-
1
-
-
78651328883
-
The BioGRID Interaction Database: 2011 update
-
Stark C, Breitkreutz BJ, Chatr-Aryamontri A, Boucher L, Oughtred R, Livstone MS, Nixon J, Van Auken K, Wang X, Shi X, Reguly T, Rust JM, Winter A, Dolinski K, Tyers M. The BioGRID Interaction Database: 2011 update. Nucleic Acids Res 2011, 39:698-704.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 698-704
-
-
Stark, C.1
Breitkreutz, B.J.2
Chatr-Aryamontri, A.3
Boucher, L.4
Oughtred, R.5
Livstone, M.S.6
Nixon, J.7
Van Auken, K.8
Wang, X.9
Shi, X.10
Reguly, T.11
Rust, J.M.12
Winter, A.13
Dolinski, K.14
Tyers, M.15
-
2
-
-
75549083295
-
MINT, the molecular interaction database: 2009 update
-
10.1093/nar/gkp983, 2808973, 19897547
-
Ceol A, Chatr Aryamontri A, Licata L, Peluso D, Briganti L, Perfetto L, Castagnoli L, Cesareni G. MINT, the molecular interaction database: 2009 update. Nucleic Acids Res 2010, 38:D532-539. 10.1093/nar/gkp983, 2808973, 19897547.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Ceol, A.1
Chatr Aryamontri, A.2
Licata, L.3
Peluso, D.4
Briganti, L.5
Perfetto, L.6
Castagnoli, L.7
Cesareni, G.8
-
3
-
-
75549087047
-
The IntAct molecular interaction database in 2010
-
10.1093/nar/gkp878, 2808934, 19850723
-
Aranda B, Achuthan P, Alam-Faruque Y, Armean I, Bridge A, Derow C, Feuermann M, Ghanbarian AT, Kerrien S, Khadake J, Kerssemakers J, Leroy C, Menden M, Michaut M, Montecchi-Palazzi L, Neuhauser SN, Orchard S, Perreau V, Roechert B, van Eijk K, Hermjakob H. The IntAct molecular interaction database in 2010. Nucleic Acids Res 2010, 38:D525-531. 10.1093/nar/gkp878, 2808934, 19850723.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Aranda, B.1
Achuthan, P.2
Alam-Faruque, Y.3
Armean, I.4
Bridge, A.5
Derow, C.6
Feuermann, M.7
Ghanbarian, A.T.8
Kerrien, S.9
Khadake, J.10
Kerssemakers, J.11
Leroy, C.12
Menden, M.13
Michaut, M.14
Montecchi-Palazzi, L.15
Neuhauser, S.N.16
Orchard, S.17
Perreau, V.18
Roechert, B.19
van Eijk, K.20
Hermjakob, H.21
more..
-
4
-
-
0742323374
-
The HUPO PSI's molecular interaction format-a community standard for the representation of protein interaction data
-
10.1038/nbt926, 14755292
-
Hermjakob H, Montecchi-Palazzi L, Bader G, Wojcik J, Salwinski L, Ceol A, Moore S, Orchard S, Sarkans U, von Mering C, Roechert B, Poux S, Jung E, Mersch H, Kersey P, Lappe M, Li Y, Zeng R, Rana D, Nikolski M, Husi H, Brun C, Shanker K, Grant SG, Sander C, Bork P, Zhu W, Pandey A, Brazma A, Jacq B, Vidal M, Sherman D, Legrain P, Cesareni G, Xenarios I, Eisenberg D, Steipe B, Hogue C, Apweiler R. The HUPO PSI's molecular interaction format-a community standard for the representation of protein interaction data. Nat Biotechnol 2004, 22:177-183. 10.1038/nbt926, 14755292.
