-
1
-
-
22244459539
-
Text-mining and information-retrieval services for molecular biology
-
1175978 1175978 15998455
-
Krallinger M Valencia A Text-mining and information-retrieval services for molecular biology. Genome Biol 2005, 6:224 1175978 15998455
-
(2005)
Genome Biol
, vol.6
, pp. 224
-
-
Krallinger, M.1
Valencia, A.2
-
2
-
-
17244380380
-
A survey of current work in biomedical text mining
-
15826357
-
Cohen A Hersh W A survey of current work in biomedical text mining. Brief Bioinform 2005, 6:57-71 15826357
-
(2005)
Brief Bioinform
, vol.6
, pp. 57-71
-
-
Cohen, A.1
Hersh, W.2
-
3
-
-
34547579706
-
Web Services at the European Bioinformatics Institute
-
35(Web server) 1933145 17576686
-
Labarga A Valentin F Anderson M Lopez R Web Services at the European Bioinformatics Institute. Nucleic Acids Res 2007, 35(Web server):W6-W11 1933145 17576686
-
(2007)
Nucleic Acids Res
-
-
Labarga, A.1
Valentin, F.2
Anderson, M.3
Lopez, R.4
-
7
-
-
51049098427
-
-
BioCreative Homepage http://biocreative.sourceforge.net/
-
-
-
-
8
-
-
51049107860
-
-
XML-RPC Specification http://www.xmlrpc.com/
-
-
-
-
9
-
-
51049100983
-
-
BioCreative MetaServer http://bcms.bioinfo.cnio.es/
-
-
-
-
10
-
-
51049109143
-
-
BioCreative XML-RPC MetaService http://bcms.bioinfo.cnio.es/xmlrpc/
-
-
-
-
11
-
-
51049084462
-
Evaluation of text mining systems for biology: Overview of the Second BioCreative community challenge
-
Krallinger M Morgan A Smith L Leitner F Tanabe L Wilbur J Hirschman L Valencia A Evaluation of text mining systems for biology: Overview of the Second BioCreative community challenge. Genome Biol 2008, 9(Suppl 2):S1
-
(2008)
Genome Biol
, vol.9
, Issue.SUPPL. 2
-
-
Krallinger, M.1
Morgan, A.2
Smith, L.3
Leitner, F.4
Tanabe, L.5
Wilbur, J.6
Hirschman, L.7
Valencia, A.8
-
12
-
-
51049088874
-
Overview of BioCreative II gene mention recognition
-
Smith L Tanabe LK Johnson nee Ando R Kuo C-J Chung I-F Hsu C-N Lin Y-S Klinger R Friedrich CM Ganchev K Torii M Liu H Haddow B Struble CA Povinelli RJ Vlachos A Baumgartner WA Jr Hunter L Carpenter B Tsai RT-H Dai H-J Liu F Chen Y Sun C Katrenko S Adriaans P Blaschke C Torres R Neves M Nakov P et al. Overview of BioCreative II gene mention recognition. Genome Biology 2008, 9(Suppl 2):S2
-
(2008)
Genome Biology
, vol.9
, Issue.SUPPL. 2
-
-
Smith, L.1
Tanabe, L.K.2
Johnson nee Ando, R.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
Torii, M.11
Liu, H.12
Haddow, B.13
Struble, C.A.14
Povinelli, R.J.15
Vlachos, A.16
Baumgartner Jr., W.A.17
Hunter, L.18
Carpenter, B.19
Tsai, R.T.-H.20
Dai, H.-J.21
Liu, F.22
Chen, Y.23
Sun, C.24
Katrenko, S.25
Adriaans, P.26
Blaschke, C.27
Torres, R.28
Neves, M.29
Nakov, P.30
more..
-
13
-
-
41349103793
-
Overview of BioCreative II gene normalization
-
Morgan AA Lu Z Wang X Cohen AM Fluck J Ruch P Divoli A Fundel K Leaman R Hakenberg J Sun C Liu H-h Torres R Krauthammer M Lau WW Liu H Hsu C-N Schuemie M Cohen KB Hirschman L Overview of BioCreative II gene normalization. Genome Biol 2008, 9(Suppl 2):S3
-
(2008)
Genome Biol
, vol.9
, Issue.SUPPL. 2
-
-
Morgan, A.A.1
Lu, Z.2
Wang, X.3
Cohen, A.M.4
Fluck, J.5
Ruch, P.6
Divoli, A.7
Fundel, K.8
Leaman, R.9
Hakenberg, J.10
Sun, C.11
Liu, H.-H.12
Torres, R.13
Krauthammer, M.14
Lau, W.W.15
Liu, H.16
Hsu, C.-N.17
Schuemie, M.18
Cohen, K.B.19
Hirschman, L.20
more..
