-
1
-
-
84879382162
-
Using the OntoGene pipeline for the triage task of BioCreative 2012
-
Rinaldi, F., Clematide, S., Hafner, S. et al. (2013) Using the OntoGene pipeline for the triage task of BioCreative 2012. Database. Vol. 2013, Article ID bas053.
-
(2013)
Database
, vol.2013
-
-
Rinaldi, F.1
Clematide, S.2
Hafner, S.3
-
2
-
-
84922516060
-
RLIMS-P: An online textmining tool for literature-based extraction of protein phosphorylation information
-
Torii, M., Li, G., Li, Z. et al. (2014) RLIMS-P: an online textmining tool for literature-based extraction of protein phosphorylation information. Database. Vol. 2014, Article ID bau081.
-
(2014)
Database
, vol.2014
-
-
Torii, M.1
Li, G.2
Li, Z.3
-
3
-
-
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. Vol. 2013, Article ID bas056.
-
(2013)
Database
, vol.2013
-
-
Arighi, C.N.1
Carterette, B.2
Cohen, K.B.3
-
4
-
-
80053393894
-
BioCreative III interactive task: An overview
-
Arighi, C.N., Roberts, P.M., Agarwal, S. et al. (2011) BioCreative III interactive task: an overview.BMC Bioinformatics, 12 (Suppl 8), S4.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. S4
-
-
Arighi, C.N.1
Roberts, P.M.2
Agarwal, S.3
-
5
-
-
84883572716
-
PubTator: A web-based text mining tool for assisting biocuration
-
Wei, C.H., Kao, H.Y. and Lu, Z. (2013) PubTator: a web-based text mining tool for assisting biocuration. Nucleic Acids Res. 41(Web Server issue), W518-W522.
-
(2013)
Nucleic Acids Res.
, vol.41
, Issue.WEB SERVER ISSUE
, pp. W518-W522
-
-
Wei, C.H.1
Kao, H.Y.2
Lu, Z.3
-
6
-
-
84876501269
-
BioCreative-2012 virtual issue
-
Wu, C.H., Arighi, C.N., Cohen, K.B. et al. (2012) BioCreative-2012 virtual issue. Database. Vol. 2012, Article ID bas049.
-
(2012)
Database
, vol.2012
-
-
Wu, C.H.1
Arighi, C.N.2
Cohen, K.B.3
-
7
-
-
85003055274
-
Textmining- assisted biocuration workflows in Argo
-
Rak, R., Batista-Navarro, R.T., Rowley, A. et al. (2014) Textmining- assisted biocuration workflows in Argo. Database. Vol. 2014, Article ID bas049.
-
(2014)
Database
, vol.2014
-
-
Rak, R.1
Batista-Navarro, R.T.2
Rowley, A.3
-
8
-
-
84876468442
-
Text mining in the biocuration workflow: Applications for literature curation at WormBase, dictyBase and TAIR
-
Van Auken, K., Fey, P., Berardini, T.Z. et al. (2012) Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR. Database. Vol. 2012, Article ID bas040.
-
(2012)
Database
, vol.2012
-
-
Van Auken, K.1
Fey, P.2
Berardini, T.Z.3
-
9
-
-
84876219466
-
Collaborative biocuration-text-mining development task for document prioritization for curation
-
Wiegers, T.C., Davis, A.P. and Mattingly, C.J. (2012) Collaborative biocuration-text-mining development task for document prioritization for curation. Database. Vol. 2012, Article ID bas037.
-
(2012)
Database
, vol.2012
-
-
Wiegers, T.C.1
Davis, A.P.2
Mattingly, C.J.3
-
10
-
-
84876495421
-
Prioritizing PubMed articles for the comparative toxicogenomic database utilizing semantic information
-
Kim, S., Kim, W., Wei, C.H. et al. (2012) Prioritizing PubMed articles for the Comparative Toxicogenomic Database utilizing semantic information. Database. Vol. 2012, Article ID bas042.