-
(2004)
Nat Biotechnol
, vol.22
, pp. 177-183
-
-
Hermjakob, H.1
Montecchi-Palazzi, L.2
Bader, G.3
Wojcik, J.4
Salwinski, L.5
Ceol, A.6
Moore, S.7
Orchard, S.8
Sarkans, U.9
von Mering, C.10
Roechert, B.11
Poux, S.12
Jung, E.13
Mersch, H.14
Kersey, P.15
Lappe, M.16
Li, Y.17
Zeng, R.18
Rana, D.19
Nikolski, M.20
Husi, H.21
Brun, C.22
Shanker, K.23
Grant, S.G.24
Sander, C.25
Bork, P.26
Zhu, W.27
Pandey, A.28
Brazma, A.29
Jacq, B.30
Vidal, M.31
Sherman, D.32
Legrain, P.33
Cesareni, G.34
Xenarios, I.35
Eisenberg, D.36
Steipe, B.37
Hogue, C.38
Apweiler, R.39
more..
-
5
-
-
77956665000
-
The FEBS Letters/BioCreative II.5 experiment: making biological information accessible
-
10.1038/nbt0910-897, 20829821
-
Leitner F, Chatr-aryamontri A, Mardis SA, Ceol A, Krallinger M, Licata L, Hirschman L, Cesareni G, Valencia A. The FEBS Letters/BioCreative II.5 experiment: making biological information accessible. Nat Biotechnol 2010, 28:897-899. 10.1038/nbt0910-897, 20829821.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 897-899
-
-
Leitner, F.1
Chatr-aryamontri, A.2
Mardis, S.A.3
Ceol, A.4
Krallinger, M.5
Licata, L.6
Hirschman, L.7
Cesareni, G.8
Valencia, A.9
-
6
-
-
34547844156
-
Manual curation is not sufficient for annotation of genomic databases
-
10.1093/bioinformatics/btm229, 2516305, 17646325
-
Baumgartner W, Cohen K, Fox L, Acquaah-Mensah G, Hunter L. Manual curation is not sufficient for annotation of genomic databases. Bioinformatics 2007, 23(13):i41. 10.1093/bioinformatics/btm229, 2516305, 17646325.
-
(2007)
Bioinformatics
, vol.23
, Issue.13
-
-
Baumgartner, W.1
Cohen, K.2
Fox, L.3
Acquaah-Mensah, G.4
Hunter, L.5
-
7
-
-
0035755823
-
The potential use of SUISEKI as a protein interaction discovery tool
-
Blaschke C, Valencia A. The potential use of SUISEKI as a protein interaction discovery tool. Genome Informatics Series 2001, 123-134.
-
(2001)
Genome Informatics Series
, pp. 123-134
-
-
Blaschke, C.1
Valencia, A.2
-
8
-
-
0035002541
-
Mining literature for protein-protein interactions
-
10.1093/bioinformatics/17.4.359, 11301305
-
Marcotte E, Xenarios I, Eisenberg D. Mining literature for protein-protein interactions. Bioinformatics 2001, 17(4):359. 10.1093/bioinformatics/17.4.359, 11301305.
-
(2001)
Bioinformatics
, vol.17
, Issue.4
, pp. 359
-
-
Marcotte, E.1
Xenarios, I.2
Eisenberg, D.3
-
9
-
-
0035104866
-
Automated extraction of information on protein-protein interactions from the biological literature
-
10.1093/bioinformatics/17.2.155, 11238071
-
Ono T, Hishigaki H, Tanigami A, Takagi T. Automated extraction of information on protein-protein interactions from the biological literature. Bioinformatics 2001, 17(2):155. 10.1093/bioinformatics/17.2.155, 11238071.
-
(2001)
Bioinformatics
, vol.17
, Issue.2
, pp. 155
-
-
Ono, T.1
Hishigaki, H.2
Tanigami, A.3
Takagi, T.4
-
10
-
-
0344861886
-
Protein interaction: same network, different hubs
-
10.1016/j.tig.2003.10.011, 14642746
-
Hoffmann R, Valencia A. Protein interaction: same network, different hubs. Trends in Genetics 2003, 19(12):681-683. 10.1016/j.tig.2003.10.011, 14642746.
-
(2003)
Trends in Genetics
, vol.19
, Issue.12
, pp. 681-683
-
-
Hoffmann, R.1
Valencia, A.2
-
11
-
-
51049105083
-
Ontogene in biocreative ii
-
10.1186/gb-2008-9-s2-s13, 2559984, 18834491
-
Rinaldi F, Kappeler T, Kaljurand K, Schneider G, Klenner M, Clematide S, Hess M, Von Allmen J, Parisot P, Romacker M, et al. Ontogene in biocreative ii. Genome Biology 2008, 9(Suppl 2):S13. 10.1186/gb-2008-9-s2-s13, 2559984, 18834491.
