-
1
-
-
33344465511
-
Biomedical language processing: What's beyond PubMed?
-
Hunter,L. and Cohen,K.B. (2006) Biomedical language processing: what's beyond PubMed? Mol. Cell, 21, 589-594.
-
(2006)
Mol. Cell
, vol.21
, pp. 589-594
-
-
Hunter, L.1
Cohen, K.B.2
-
2
-
-
38949137710
-
Comparison of PubMed, Scopus, Web of Science, and Google Scholar: Strengths and weaknesses
-
Falagas,M.E., Pitsouni,E.I., Malietzis,G.A. et al. (2008) Comparison of PubMed, Scopus, Web of Science, and Google Scholar: strengths and weaknesses. FASEB J., 22, 338-342.
-
(2008)
FASEB J.
, vol.22
, pp. 338-342
-
-
Falagas, M.E.1
Pitsouni, E.I.2
Malietzis, G.A.3
-
3
-
-
1842637568
-
Extracting knowledge from the World Wide Web
-
Henzinger,M. and Lawrence,S. (2004) Extracting knowledge from the World Wide Web. Proc. Natl Acad. Sci. USA, 101 (Suppl. 1), 5186-5191.
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, Issue.SUPPL. 1
, pp. 5186-5191
-
-
Henzinger, M.1
Lawrence, S.2
-
4
-
-
58149200940
-
Human immunodeficiency virus type 1, human protein interaction database at NCBI
-
Fu,W., Sanders-Beer,B.E., Katz,K.S. et al. (2009) Human immunodeficiency virus type 1, human protein interaction database at NCBI. Nucleic Acids Res., 37, D417-D422.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Fu, W.1
Sanders-Beer, B.E.2
Katz, K.S.3
-
5
-
-
38549086310
-
PepCyber:P∼PEP: A database of human protein protein interactions mediated by phosphoprotein-binding domains
-
Gong,W., Zhou,D., Ren,Y. et al. (2008) PepCyber:P∼PEP: a database of human protein protein interactions mediated by phosphoprotein-binding domains. Nucleic Acids Res., 36, D679-D683.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Gong, W.1
Zhou, D.2
Ren, Y.3
-
6
-
-
84860202518
-
A comprehensive manually curated protein-protein interaction database for the Death Domain superfamily
-
Kwon,D., Yoon,J.H., Shin,S.Y. et al. (2012) A comprehensive manually curated protein-protein interaction database for the Death Domain superfamily. Nucleic Acids Res., 40, D331-D336.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Kwon, D.1
Yoon, J.H.2
Shin, S.Y.3
-
7
-
-
84876569934
-
The TissueNet database of human tissue protein-protein interactions
-
Barshir,R., Basha,O., Eluk,A. et al. (2013) The TissueNet database of human tissue protein-protein interactions. Nucleic Acids Res., 41, D841-D844.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Barshir, R.1
Basha, O.2
Eluk, A.3
-
8
-
-
84874229740
-
The 2013 Nucleic Acids Research Database Issue and the online molecular biology database collection
-
Fernandez-Suarez,X.M. and Galperin,M.Y. (2013) The 2013 Nucleic Acids Research Database Issue and the online molecular biology database collection. Nucleic Acids Res., 41, D1-D7.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Fernandez-Suarez, X.M.1
Galperin, M.Y.2
-
9
-
-
84876566990
-
DoriC 5.0: An updated database of oriC regions in both bacterial and archaeal genomes
-
Gao,F., Luo,H. and Zhang,C. T. (2013) DoriC 5.0: an updated database of oriC regions in both bacterial and archaeal genomes. Nucleic Acids Res., 41, D90-D93.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Gao, F.1
Luo, H.2
Zhang, C.T.3
-
10
-
-
84876559730
-
ChiTaRS: A database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data
-
Frenkel-Morgenstern,M., Gorohovski,A., Lacroix,V. et al. (2013) ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data. Nucleic Acids Res., 41, D142-D151.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Frenkel-Morgenstern, M.1
Gorohovski, A.2
Lacroix, V.3
-
11
-
-
84876580265
-
SwissRegulon, a database of genome-wide annotations of regulatory sites: Recent updates
-