-
(2012)
Database
, vol.2012
-
-
Kim, S.1
Kim, W.2
Wei, C.H.3
-
11
-
-
84876499465
-
Accelerating literature curation with text-mining tools: A case study of using PubTator to curate genes in PubMed abstracts
-
Wei, C.H., Harris, B.R., Li, D. et al. (2012) Accelerating literature curation with text-mining tools: a case study of using PubTator to curate genes in PubMed abstracts. Database. Vol. 2012, Article ID bas041.
-
(2012)
Database
, vol.2012
-
-
Wei, C.H.1
Harris, B.R.2
Li, D.3
-
12
-
-
84996554576
-
Overview of the gene ontology task at BioCreative IV
-
Mao, Y., Van Auken, K., Li, D. et al. (2014) Overview of the gene ontology task at BioCreative IV. Database. Vol. 2014, Article ID bau086.
-
(2014)
Database
, vol.2014
-
-
Mao, Y.1
Van Auken, K.2
Li, D.3
-
13
-
-
33845442570
-
Evaluation of BioCreAtIvE assessment of task 2
-
Blaschke, C., Leon, E.A., Krallinger, M. et al. (2005) Evaluation of BioCreAtIvE assessment of task 2. BMC Bioinformatics, 6 (Suppl 1), S16.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. S16
-
-
Blaschke, C.1
Leon, E.A.2
Krallinger, M.3
-
14
-
-
84908087913
-
Understanding PubMed user search behavior through log analysis
-
Islamaj Dogan, R., Murray, G.C., Neveol, A. et al. (2009) Understanding PubMed user search behavior through log analysis. Database. Vol. 2009, Article ID bap018.
-
(2009)
Database
, vol.2009
-
-
Islamaj Dogan, R.1
Murray, G.C.2
Neveol, A.3
-
15
-
-
0034641521
-
A taxonomy of generic clinical questions: Classification study
-
Ely, J.W., Osheroff, J.A., Gorman, P.N. et al. (2000) A taxonomy of generic clinical questions: classification study. BMJ, 321, 429-432.
-
(2000)
BMJ
, vol.321
, pp. 429-432
-
-
Ely, J.W.1
Osheroff, J.A.2
Gorman, P.N.3
-
16
-
-
79952765434
-
Semi-automatic semantic annotation of PubMed Queries: A study on quality, efficiency, satisfaction
-
Neveol, A., Dogan, R.I. and Lu, Z. (2011) Semi-automatic semantic annotation of PubMed Queries: a study on quality, efficiency, satisfaction. J. Biomed. Inform., 44, 310-318.
-
(2011)
J. Biomed. Inform.
, vol.44
, pp. 310-318
-
-
Neveol, A.1
Dogan, R.I.2
Lu, Z.3
-
17
-
-
84872558849
-
A New method for computational drug repositioning using drug pairwise similarity
-
IEEE Computing Society, Philadelphia, PA
-
Li, J. and Lu, Z. (2012) A New method for computational drug repositioning using drug pairwise similarity. IEEE International Conference on Bioinformatics and Biomedicine. IEEE Computing Society, Philadelphia, PA, pp. 1-4.
-
(2012)
IEEE International Conference on Bioinformatics and Biomedicine
, pp. 1-4
-
-
Li, J.1
Lu, Z.2
-
18
-
-
84886775358
-
Pathway-based drug repositioning using causal inference
-
Li, J. and Lu, Z. (2013) Pathway-based drug repositioning using causal inference. BMC Bioinformatics, 14 (Suppl 16), S3.
-
(2013)
BMC Bioinformatics
, vol.14
, pp. S3
-
-
Li, J.1
Lu, Z.2
-
19
-
-
84882737650
-
Towards generating a patient's timeline: Extracting temporal relationships from clinical notes
-
Nikfarjam, A., Emadzadeh, E. and Gonzalez, G. (2013) Towards generating a patient's timeline: extracting temporal relationships from clinical notes. J. Biomed. Inform., 46 (Suppl), S40-47.