-
(2008)
Genome Biology
, vol.9
, Issue.SUPPL. 2
-
-
Rinaldi, F.1
Kappeler, T.2
Kaljurand, K.3
Schneider, G.4
Klenner, M.5
Clematide, S.6
Hess, M.7
Von Allmen, J.8
Parisot, P.9
Romacker, M.10
-
12
-
-
66349121774
-
Bayesian inference of protein-protein interactions from biological literature
-
10.1093/bioinformatics/btp245, 2732911, 19369495
-
Chowdhary R, Zhang J, Liu J. Bayesian inference of protein-protein interactions from biological literature. Bioinformatics 2009, 25(12):1536. 10.1093/bioinformatics/btp245, 2732911, 19369495.
-
(2009)
Bioinformatics
, vol.25
, Issue.12
, pp. 1536
-
-
Chowdhary, R.1
Zhang, J.2
Liu, J.3
-
13
-
-
75249101080
-
Evaluation of linguistic features useful in extraction of interactions from PubMed; Application to annotating known, high-throughput and predicted interactions in I 2 D
-
10.1093/bioinformatics/btp602, 2796811, 19850753
-
Niu Y, Otasek D, Jurisica I. Evaluation of linguistic features useful in extraction of interactions from PubMed; Application to annotating known, high-throughput and predicted interactions in I 2 D. Bioinformatics 2010, 26:111. 10.1093/bioinformatics/btp602, 2796811, 19850753.
-
(2010)
Bioinformatics
, vol.26
, pp. 111
-
-
Niu, Y.1
Otasek, D.2
Jurisica, I.3
-
14
-
-
51049088875
-
Overview of the protein-protein interaction annotation extraction task of BioCreative II
-
10.1186/gb-2008-9-s2-s4, 2559988, 18834495
-
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. 10.1186/gb-2008-9-s2-s4, 2559988, 18834495.
-
(2008)
Genome Biology
, vol.9
, Issue.SUPPL. 2
-
-
Krallinger, M.1
Leitner, F.2
Rodriguez-Penagos, C.3
Valencia, A.4
-
15
-
-
77955441742
-
An Overview of BioCreative II.5
-
Leitner F, Mardis SA, Krallinger M, Cesareni G, Hirschman LA, Valencia A. An Overview of BioCreative II.5. IEEE/ACM Trans Comput Biol Bioinform 2010, 7:385-399.
-
(2010)
IEEE/ACM Trans Comput Biol Bioinform
, vol.7
, pp. 385-399
-
-
Leitner, F.1
Mardis, S.A.2
Krallinger, M.3
Cesareni, G.4
Hirschman, L.A.5
Valencia, A.6
-
16
-
-
80053417815
-
A Framework for BioCuration Workflows (part II)
-
Krallinger M. A Framework for BioCuration Workflows (part II). Nature Precedings 2009,
-
(2009)
Nature Precedings
-
-
Krallinger, M.1
-
17
-
-
63849195206
-
Creating reference datasets for systems biology applications using text mining
-
10.1111/j.1749-6632.2008.03750.x, 19348628
-
Krallinger M, Rojas A, Valencia A. Creating reference datasets for systems biology applications using text mining. Annals of the New York Academy of Sciences 2009, 1158:14-28. 10.1111/j.1749-6632.2008.03750.x, 19348628.
-
(2009)
Annals of the New York Academy of Sciences
, vol.1158
, pp. 14-28
-
-
Krallinger, M.1
Rojas, A.2
Valencia, A.3
-
18
-
-
2942549190
-
PreBIND and Textomy-mining the biomedical literature for protein-protein interactions using a support vector machine
-
10.1186/1471-2105-4-11, 153503, 12689350
-
Donaldson I, Martin J, de Bruijn B, Wolting C, Lay V, Tuekam B, Zhang S, Baskin B, Bader GD, Michalickova K, Pawson T, Hogue CW. PreBIND and Textomy-mining the biomedical literature for protein-protein interactions using a support vector machine. BMC Bioinformatics 2003, 4:11. 10.1186/1471-2105-4-11, 153503, 12689350.
