 1425-1440.
-
(2012)
Proceedings of Coling
, pp. 1425-1440
-
-
Yam Khordad, M.1
Mercer, R.E.2
Rogan, P.3
-
37
-
-
84868138829
-
Open PHACTS: Semantic interoperability for drug discovery
-
Williams AJ, Harland L, Groth P, Pettifer S, Chichester C, Willighagen EL, Evelo CT, Blomberg N, Ecker G, Goble C, Mons B: Open PHACTS: semantic interoperability for drug discovery. Drug Discovery Today. 2012, 17 (21-22): 1188-1198. 10.1016/j.drudis.2012.05.016.
-
(2012)
Drug Discovery Today
, vol.17
, Issue.21-22
, pp. 1188-1198
-
-
Williams, A.J.1
Harland, L.2
Groth, P.3
Pettifer, S.4
Chichester, C.5
Willighagen, E.L.6
Evelo, C.T.7
Blomberg, N.8
Ecker, G.9
Goble, C.10
Mons, B.11
-
40
-
-
84949809788
-
Conditional random fields vs. Hidden markov models in a biomedical named entity recognition task
-
Ponomareva N, Rosso P, Pla F, Molina A: Conditional random fields vs. hidden markov models in a biomedical named entity recognition task. Proc of Int Conf Recent Advances in Natural Language Processing, RANLP. 2007, 479-483.
-
(2007)
Proc of Int Conf Recent Advances in Natural Language Processing, RANLP
, pp. 479-483
-
-
Ponomareva, N.1
Rosso, P.2
Pla, F.3
Molina, A.4
-
42
-
-
33646502601
-
Developing a robust part-of-speech tagger for biomedical text
-
Springer
-
Tsuruoka Y, Tateishi Y, Kim JD, Ohta T, McNaught J, Ananiadou S, Tsujii Ji: Developing a robust part-of-speech tagger for biomedical text. Advances in informatics. 2005, Springer, 382-392.
-
(2005)
Advances in Informatics
, pp. 382-392
-
-
Tsuruoka, Y.1
Tateishi, Y.2
Kim, J.D.3
Ohta, T.4
McNaught, J.5
Ananiadou, S.6
Tsujii, Ji.7
-
43
-
-
8444239684
-
Enhancing HMM-based biomedical named entity recognition by studying special phenomena
-
Zhang J, Shen D, Zhou G, Su J, Tan CL: Enhancing HMM-based biomedical named entity recognition by studying special phenomena. Journal of Biomedical Informatics. 2004, 37 (6): 411-422. 10.1016/j.jbi.2004.08.005.
-
(2004)
Journal of Biomedical Informatics
, vol.37
, Issue.6
, pp. 411-422
-
-
Zhang, J.1
Shen, D.2
Zhou, G.3
Su, J.4
Tan, C.L.5
-
44
-
-
0035753659
-
SNOMED clinical terms: Overview of the development process and project status
-
American Medical Informatics Association
-
Stearns MQ, Price C, Spackman KA, Wang AY: SNOMED clinical terms: overview of the development process and project status. Proceedings of the AMIA Symposium. 2001, American Medical Informatics Association, 662-
-
(2001)
Proceedings of the AMIA Symposium
, pp. 662
-
-
Stearns, M.Q.1
Price, C.2
Spackman, K.A.3
Wang, A.Y.4
-
45
-
-
84864036149
-
Boosting automatic event extraction from the literature using domain adaptation and coreference resolution
-
Miwa M, Thompson P, Ananiadou S: Boosting automatic event extraction from the literature using domain adaptation and coreference resolution. Bioinformatics. 2012, 28 (13): 1759-1765. 10.1093/bioinformatics/bts237.
-
(2012)
Bioinformatics
, vol.28
, Issue.13
, pp. 1759-1765
-
-
Miwa, M.1
Thompson, P.2
Ananiadou, S.3
-
46
-
-
84954056528
-
Comparable Study of Event Extraction in Newswire and Biomedical Domains
-
Dublin Ireland
-
Miwa M, Thompson P, Korkontzelos I, Ananiadou S: Comparable Study of Event Extraction in Newswire and Biomedical Domains. Proceedings of Coling. 2014, Dublin, Ireland, 2270-2279.
-
(2014)
Proceedings of Coling
, pp. 2270-2279
-
-
Miwa, M.1
Thompson, P.2
Korkontzelos, I.3
Ananiadou, S.4
|