-
(2013)
J. Biomed. Inform.
, vol.46
, pp. S40-47
-
-
Nikfarjam, A.1
Emadzadeh, E.2
Gonzalez, G.3
-
20
-
-
84858329412
-
Data-driven prediction of drug effects and interactions
-
Tatonetti, N.P., Ye, P.P., Daneshjou, R. et al. (2012) Data-driven prediction of drug effects and interactions. Sci. Transl. Med., 4, 125ra131.
-
(2012)
Sci. Transl. Med.
, vol.4
, pp. 125ra131
-
-
Tatonetti, N.P.1
Ye, P.P.2
Daneshjou, R.3
-
21
-
-
84893433238
-
Understanding the EMR error control practices among gynecologic physicians
-
Fort Worth, Texas
-
Khare, R., An, Y., Wolf, S. et al. (2013) Understanding the EMR error control practices among gynecologic physicians. iConference 2013 iSchools, Fort Worth, Texas, pp. 289-301.
-
(2013)
IConference 2013 ISchools
, pp. 289-301
-
-
Khare, R.1
An, Y.2
Wolf, S.3
-
22
-
-
84872222383
-
Development and evaluation of a crowdsourcing methodology for knowledge base construction: Identifying relationships between clinical problems and medications
-
McCoy, A.B., Wright, A., Laxmisan, A. et al. (2012) Development and evaluation of a crowdsourcing methodology for knowledge base construction: identifying relationships between clinical problems and medications. J. Am.Med. Inform. Assoc., 19, 713-718.
-
(2012)
J. Am.Med. Inform. Assoc.
, vol.19
, pp. 713-718
-
-
McCoy, A.B.1
Wright, A.2
Laxmisan, A.3
-
23
-
-
84964936658
-
ADESSA: A real-time decision support service for delivery of semantically coded adverse drug event data
-
Duke, J.D. and Friedlin, J. (2010) ADESSA: a real-time decision support service for delivery of semantically coded adverse drug event data. AMIA, 2010, 177-181.
-
(2010)
AMIA
, vol.2010
, pp. 177-181
-
-
Duke, J.D.1
Friedlin, J.2
-
24
-
-
84882766694
-
Development and evaluation of an ensemble resource linking medications to their indications
-
Wei, W.Q., Cronin, R.M., Xu, H. et al. (2013) Development and evaluation of an ensemble resource linking medications to their indications. J. Am. Med. Inform. Assoc., 20, 954-961.
-
(2013)
J. Am. Med. Inform. Assoc.
, vol.20
, pp. 954-961
-
-
Wei, W.Q.1
Cronin, R.M.2
Xu, H.3
-
25
-
-
84879902091
-
Extracting drug indication information from structured product labels using natural language processing
-
Fung, K.W., Jao, C.S., Demner-Fushman, D. (2013) Extracting drug indication information from structured product labels using natural language processing. J. Am. Med. Inform. Assoc., 20, 482-488.
-
(2013)
J. Am. Med. Inform. Assoc.
, vol.20
, pp. 482-488
-
-
Fung, K.W.1
Jao, C.S.2
Demner-Fushman, D.3
-
26
-
-
84891804874
-
Toward creating a gold standard of drug indications from FDA drug labels
-
IEEE Xplore, Philadelphia, PA
-
Khare, R., Li, J. and Lu, Z. (2013) Toward Creating a Gold Standard of Drug Indications from FDA Drug Labels. IEEE International Conference on Health Informatics. IEEE Xplore, Philadelphia, PA, pp. 30-35.
-
(2013)
IEEE International Conference on Health Informatics
, pp. 30-35
-
-
Khare, R.1
Li, J.2
Lu, Z.3
-
27
-
-
84919839429
-
LabeledIn: Cataloging labeled indications for human drugs
-
Khare, R., Li, J. and Lu, Z. (2014) LabeledIn: cataloging labeled indications for human drugs. J. Biomed. Inform., 52, 448-456.