-
(2003)
BMC Bioinformatics
, vol.4
, pp. 11
-
-
Donaldson, I.1
Martin, J.2
de Bruijn, B.3
Wolting, C.4
Lay, V.5
Tuekam, B.6
Zhang, S.7
Baskin, B.8
Bader, G.D.9
Michalickova, K.10
Pawson, T.11
Hogue, C.W.12
-
19
-
-
14844329372
-
Ranking the whole MEDLINE database according to a large training set using text indexing
-
10.1186/1471-2105-6-75, 1274266, 15790421
-
Suomela BP, Andrade MA. Ranking the whole MEDLINE database according to a large training set using text indexing. BMC Bioinformatics 2005, 6:75. 10.1186/1471-2105-6-75, 1274266, 15790421.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 75
-
-
Suomela, B.P.1
Andrade, M.A.2
-
20
-
-
34548493473
-
Automating document classification for the Immune Epitope Database
-
10.1186/1471-2105-8-269, 1965490, 17655769
-
Wang P, Morgan AA, Zhang Q, Sette A, Peters B. Automating document classification for the Immune Epitope Database. BMC Bioinformatics 2007, 8:269. 10.1186/1471-2105-8-269, 1965490, 17655769.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 269
-
-
Wang, P.1
Morgan, A.A.2
Zhang, Q.3
Sette, A.4
Peters, B.5
-
21
-
-
40549145521
-
MScanner: a classifier for retrieving Medline citations
-
10.1186/1471-2105-9-108, 2263023, 18284683
-
Poulter GL, Rubin DL, Altman RB, Seoighe C. MScanner: a classifier for retrieving Medline citations. BMC Bioinformatics 2008, 9:108. 10.1186/1471-2105-9-108, 2263023, 18284683.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 108
-
-
Poulter, G.L.1
Rubin, D.L.2
Altman, R.B.3
Seoighe, C.4
-
22
-
-
34748876540
-
An effective general purpose approach for automated biomedical document classification
-
Cohen AM. An effective general purpose approach for automated biomedical document classification. AMIA Annu Symp Proc 2006, 161-165.
-
(2006)
AMIA Annu Symp Proc
, pp. 161-165
-
-
Cohen, A.M.1
-
23
-
-
84908088795
-
Integrating text mining into the MGI biocuration work flow
-
Dowell KG, McAndrews-Hill MS, Hill DP, Drabkin HJ, Blake JA. Integrating text mining into the MGI biocuration work flow. Database (Oxford) 2009, 2009:bap019.
-
(2009)
Database (Oxford)
, vol.2009
-
-
Dowell, K.G.1
McAndrews-Hill, M.S.2
Hill, D.P.3
Drabkin, H.J.4
Blake, J.A.5
-
25
-
-
56149108665
-
A comparative analysis of retrieval features used in the TREC 2006 Genomics Track passage retrieval task
-
Rekapalli HK, Cohen AM, Hersh WR. A comparative analysis of retrieval features used in the TREC 2006 Genomics Track passage retrieval task. AMIA Annu Symp Proc 2007, 620-624.
-
(2007)
AMIA Annu Symp Proc
, pp. 620-624
-
-
Rekapalli, H.K.1
Cohen, A.M.2
Hersh, W.R.3
-
27
-
-
33750289197
-
The TREC 2004 genomics track categorization task: classifying full text biomedical documents
-
10.1186/1747-5333-1-4, 1440303, 16722582
-
Cohen A, Hersh W. The TREC 2004 genomics track categorization task: classifying full text biomedical documents. Journal of Biomedical Discovery and Collaboration 2006, 1:4. 10.1186/1747-5333-1-4, 1440303, 16722582.
-
(2006)
Journal of Biomedical Discovery and Collaboration
, vol.1
, pp. 4
-
-
Cohen, A.1
Hersh, W.2
-
29
-
-
15944393188
-
The use of common ontologies and controlled vocabularies to enable data exchange and deposition for complex proteomic experiments
-
Orchard S, Montecchi-Palazzi L, Hermjakob H, Apweiler R. The use of common ontologies and controlled vocabularies to enable data exchange and deposition for complex proteomic experiments. Pac Symp Biocomput 2005, 186-196.