Pachkov,M., Balwierz,P. J., Arnold,P. et al. (2013) SwissRegulon, a database of genome-wide annotations of regulatory sites: recent updates. Nucleic Acids Res., 41, D214-D220.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Pachkov, M.1
Balwierz, P.J.2
Arnold, P.3
-
12
-
-
75549084463
-
The immune epitope database 2.0
-
Vita,R., Zarebski,L., Greenbaum,J.A. et al. (2010) The immune epitope database 2.0. Nucleic Acids Res., 38, D854-D862.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Vita, R.1
Zarebski, L.2
Greenbaum, J.A.3
-
13
-
-
84876467333
-
The comparative toxicogenomics database: Update 2013
-
Davis,A.P., Murphy,C.G., Johnson,R. et al. (2013) The comparative toxicogenomics database: update 2013. Nucleic Acids Res., 41, D1104-D1114.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Davis, A.P.1
Murphy, C.G.2
Johnson, R.3
-
14
-
-
84859727275
-
The Mouse Genome Database (MGD): Comprehensive resource for genetics and genomics of the laboratory mouse
-
Eppig,J.T., Blake,J.A., Bult,C.J. et al. (2012) The Mouse Genome Database (MGD): comprehensive resource for genetics and genomics of the laboratory mouse. Nucleic Acids Res., 40, D881-D886.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Eppig, J.T.1
Blake, J.A.2
Bult, C.J.3
-
15
-
-
82755166898
-
From pharmacogenomic knowledge acquisition to clinical applications: The PharmGKB as a clinical pharmacogenomic biomarker resource
-
McDonagh,E.M., Whirl-Carrillo,M., Garten,Y. et al. (2011) From pharmacogenomic knowledge acquisition to clinical applications: the PharmGKB as a clinical pharmacogenomic biomarker resource. Biomark Med., 5, 795-806.
-
(2011)
Biomark Med.
, vol.5
, pp. 795-806
-
-
McDonagh, E.M.1
Whirl-Carrillo, M.2
Garten, Y.3
-
16
-
-
84879330505
-
An overview of the BioCreative 2012 Workshop Track III: Interactive text mining task
-
Arighi,C.N., Carterette,B., Cohen,K.B. et al. (2013) An overview of the BioCreative 2012 Workshop Track III: interactive text mining task. Database (Oxford), 2013, bas056.
-
(2013)
Database (Oxford)
, vol.2013
-
-
Arighi, C.N.1
Carterette, B.2
Cohen, K.B.3
-
17
-
-
84862243600
-
Towards semi-automated curation: Using text mining to recreate the HIV-1, human protein interaction database
-
Jamieson,D.G., Gerner,M., Sarafraz,F. et al. (2012) Towards semi-automated curation: using text mining to recreate the HIV-1, human protein interaction database. Database (Oxford), 2012, bas023.
-
(2012)
Database (Oxford)
, vol.2012
-
-
Jamieson, D.G.1
Gerner, M.2
Sarafraz, F.3
-
18
-
-
78049296111
-
Patterns of HIV-1 protein interaction identify perturbed host-cellular subsystems
-
MacPherson,J.I., Dickerson,J.E., Pinney,J.W. et al. (2010) Patterns of HIV-1 protein interaction identify perturbed host-cellular subsystems. PLoS Comput. Biol., 6, e1000863.
-
(2010)
PLoS Comput. Biol.
, vol.6
-
-
MacPherson, J.I.1
Dickerson, J.E.2
Pinney, J.W.3
-
19
-
-
84874535095
-
Prevalence of chronic pain with neuropathic characteristics in the moroccan general population: A national survey
-
Harifi,G., Amine,M., Ait Ouazar,M. et al. (2013) Prevalence of chronic pain with neuropathic characteristics in the moroccan general population: a national survey. Pain Med., 14, 287-292.
-
(2013)
Pain Med.
, vol.14
, pp. 287-292
-
-
Harifi, G.1
Amine, M.2
Ait Ouazar, M.3
-
20
-
-
35748943212
-
Pharmacologic management of neuropathic pain: Evidence-based recommendations
-
Dworkin,R.H., O'Connor,A.B., Backonja,M. et al. (2007) Pharmacologic management of neuropathic pain: evidence-based recommendations. Pain, 132, 237-251.
-
(2007)
Pain
, vol.132
, pp. 237-251
-
-
Dworkin, R.H.1
O'Connor, A.B.2
Backonja, M.3
-
22
-
-
84862334333
-
The role of the immune system in the generation of neuropathic pain
-
Calvo,M., Dawes,J.M. and Bennett,D.L. (2012) The role of the immune system in the generation of neuropathic pain. Lancet Neurol., 11, 629-642.