-
(2014)
J. Biomed. Inform.
, vol.52
, pp. 448-456
-
-
Khare, R.1
Li, J.2
Lu, Z.3
-
29
-
-
84860846775
-
The 2012 nucleic acids research database issue and the online molecular biology database collection
-
Galperin, M.Y. and Fernandez-Suarez, X.M. (2012) The 2012 Nucleic Acids Research Database Issue and the online Molecular Biology Database Collection. Nucleic Acids Res., 40, D1-8.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. D1-8
-
-
Galperin, M.Y.1
Fernandez-Suarez, X.M.2
-
30
-
-
84880973546
-
Crowdsourcing for bioinformatics
-
Good, B.M. and Su, A.I. (2013) Crowdsourcing for bioinformatics. Bioinformatics, 29, 1925-1933.
-
(2013)
Bioinformatics
, vol.29
, pp. 1925-1933
-
-
Good, B.M.1
Su, A.I.2
-
31
-
-
84873598227
-
Prize-based contests can provide solutions to computational biology problems
-
Lakhani, K.R., Boudreau, K.J., Loh, P.R. et al. (2013) Prize-based contests can provide solutions to computational biology problems. Nat. Biotechnol., 31, 108-111.
-
(2013)
Nat. Biotechnol.
, vol.31
, pp. 108-111
-
-
Lakhani, K.R.1
Boudreau, K.J.2
Loh, P.R.3
-
32
-
-
80053360508
-
Cheap and fast - But is it good? Evaluating non-expert annotations for natural language tasks
-
Honolulu, Hawaii
-
Snow, R., O'Connor, B., Jurafsky, D. et al. (2008) Cheap and Fast - But is it Good? Evaluating Non-Expert Annotations for Natural Language Tasks. Conference on Empirical Methods in Natural Language Processing. Association for Computational Linguistics, Honolulu, Hawaii, pp. 254-263.
-
(2008)
Conference on Empirical Methods in Natural Language Processing. Association for Computational Linguistics
, pp. 254-263
-
-
Snow, R.1
O'Connor, B.2
Jurafsky, D.3
-
33
-
-
84877354135
-
Preliminary experiments with Amazon's mechanical turk for annotating medical named entities
-
Association for Computational Linguistics, Los Angeles, CA
-
Yetisgen-Yildiz, M., Solti, I., Xia, F. et al. (2010) Preliminary experiments with Amazon's mechanical turk for annotating medical named entities. NAACL HLT 2010 Workshop on Creating Speech and Language Data with Amazon's Mechanical Turk. Association for Computational Linguistics, Los Angeles, CA, pp. 180-183.
-
(2010)
NAACL HLT 2010 Workshop on Creating Speech and Language Data with Amazon's Mechanical Turk
, pp. 180-183
-
-
Yetisgen-Yildiz, M.1
Solti, I.2
Xia, F.3
-
34
-
-
77953088193
-
Who are the crowdworkers?: Shifting demographics in amazon mechanical turk
-
ACM, Atlanta, Georgia
-
Ross, J., Irani, I., Silberman, M.S. et al. (2010) Who are the Crowdworkers?: Shifting Demographics in Amazon Mechanical Turk. CHI '10 Extended Abstracts on Human Factors in Computing Systems. ACM, Atlanta, Georgia, pp. 2863-2872.
-
(2010)
CHI '10 Extended Abstracts on Human Factors in Computing Systems
, pp. 2863-2872
-
-
Ross, J.1
Irani, I.2
Silberman, M.S.3
-
35
-
-
84877352180
-
Web 2.0-based crowdsourcing for high-quality gold standard development in clinical natural language processing
-
Zhai, H., Lingren, T., Deleger, L. et al. (2013) Web 2.0-based crowdsourcing for high-quality gold standard development in clinical natural language processing. J. Med. Internet Res., 15, e73.