-
(2005)
Pac Symp Biocomput
, pp. 186-196
-
-
Orchard, S.1
Montecchi-Palazzi, L.2
Hermjakob, H.3
Apweiler, R.4
-
30
-
-
84984996500
-
The gene ontology project in 2008
-
2238979, 17984083
-
Harris M, Deegan J, Lomax J, Ashburner M, Tweedie S, Carbon S, Lewis S, Mungall C, Day-Richter J, Eilbeck K, et al. The gene ontology project in 2008. Nucleic Acids Res 2008, 36:D440-D444. 2238979, 17984083.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Harris, M.1
Deegan, J.2
Lomax, J.3
Ashburner, M.4
Tweedie, S.5
Carbon, S.6
Lewis, S.7
Mungall, C.8
Day-Richter, J.9
Eilbeck, K.10
-
31
-
-
51049101706
-
MINT and IntAct contribute to the Second BioCreative challenge: serving the text-mining community with high quality molecular interaction data
-
10.1186/gb-2008-9-s2-s5, 2559989, 18834496
-
Chatr-aryamontri A, Kerrien S, Khadake J, Orchard S, Ceol A, Licata L, Castagnoli L, Costa S, Derow C, Huntley R, Aranda B, Leroy C, Thorneycroft D, Apweiler R, Cesareni G, Hermjakob H. MINT and IntAct contribute to the Second BioCreative challenge: serving the text-mining community with high quality molecular interaction data. Genome Biol 2008, 9(Suppl 2):S5. 10.1186/gb-2008-9-s2-s5, 2559989, 18834496.
-
(2008)
Genome Biol
, vol.9
, Issue.SUPPL. 2
-
-
Chatr-aryamontri, A.1
Kerrien, S.2
Khadake, J.3
Orchard, S.4
Ceol, A.5
Licata, L.6
Castagnoli, L.7
Costa, S.8
Derow, C.9
Huntley, R.10
Aranda, B.11
Leroy, C.12
Thorneycroft, D.13
Apweiler, R.14
Cesareni, G.15
Hermjakob, H.16
-
33
-
-
60849106648
-
Extract interaction detection methods from the biological literature
-
10.1186/1471-2105-10-S1-S55, 2648772, 19208158
-
Wang H, Huang M, Zhu X. Extract interaction detection methods from the biological literature. BMC Bioinformatics 2009, 10(Suppl 1):S55. 10.1186/1471-2105-10-S1-S55, 2648772, 19208158.
-
(2009)
BMC Bioinformatics
, vol.10
, Issue.SUPPL. 1
-
-
Wang, H.1
Huang, M.2
Zhu, X.3
-
34
-
-
51049113105
-
GeneTeam site report for BioCreative II: Customizing a simple toolkit for text mining in molecular biology
-
Ehrler F, Gobeill J, Tbahriti I, Ruch P. GeneTeam site report for BioCreative II: Customizing a simple toolkit for text mining in molecular biology. Proc of the Second BioCreative Challenge Evaluation Workshop: Madrid, Spain 2007, 199-207.
-
(2007)
Proc of the Second BioCreative Challenge Evaluation Workshop: Madrid, Spain
, pp. 199-207
-
-
Ehrler, F.1
Gobeill, J.2
Tbahriti, I.3
Ruch, P.4
-
35
-
-
51049105083
-
OntoGene in BioCreative II
-
10.1186/gb-2008-9-s2-s13, 2559984, 18834491
-
Rinaldi F, Kappeler T, Kaljurand K, Schneider G, Klenner M, Clematide S, Hess M, von Allmen JM, Parisot P, Romacker M, Vachon T. OntoGene in BioCreative II. Genome Biol 2008, 9(Suppl 2):S13. 10.1186/gb-2008-9-s2-s13, 2559984, 18834491.