-
(2012)
Lancet Neurol.
, vol.11
, pp. 629-642
-
-
Calvo, M.1
Dawes, J.M.2
Bennett, D.L.3
-
23
-
-
0033526651
-
Neuropathic pain: Aetiology, symptoms, mechanisms, and management
-
Woolf,C.J. and Mannion,R.J. (1999) Neuropathic pain: aetiology, symptoms, mechanisms, and management. Lancet, 353, 1959-1964.
-
(1999)
Lancet
, vol.353
, pp. 1959-1964
-
-
Woolf, C.J.1
Mannion, R.J.2
-
24
-
-
67651048942
-
Neuropathic pain: A maladaptive response of the nervous system to damage
-
Costigan,M., Scholz,J. and Woolf,C.J. (2009) Neuropathic pain: a maladaptive response of the nervous system to damage. Annu. Rev. Neurosci., 32, 1-32.
-
(2009)
Annu. Rev. Neurosci.
, vol.32
, pp. 1-32
-
-
Costigan, M.1
Scholz, J.2
Woolf, C.J.3
-
25
-
-
84874200863
-
Using UMLS lexical resources to disambiguate abbreviations in clinical text
-
Kim,Y., Hurdle,J. and Meystre,S.M. (2011) Using UMLS lexical resources to disambiguate abbreviations in clinical text. AMIA Annu. Symp. Proc., 2011, 715-722.
-
(2011)
AMIA Annu. Symp. Proc.
, vol.2011
, pp. 715-722
-
-
Kim, Y.1
Hurdle, J.2
Meystre, S.M.3
-
26
-
-
0036357372
-
A study of abbreviations in MEDLINE abstracts
-
Liu,H., Aronson,A.R. and Friedman,C. (2002) A study of abbreviations in MEDLINE abstracts. Proc. AMIA Symp., 2002, 464-468.
-
(2002)
Proc. AMIA Symp.
, vol.2002
, pp. 464-468
-
-
Liu, H.1
Aronson, A.R.2
Friedman, C.3
-
27
-
-
77949431037
-
LINNAEUS: A species name identification system for biomedical literature
-
Gerner,M., Nenadic,G. and Bergman,C.M. (2010) LINNAEUS: a species name identification system for biomedical literature. BMC Bioinformatics, 11, 85.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 85
-
-
Gerner, M.1
Nenadic, G.2
Bergman, C.M.3
-
28
-
-
84865085964
-
BioContext: An integrated text mining system for large-scale extraction and contextualization of biomolecular events
-
Gerner,M., Sarafraz,F., Bergman,C.M. et al. (2012) BioContext: an integrated text mining system for large-scale extraction and contextualization of biomolecular events. Bioinformatics, 28, 2154-2161.
-
(2012)
Bioinformatics
, vol.28
, pp. 2154-2161
-
-
Gerner, M.1
Sarafraz, F.2
Bergman, C.M.3
-
29
-
-
80053226733
-
Evaluating dependency representation for event extraction
-
Miwa,M., Pyysalo,S., Hara,T. and Tsujii,J. (2010) Evaluating dependency representation for event extraction. In: The 23rd International Conference on Computational Linguistics (COLING 2010). pp. 779-787.
-
(2010)
The 23rd International Conference on Computational Linguistics (COLING 2010)
, pp. 779-787
-
-
Miwa, M.1
Pyysalo, S.2
Hara, T.3
Tsujii, J.4
-
30
-
-
85121797056
-
Extracting complex biological events with rich graph-based feature sets
-
Björne,J., Heimonen,J., Ginter,F. et al. (2009) Extracting complex biological events with rich graph-based feature sets. In: Proceedings of the Workshop on BioNLP Shared Task Boulder, Colorado, pp. 10-18.
-
(2009)
Proceedings of the Workshop on BioNLP Shared Task Boulder, Colorado
, pp. 10-18
-
-
Björne, J.1
Heimonen, J.2
Ginter, F.3
-
31
-
-
1542280156
-
The GENIA Corpus: An annotated research abstract corpus in molecular biology domain
-
Morgan Kaufmann Publishers Inc., San Francisco, CA, USA
-
Ohta,T., Tateisi,Y. and Kim,J. (2002) The GENIA Corpus: an annotated research abstract corpus in molecular biology domain. In: Proceedings of the second international conference on Human Language Technology Research. Morgan Kaufmann Publishers Inc., San Francisco, CA, USA.