-
(2013)
J. Med. Internet Res.
, vol.15
, pp. e73
-
-
Zhai, H.1
Lingren, T.2
Deleger, L.3
-
36
-
-
84863914239
-
Validating candidate gene-mutation relations in MEDLINE abstracts via crowdsourcing
-
Burger, J.D., Doughty, E., Bayer, S. et al. (2012) Validating candidate gene-mutation relations in MEDLINE abstracts via crowdsourcing. Data Integration in the Life Science. Lecture Notes in Computer Science, vol. 7348, pp. 83-91.
-
(2012)
Data Integration in the Life Science. Lecture Notes in Computer Science
, vol.7348
, pp. 83-91
-
-
Burger, J.D.1
Doughty, E.2
Bayer, S.3
-
37
-
-
84925545894
-
Hybrid curation of gene-mutation relations combining automated extraction and crowdsourcing
-
Burger, J., Doughty, E.K., Khare, R. et al. (2014) Hybrid curation of gene-mutation relations combining automated extraction and crowdsourcing. Database. Vol. 2014, Article ID bau094.
-
(2014)
Database
, vol.2014
-
-
Burger, J.1
Doughty, E.K.2
Khare, R.3
-
38
-
-
0035752429
-
Effective mapping of biomedical text to the UMLS Metathesaurus: The MetaMap program
-
Aronson, A.R. (2001) Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program. AMIA Annual Symposium Proceedings, pp. 17-21.
-
(2001)
AMIA Annual Symposium Proceedings
, pp. 17-21
-
-
Aronson, A.R.1
-
39
-
-
84863248734
-
Exploiting semantic structure for mapping user-specified form terms to SNOMED CT concepts
-
ACM, Miami, FL
-
Khare, R., An, Y., Li, J. et al. (2012) Exploiting semantic structure for mapping user-specified form terms to SNOMED CT concepts. SIGHIT International Health Informatics Symposium. ACM, Miami, FL, pp. 285-294.
-
(2012)
SIGHIT International Health Informatics Symposium
, pp. 285-294
-
-
Khare, R.1
An, Y.2
Li, J.3
-
40
-
-
84872578457
-
Bridging encounter forms and electronic medical record databases: Annotation, mapping, and integration
-
IEEE Computer Society, Philadelphia, PA
-
An, Y., Khare, R., Hu, X. et al. (2012) Bridging encounter forms and electronic medical record databases: Annotation, mapping, and integration. International Conference on Bioinformatics and Biomedicine (BIBM 2012). IEEE Computer Society, Philadelphia, PA, pp. 1-4.
-
(2012)
International Conference on Bioinformatics and Biomedicine (BIBM 2012)
, pp. 1-4
-
-
An, Y.1
Khare, R.2
Hu, X.3
-
41
-
-
84922032521
-
NCBI at 2013 ShARe/CLEF eHealth shared task: Disorder normalization in clinical notes with DNorm
-
The CLEF Initiative, Valencia - Spain, September 23-26, 2013
-
Leaman, R., Khare, R. and Lu, Z. (2013) NCBI at 2013 ShARe/CLEF eHealth Shared Task: Disorder Normalization in Clinical Notes with DNorm. CLEF 2013 Evaluation Labs and Workshop. The CLEF Initiative, Valencia - Spain, September 23-26, 2013.
-
(2013)
CLEF 2013 Evaluation Labs and Workshop
-
-
Leaman, R.1
Khare, R.2
Lu, Z.3
-
42
-
-
84875575941
-
An improved corpus of disease mentions in PubMed citations
-
Association for Computational Linguistics, Montreal, Canada
-
Dogan, R.I. and Lu, Z. (2012) An improved corpus of disease mentions in PubMed citations. Workshop on Biomedical Natural Language Processing. Association for Computational Linguistics, Montreal, Canada, pp. 91-99.