-
14
-
-
51049088875
-
Overview of the protein-protein interaction annotation extraction task of BioCreative II
-
Krallinger M Leitner F Rodriguez-Penagos C Valencia A Overview of the protein-protein interaction annotation extraction task of BioCreative II. Genome Biology 2008, 9(Suppl 2):S4
-
(2008)
Genome Biology
, vol.9
, Issue.SUPPL. 2
-
-
Krallinger, M.1
Leitner, F.2
Rodriguez-Penagos, C.3
Valencia, A.4
-
15
-
-
49549095524
-
Gene mention normalization and interaction extraction with context models and sentence motifs
-
Hakenberg J Plake C Royer L Strobelt H Leser U Schroeder M Gene mention normalization and interaction extraction with context models and sentence motifs. Genome Biol 2008, 9(Suppl 2);S14
-
(2008)
Genome Biol
, vol.9
, Issue.SUPPL. 2
-
-
Hakenberg, J.1
Plake, C.2
Royer, L.3
Strobelt, H.4
Leser, U.5
Schroeder, M.6
-
17
-
-
46249124738
-
Rich feature set, unification of bidirectional parsing and dictionary filtering for high F-score gene mention tagging
-
Madrid, Spain. CNIO
-
Kuo CJ Chang YM Huang HS Lin KT Yang BH Lin YS Hsu CN Chung IF Rich feature set, unification of bidirectional parsing and dictionary filtering for high F-score gene mention tagging. Proceedings of the Second BioCreative Challenge Workshop Madrid, Spain. CNIO 2007
-
(2007)
Proceedings of the Second BioCreative Challenge Workshop
-
-
Kuo, C.J.1
Chang, Y.M.2
Huang, H.S.3
Lin, K.T.4
Yang, B.H.5
Lin, Y.S.6
Hsu, C.N.7
Chung, I.F.8
-
18
-
-
51049089250
-
-
Mallet: A machine learning for language toolkit http://mallet.cs.umass.edu
-
-
-
-
19
-
-
33646502601
-
Developing a robust part-of-speech tagger for biomedical text
-
11-13 November 2005 Volos, Greece. Springer
-
Tsuruoka Y Tateishi Y Kim JD Ohta T McNaught J Ananiadou S Tsujii J Developing a robust part-of-speech tagger for biomedical text. Advances in Informatics, 10th Panhellenic Conference on Informatics; 11-13 November 2005 Volos, Greece. Springer 2005, 382-392
-
(2005)
Advances in Informatics, 10th Panhellenic Conference on Informatics
, pp. 382-392
-
-
Tsuruoka, Y.1
Tateishi, Y.2
Kim, J.D.3
Ohta, T.4
McNaught, J.5
Ananiadou, S.6
Tsujii, J.7
-
21
-
-
33947384560
-
NERBio: Using selected word conjunctions, term normalization, and global patterns to improve biomedical named entity recognition
-
1764467 17254295
-
Tsai RTH Sung CL Dai HJ Hung HC Sung TY Hsu WL NERBio: Using selected word conjunctions, term normalization, and global patterns to improve biomedical named entity recognition. BMC Bioinformatics 2006, 7(suppl 5):S11 1764467 17254295
-
(2006)
BMC Bioinformatics
, vol.7
, Issue.SUPPL. 5
-
-
Tsai, R.T.H.1
Sung, C.L.2
Dai, H.J.3
Hung, H.C.4
Sung, T.Y.5
Hsu, W.L.6
-
23
-
-
51049084340
-
-
Sinica Annotation Server - Web Service http://asqa.iis.sinica.edu.tw:8081/XmlRpcServlet
-
-
-
-
24
-
-
38449096246
-
Rule-based human gene normalization in biomedical text with confidence estimation
-
17951839
-
Lau WW Johnson CA Rule-based human gene normalization in biomedical text with confidence estimation. Comput Syst Bioinformatics Conf 2007, 6:371-379 17951839
-
(2007)
Comput Syst Bioinformatics Conf
, vol.6
, pp. 371-379
-
-
Lau, W.W.1
Johnson, C.A.2
-
25
-
-
0000238336
-
A simplex method for function minimization
-
Nelder J Mead R A simplex method for function minimization. Computer J 1965, 7:308-313
-
(1965)
Computer J
, vol.7
, pp. 308-313
-
-
Nelder, J.1
Mead, R.2
-
27
-
-
51049083074
-
AKANE system: Protein-protein interaction pairs in BioCreAtIvE2 challenge, PPI-IPS subtask