-
(2008)
Genome Biol
, vol.9
, Issue.SUPPL. 2
-
-
Rinaldi, F.1
Kappeler, T.2
Kaljurand, K.3
Schneider, G.4
Klenner, M.5
Clematide, S.6
Hess, M.7
von Allmen, J.M.8
Parisot, P.9
Romacker, M.10
Vachon, T.11
-
36
-
-
84969841801
-
The PPI affix dictionary (PPIAD) and BioMethod Lexicon: importance of affixes and tags for recognition of entity mentions and experimental protein interactions
-
Krallinger M, Tendulkar A, Leitner F, Chatr-aryamontri A, Valencia A. The PPI affix dictionary (PPIAD) and BioMethod Lexicon: importance of affixes and tags for recognition of entity mentions and experimental protein interactions. BMC Bioinformatics 2010, 11(Suppl 5):O1.
-
(2010)
BMC Bioinformatics
, vol.11
, Issue.SUPPL. 5
-
-
Krallinger, M.1
Tendulkar, A.2
Leitner, F.3
Chatr-aryamontri, A.4
Valencia, A.5
-
37
-
-
84888274808
-
MyMiner system description
-
Salgado D, Krallinger M, Depaule M, Drula E, Tendulkar A. MyMiner system description. Proceedings of the Third BioCreative Challenge Evaluation Workshop 2010, 157-158.
-
(2010)
Proceedings of the Third BioCreative Challenge Evaluation Workshop
, pp. 157-158
-
-
Salgado, D.1
Krallinger, M.2
Depaule, M.3
Drula, E.4
Tendulkar, A.5
-
38
-
-
84950618101
-
Constructing confidence sets using rank statistics
-
Bauer D. Constructing confidence sets using rank statistics. Journal of the American Statistical Association 1972, 67(339):687-690.
-
(1972)
Journal of the American Statistical Association
, vol.67
, Issue.339
, pp. 687-690
-
-
Bauer, D.1
-
39
-
-
0003801421
-
Nonparametric statistical methods
-
Hollander M, Wolfe D, Wolfe D. Nonparametric statistical methods. 1973, 68-75.
-
(1973)
, pp. 68-75
-
-
Hollander, M.1
Wolfe, D.2
Wolfe, D.3
-
40
-
-
46249122042
-
Introducing meta-services for biomedical information extraction
-
10.1186/gb-2008-9-s2-s6, 2559990, 18834497
-
Leitner F, Krallinger M, Rodriguez-Penagos C, Hakenberg J, Plake C, Kuo C, Hsu C, Tsai R, Hung H, Lau W, et al. Introducing meta-services for biomedical information extraction. Genome Biology 2008, 9(Suppl 2):S6. 10.1186/gb-2008-9-s2-s6, 2559990, 18834497.
-
(2008)
Genome Biology
, vol.9
, Issue.SUPPL. 2
-
-
Leitner, F.1
Krallinger, M.2
Rodriguez-Penagos, C.3
Hakenberg, J.4
Plake, C.5
Kuo, C.6
Hsu, C.7
Tsai, R.8
Hung, H.9
Lau, W.10
-
41
-
-
77955450675
-
OntoGene in BioCreative II. 5
-
Rinaldi F, Schneider G, Kaljurand K, Clematide S, Vachon T, Romacker M. OntoGene in BioCreative II. 5. IEEE IEEE/ACM Transactions on Computational Biology and Bioinformatics 2010, 7(3):472-480.