-
(2012)
Workshop on Biomedical Natural Language Processing
, pp. 91-99
-
-
Dogan, R.I.1
Lu, Z.2
-
43
-
-
55249111767
-
Abbreviation definition identification based on automatic precision estimates
-
Sohn, S., Comeau, D.C., Kim, W. et al. (2008) Abbreviation definition identification based on automatic precision estimates. BMC Bioinformatics, 9, 402.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 402
-
-
Sohn, S.1
Comeau, D.C.2
Kim, W.3
-
44
-
-
39749093168
-
The magical number seven, plus or minus two: Some limits on our capacity for processing information
-
Miller, G.A. (1956) The magical number seven, plus or minus two: some limits on our capacity for processing information. The Psychological Review, 63, 81-97.
-
(1956)
The Psychological Review
, vol.63
, pp. 81-97
-
-
Miller, G.A.1
-
45
-
-
80053280556
-
A taxonomy, dataset, and classifier for automatic noun compound interpretation
-
Uppsala, Sweden
-
Tratz, S. and Hovy, E.H. (2010) A Taxonomy, Dataset, and Classifier for Automatic Noun Compound Interpretation. The 48th Annual Meeting of the Association for Computational Linguistics, Uppsala, Sweden, pp. 678-687.
-
(2010)
The 48th Annual Meeting of the Association for Computational Linguistics
, pp. 678-687
-
-
Tratz, S.1
Hovy, E.H.2
-
46
-
-
77951954464
-
Learning from crowds
-
Raykar, V.C., Yu, S., Zhao, L.H. et al. (2010) Learning from crowds. J. Mach. Learn., 11, 1297-1322.
-
(2010)
J. Mach. Learn.
, vol.11
, pp. 1297-1322
-
-
Raykar, V.C.1
Yu, S.2
Zhao, L.H.3
-
47
-
-
80052774027
-
The gene normalization task in BioCreative III
-
Lu, Z., Kao, H.Y., Wei, C.H. et al. (2011) The gene normalization task in BioCreative III. BMC Bioinformatics, 12 (Suppl 8), S2.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. S2
-
-
Lu, Z.1
Kao, H.Y.2
Wei, C.H.3
-
48
-
-
79958245410
-
Amazon mechanical turk: Gold mine or coal mine?
-
Fort, K., Adda, G. and Cohen, K.B. (2011) Amazon mechanical turk: gold mine or coal mine? Comput. Ling. 37, 413-420.
-
(2011)
Comput. Ling.
, vol.37
, pp. 413-420
-
-
Fort, K.1
Adda, G.2
Cohen, K.B.3
-
49
-
-
84964313855
-
Automatic extraction of drug indications from FDA drug labels
-
American Medical Informatics Association, Washington, DC
-
Khare, R., Wei, C.H. and Lu, Z. (2014) Automatic extraction of drug indications from FDA drug labels. AMIA Annual Symposium. American Medical Informatics Association, Washington, DC, pp. 787-794.
-
(2014)
AMIA Annual Symposium
, pp. 787-794
-
-
Khare, R.1
Wei, C.H.2
Lu, Z.3
-
50
-
-
79958278980
-
Language resources and Amazon Mechanical Turk: Legal, ethical and other issues
-
Malta, 17 May
-
Adda, G. and Mariani, J. (2010) Language resources and Amazon Mechanical Turk: Legal, ethical and other issues. In LISLR2010, "Legal Issues for Sharing Language Resources workshop", LREC2010, Malta, 17 May.
-
(2010)
LISLR2010, "legal Issues for Sharing Language Resources Workshop", LREC2010
-
-
Adda, G.1
Mariani, J.2
-
51
-
-
84890064920
-
DNorm: Disease name normalization with pairwise learning to rank
-
Leaman, R., Islamaj Dogan, R. and Lu, Z. (2013) DNorm: disease name normalization with pairwise learning to rank. Bioinformatics, 29, 2909-2917.
-
(2013)
Bioinformatics
, vol.29
, pp. 2909-2917
-
-
Leaman, R.1
Islamaj Dogan, R.2
Lu, Z.3
|