-
(2002)
Proceedings of the Second International Conference on Human Language Technology Research
-
-
Ohta, T.1
Tateisi, Y.2
Kim, J.3
-
32
-
-
85104042765
-
Overview of BioNLP'09 shared task on event extraction
-
Association for Computational Linguistics, Stroudsburg, PA, USA
-
Kim,J.D., Ohta,T., Pyysalo,S. et al. (2009) Overview of BioNLP'09 shared task on event extraction. In: Proceedings of the Workshop on BioNLP: Shared Task. Association for Computational Linguistics, Stroudsburg, PA, USA, pp. 1-9.
-
(2009)
Proceedings of the Workshop on BioNLP: Shared Task
, pp. 1-9
-
-
Kim, J.D.1
Ohta, T.2
Pyysalo, S.3
-
33
-
-
49549120418
-
Inter-species normalization of gene mentions with GNAT
-
Hakenberg,J., Plake,C., Leaman,R. et al. (2008) Inter-species normalization of gene mentions with GNAT. Bioinformatics, 24, i126-i132.
-
(2008)
Bioinformatics
, vol.24
-
-
Hakenberg, J.1
Plake, C.2
Leaman, R.3
-
34
-
-
84864074911
-
Gene mention normalization in full texts using GNAT and LINNAEUS
-
Solt,I., Gerner,M., Thomas,P. et al. (2010) Gene mention normalization in full texts using GNAT and LINNAEUS. In: Proceedings of the BioCreative III Workshop. Bethesda, USA.
-
(2010)
Proceedings of the BioCreative III Workshop. Bethesda, USA
-
-
Solt, I.1
Gerner, M.2
Thomas, P.3
-
35
-
-
80053441509
-
The GNAT library for local and remote gene mention normalization
-
Hakenberg,J., Gerner,M., Haeussler,M. et al. (2011) The GNAT library for local and remote gene mention normalization. Bioinformatics, 27, 2769-2771.
-
(2011)
Bioinformatics
, vol.27
, pp. 2769-2771
-
-
Hakenberg, J.1
Gerner, M.2
Haeussler, M.3
-
36
-
-
79953325924
-
GeneTUKit: A software for document-level gene normalization
-
Huang,M., Liu,J. and Zhu,X. (2011) GeneTUKit: a software for document-level gene normalization. Bioinformatics, 27, 1032-1033.
-
(2011)
Bioinformatics
, vol.27
, pp. 1032-1033
-
-
Huang, M.1
Liu, J.2
Zhu, X.3
-
37
-
-
33846056843
-
Entrez gene: Genecentered information at NCBI
-
Maglott,D., Ostell,J., Pruitt,K. D. et al. (2007) Entrez gene: genecentered information at NCBI. Nucleic Acids Res., 35, D26-D31.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Maglott, D.1
Ostell, J.2
Pruitt, K.D.3
-
38
-
-
84857745267
-
Database resources of the National Center for Biotechnology Information
-
Sayers,E.W., Barrett,T., Benson,D.A. et al. (2012) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 40, D13-D25.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Sayers, E.W.1
Barrett, T.2
Benson, D.A.3
-
39
-
-
34547545164
-
The pain genes database: An interactive web browser of pain-related transgenic knockout studies
-
Lacroix-Fralish,M.L., Ledoux,J.B. and Mogil,J.S. (2007) The pain genes database: an interactive web browser of pain-related transgenic knockout studies. Pain, 131, 3 e1-4.
-
(2007)
Pain
, vol.131
-
-
Lacroix-Fralish, M.L.1
Ledoux, J.B.2
Mogil, J.S.3
-
41
-
-
79960052396
-
Using SVMs with the command relation features to identify negated events in biomedical literature
-
Association for Computational Linguistics, Uppsala, Sweden
-
Sarafraz,F. and Nenadic,G. (2010) Using SVMs with the command relation features to identify negated events in biomedical literature. In: The Workshop on Negation and Speculation in Natural Language Processing. Association for Computational Linguistics, Uppsala, Sweden.
-
(2010)
The Workshop on Negation and Speculation in Natural Language Processing
-
-
Sarafraz, F.1
Nenadic, G.2
-
42
-
-
0034069495
-
Gene ontology: Tool for the unification of biology
-
The Gene Ontology Consortium
-
Ashburner,M., Ball,C.A., Blake,J.A. et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet., 25, 25-29.