-
Madrid, Spain. CNIO
-
Sætre R Yoshida K Yakushiji A Miyao Y Matsubyashi Y Ohta T AKANE system: Protein-protein interaction pairs in BioCreAtIvE2 challenge, PPI-IPS subtask. Proceedings of the Second BioCreative Challenge Workshop Madrid, Spain. CNIO 2007, 209-212
-
(2007)
Proceedings of the Second BioCreative Challenge Workshop
, pp. 209-212
-
-
Sætre, R.1
Yoshida, K.2
Yakushiji, A.3
Miyao, Y.4
Matsubyashi, Y.5
Ohta, T.6
-
28
-
-
51049092224
-
ProtIR prototype: Abstract relevance for protein-protein interaction in BioCreAtIvE2 challenge, PPI-IAS subtask
-
Madrid, Spain. CNIO
-
Chen YH Ramampiaro H Lægreid A Sætre R ProtIR prototype: abstract relevance for protein-protein interaction in BioCreAtIvE2 challenge, PPI-IAS subtask. Proceedings of the Second BioCreative Challenge Workshop Madrid, Spain. CNIO 2007, 179-182
-
(2007)
Proceedings of the Second BioCreative Challenge Workshop
, pp. 179-182
-
-
Chen, Y.H.1
Ramampiaro, H.2
Lægreid, A.3
Sætre, R.4
-
31
-
-
51049089888
-
-
PIE: Protein Interaction Information Extraction http://bi.snu.ac.kr/pie
-
-
-
-
32
-
-
33947313027
-
BioCreAtIvE Task1A: Entity identification with a stochastic tagger
-
1869018 15960838
-
Kinoshita S Cohen KB Ogren PV Hunter L BioCreAtIvE Task1A: Entity identification with a stochastic tagger. BMC Bioinformatics 2005, 6(suppl 1):S4 1869018 15960838
-
(2005)
BMC Bioinformatics
, vol.6
, Issue.SUPPL. 1
-
-
Kinoshita, S.1
Cohen, K.B.2
Ogren, P.V.3
Hunter, L.4
-
33
-
-
51049090818
-
Concept recognition for extracting protein interaction relations from biomedical text
-
Baumgartner WA Jr Lu Z Johnson HL Caporaso JG Paquette J Lindemann A White EK Medvedeva O Cohen KB Hunter L Concept recognition for extracting protein interaction relations from biomedical text. Genome Biology 2008, 9(Suppl 2):S9
-
(2008)
Genome Biology
, vol.9
, Issue.SUPPL. 2
-
-
Baumgartner Jr., W.A.1
Lu, Z.2
Johnson, H.L.3
Caporaso, J.G.4
Paquette, J.5
Lindemann, A.6
White, E.K.7
Medvedeva, O.8
Cohen, K.B.9
Hunter, L.10
-
34
-
-
51049110114
-
Automating curation using a natural language processing pipeline
-
Alex B Grover C Haddow B Kabadjov M Klein E Matthews M Tobin R Wang X Automating curation using a natural language processing pipeline. Genome Biol 2008, 9(Suppl 2):S10
-
(2008)
Genome Biol
, vol.9
, Issue.SUPPL. 2
-
-
Alex, B.1
Grover, C.2
Haddow, B.3
Kabadjov, M.4
Klein, E.5
Matthews, M.6
Tobin, R.7
Wang, X.8
-
36
-
-
84949743169
-
Recognising nested named entities in biomedical text
-
June 2007; Prague, Czech Republic
-
Alex B Haddow B Grover C Recognising nested named entities in biomedical text. Proceedings of BioNLP; June 2007; Prague, Czech Republic 2007, 65-72
-
(2007)
Proceedings of BioNLP
, pp. 65-72
-
-
Alex, B.1
Haddow, B.2
Grover, C.3
-
37
-
-
51049117464
-
Rule-based protein term identification with help from automatic species tagging
-
Mexico City, Mexico
-
Wang X Rule-based protein term identification with help from automatic species tagging. Proceedings of CICLING; Mexico City, Mexico 2007, 288-298
-
(2007)
Proceedings of CICLING
, pp. 288-298
-
-
Wang, X.1
-
38
-
-
84994675619
-
Extracting protein-protein interactions using simple contextual features
-
New York
-
Nielsen LA Extracting protein-protein interactions using simple contextual features. Proceedings of BioNLP; New York 2006, 120-121
-
(2006)
Proceedings of BioNLP
, pp. 120-121
-
-
Nielsen, L.A.1
-
40
-
-
24644514269
-
Data-poor categorization and passage retrieval for gene ontology annotation in Swiss-Prot
-
1869016 15960836
-
Ehrler F Geissbuhler A Jimeno A Ruch P Data-poor categorization and passage retrieval for gene ontology annotation in Swiss-Prot. BMC Bioinformatics 2005, 6(suppl 1):S23 1869016 15960836
-
(2005)
BMC Bioinformatics
, vol.6
, Issue.SUPPL. 1
-
-
Ehrler, F.1
Geissbuhler, A.2
Jimeno, A.3
Ruch, P.4
-
41
-
-
33645107704
-
Automatic assignment of biomedical categories: Toward a generic approach
-
16287934
-
Ruch P Automatic assignment of biomedical categories: Toward a generic approach. Bioinformatics 2006, 22:658-664 16287934
-
(2006)
Bioinformatics
, vol.22
, pp. 658-664
-
-
Ruch, P.1
-
43
-
-
51049124657
-
-
Genia Tagger http://www-tsujii.is.s.u-tokyo.ac.jp/GENIA/tagger/
-
-
-
-
46
-
-
75249088525
-
Extracting interacting protein pairs and evidence sentences by using dependency parsing and machine learning techniques
-
Madrid, Spain. CNIO
-
Erkan G Özgür A Radev DR Extracting interacting protein pairs and evidence sentences by using dependency parsing and machine learning techniques. Proceedings of the Second BioCreative Challenge Workshop Madrid, Spain. CNIO 2007
-
(2007)
Proceedings of the Second BioCreative Challenge Workshop
-
-
Erkan, G.1
Özgür, A.2
Radev, D.R.3
-
47
-
-
8444226720
-
Term identification in the biomedical literature
-
15542023
-
Krauthammer M Nenadic G Term identification in the biomedical literature. J Biomed Inform 2004, 37:5120-526 15542023
-
(2004)
J Biomed Inform
, vol.37
, pp. 512-526
-
-
Krauthammer, M.1
Nenadic, G.2
-
48
-
-
25144520247
-
ABNER: An open source tool for automatically tagging genes, proteins and other entity names in text
-
15860559
-
Settles B ABNER: An open source tool for automatically tagging genes, proteins and other entity names in text. Bioinformatics 2005, 21:3191-3192 15860559
-
(2005)
Bioinformatics
, vol.21
, pp. 3191-3192
-
-
Settles, B.1
-
50
-
-
3042786293
-
A gene network for navigating the literature
-
15226743
-
Hoffmann R Valencia A A gene network for navigating the literature. Nat Genet 2004, 36:664 15226743
-
(2004)
Nat Genet
, vol.36
, pp. 664
-
-
Hoffmann, R.1
Valencia, A.2
-
51
-
-
27544448536
-
Implementing the iHOP concept for navigation of biomedical literature
-
16204114
-
Hoffmann R Valencia A Implementing the iHOP concept for navigation of biomedical literature. Bioinformatics 2005, 21(suppl 2):iI252-22258 16204114
-
(2005)
Bioinformatics
, vol.21
-
-
Hoffmann, R.1
Valencia, A.2
-
53
-
-
0037621355
-
Meta, Meta(N) and cyber servers
-
12724287
-
Valencia A Meta, Meta(N) and cyber servers. Bioinformatics 2003, 19:795 12724287
-
(2003)
Bioinformatics
, vol.19
, pp. 795
-
-
Valencia, A.1
-
54
-
-
51049116120
-
-
eUtils SOAP API http://www.ncbi.nlm.nih.gov/entrez/query/static/ esoap_help.html
-
EUtils SOAP API
-
-
-
56
-
-
51049095603
-
-
Django Web Development Framework http://www.djangoproject.com/
-
-
-
-
57
-
-
51049119345
-
-
jQuery JavaScript and AJAX library http://jquery.com/
-
-
-
-
58
-
-
51049095047
-
-
LingPipe - Java Text Mining Library and Medline Importer http://www.alias-i.com/lingpipe/
-
-
-
-
59
-
-
51049103979
-
-
Python Programming Language http://www.python.org/
-
-
-
-
60
-
-
51049124435
-
-
ITI Life Sciences Homepage http://www.itilifesciences.com
-
-
-
-
61
-
-
51049085268
-
-
Cognia EU Homepage http://www.cognia.com
-
-
-
-
62
-
-
51049087398
-
-
Instituto Nacional de Bioinformática http://www.inab.org
-
-
-
|