-
(2000)
Nat. Genet.
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
-
44
-
-
77957334901
-
Automatic, context-specific generation of Gene Ontology slims
-
Davis,M.J., Sehgal,M.S. and Ragan,M.A. (2010) Automatic, context-specific generation of Gene Ontology slims. BMC Bioinformatics, 11, 498.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 498
-
-
Davis, M.J.1
Sehgal, M.S.2
Ragan, M.A.3
-
45
-
-
84892693542
-
-
FTP Service, National Center for Biotechnology Information, http://www.ncbi.nlm.nih.gov/Ftp/.
-
FTP Service
-
-
-
46
-
-
34547879631
-
MutationFinder: A high-performance system for extracting point mutation mentions from text
-
Caporaso,J.G., Baumgartner,W.A. Jr, Randolph,D.A. et al. (2007) MutationFinder: a high-performance system for extracting point mutation mentions from text. Bioinformatics, 23, 1862-1865.
-
(2007)
Bioinformatics
, vol.23
, pp. 1862-1865
-
-
Caporaso, J.G.1
Baumgartner Jr., W.A.2
Randolph, D.A.3
-
47
-
-
84876529535
-
Factorbook.Org: A Wiki-based database for transcription factor-binding data generated by the ENCODE consortium
-
Wang,J., Zhuang,J., Iyer,S. et al. (2013) Factorbook.org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium. Nucleic Acids Res., 41, D171-D176.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Wang, J.1
Zhuang, J.2
Iyer, S.3
-
48
-
-
84892744906
-
-
MediaWiki
-
MediaWiki. (2012) API:Main page - Mediawiki, MediaWiki, http://www.mediawiki.org/wiki/API:Main-page.
-
(2012)
API:Main Page - Mediawiki
-
-
-
49
-
-
27744471080
-
Evaluation of biomedical text-mining systems: Lessons learned from information retrieval
-
Hersh,W. (2005) Evaluation of biomedical text-mining systems: lessons learned from information retrieval. Brief Bioinform., 6, 344-356.
-
(2005)
Brief Bioinform.
, vol.6
, pp. 344-356
-
-
Hersh, W.1
-
50
-
-
54949148775
-
Forty years of SNOMED: A literature review
-
Cornet,R. and de Keizer,N. (2008) Forty years of SNOMED: a literature review. BMC Med. Inform. Decis. Mak., 8 (Suppl. 1), S2.
-
(2008)
BMC Med. Inform. Decis. Mak.
, vol.8
, Issue.SUPPL. 1
-
-
Cornet, R.1
De Keizer, N.2
-
51
-
-
54949127160
-
iRefIndex: A consolidated protein interaction database with provenance
-
Razick,S., Magklaras,G. and Donaldson,I.M. (2008) iRefIndex: a consolidated protein interaction database with provenance. BMC Bioinformatics, 9, 405.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 405
-
-
Razick, S.1
Magklaras, G.2
Donaldson, I.M.3
-
52
-
-
58149181372
-
Michigan molecular interactions r2: From interacting proteins to pathways
-
Tarcea,V.G., Weymouth,T., Ade,A. et al. (2009) Michigan molecular interactions r2: from interacting proteins to pathways. Nucleic Acids Res., 37, D642-D646.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Tarcea, V.G.1
Weymouth, T.2
Ade, A.3
-
53
-
-
0037245913
-
BIND: The Biomolecular Interaction Network Database
-
Bader,G.D., Betel,D. and Hogue,C.W. (2003) BIND: the Biomolecular Interaction Network Database. Nucleic Acids Res., 31, 248-250.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 248-250
-
-
Bader, G.D.1
Betel, D.2
Hogue, C.W.3
-
54
-
-
58149193222
-
Human Protein Reference Database-2009 update
-
Keshava Prasad,T.S., Goel,R., Kandasamy,K. et al. (2009) Human Protein Reference Database-2009 update. Nucleic Acids Res., 37, D767-D772.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Keshava Prasad, T.S.1
Goel, R.2
Kandasamy, K.3
-
55
-
-
84859204939
-
The IntAct molecular interaction database in 2012
-
Kerrien,S., Aranda,B., Breuza,L. et al. (2011) The IntAct molecular interaction database in 2012. Nucleic Acids Res., 40, D841-D846.
-
(2011)
Nucleic Acids Res.
, vol.40
-
-
Kerrien, S.1
Aranda, B.2
Breuza, L.3
|