-
(2010)
IEEE IEEE/ACM Transactions on Computational Biology and Bioinformatics
, vol.7
, Issue.3
, pp. 472-480
-
-
Rinaldi, F.1
Schneider, G.2
Kaljurand, K.3
Clematide, S.4
Vachon, T.5
Romacker, M.6
-
42
-
-
84874227823
-
Towards Automatic Detection of Experimental Methods from Biomedical Literature
-
Kappeler T, Clematide S, Kaljurand K, Schneider G, Rinaldi F. Towards Automatic Detection of Experimental Methods from Biomedical Literature. Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008) 2008,
-
(2008)
Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008)
-
-
Kappeler, T.1
Clematide, S.2
Kaljurand, K.3
Schneider, G.4
Rinaldi, F.5
-
44
-
-
84888277767
-
The Information Retrieval Group University of Glasgow: Stop Words
-
The Information Retrieval Group University of Glasgow: Stop Words. , http://ir.dcs.gla.ac.uk/resources/linguistic\_utils/stop\_words
-
-
-
-
45
-
-
84885651014
-
Snowball
-
Snowball. , http://snowball.tartarus.org
-
-
-
-
46
-
-
84885683350
-
Proteomics Standards Initiative - Molecular Interaction ontology
-
Proteomics Standards Initiative - Molecular Interaction ontology. , http://psidev.sourceforge.net/mi/rel25/data/psi-mi25.obo
-
-
-
-
47
-
-
84869638704
-
National Library of Medicine: Unified Medical Language System (UMLS) Knowledge Sources, revision 2009AA. Bethesda, Maryland, USA 2009
-
National Library of Medicine: Unified Medical Language System (UMLS) Knowledge Sources, revision 2009AA. Bethesda, Maryland, USA 2009. , http://www.nlm.nih.gov/research/umls
-
-
-
-
48
-
-
1542370010
-
Mallet: A machine learning for language toolkit
-
McCallum A. Mallet: A machine learning for language toolkit. 2002, http://mallet.cs.umass.edu
-
(2002)
-
-
McCallum, A.1
-
52
-
-
84874285402
-
Biolexicon: A lexical resource for the biology domain
-
Sasaki Y, Montemagni S, Pezik P, Rebholz-Schuhmann D, McNaught J, Ananiadou S. Biolexicon: A lexical resource for the biology domain. Proc. of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008) 2008, 3:109-116., http://www.ebi.ac.uk/Rebholz-srv/BioLexicon/biolexicon.html
-
(2008)
Proc. of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008)
, vol.3
, pp. 109-116
-
-
Sasaki, Y.1
Montemagni, S.2
Pezik, P.3
Rebholz-Schuhmann, D.4
McNaught, J.5
Ananiadou, S.6
-
53
-
-
84855341000
-
Apache Lucene
-
Apache Lucene. , http://lucene.apache.org
-
-
-
-
57
-
-
80053411166
-
Classifying protein-protein interaction articles using word and syntactic features
-
Kim S, Wilbur WJ. Classifying protein-protein interaction articles using word and syntactic features. BMC Bioinformatics 2011,
-
(2011)
BMC Bioinformatics
-
-
Kim, S.1
Wilbur, W.J.2
-
58
-
-
51049089776
-
Uncovering protein interaction in abstracts and text using a novel linear model and word proximity networks
-
10.1186/gb-2008-9-s2-s11, 2559982, 18834489
-
Abi-Haidar A, Kaur J, Maguitman A, Radivojac P, Rechtsteiner A, Verspoor K, Wang Z, Rocha L. Uncovering protein interaction in abstracts and text using a novel linear model and word proximity networks. Genome biology 2008, 9(Suppl 2):S11. 10.1186/gb-2008-9-s2-s11, 2559982, 18834489.
-
(2008)
Genome biology
, vol.9
, Issue.SUPPL. 2
-
-
Abi-Haidar, A.1
Kaur, J.2
Maguitman, A.3
Radivojac, P.4
Rechtsteiner, A.5
Verspoor, K.6
Wang, Z.7
Rocha, L.8
-
59
-
-
77955471310
-
Classi_cation of protein-protein interaction full-text documents using text and citation network features
-
Kolchinsky A, Abi-Haidar A, Kaur J, Hamed A, Rocha L. Classi_cation of protein-protein interaction full-text documents using text and citation network features. IEEE IEEE/ACM Transactions on Computational Biology and Bioinformatics 2010,
-
(2010)
IEEE IEEE/ACM Transactions on Computational Biology and Bioinformatics
-
-
Kolchinsky, A.1
Abi-Haidar, A.2
Kaur, J.3
Hamed, A.4
Rocha, L.5
-
60
-
-
25144520247
-
ABNER: an open source tool for automatically tagging genes, proteins and other entity names in text
-
10.1093/bioinformatics/bti475, 15860559
-
Settles B. ABNER: an open source tool for automatically tagging genes, proteins and other entity names in text. Bioinformatics 2005, 21(14):3191. 10.1093/bioinformatics/bti475, 15860559., http://pages.cs.wisc.edu/~bsettles/abner/
-
(2005)
Bioinformatics
, vol.21
, Issue.14
, pp. 3191
-
-
Settles, B.1
-
61
-
-
84888284101
-
Extensive Use of NER tools in Article Classification and a Statistical Approach for Method Interaction Extraction in the Protein-Protein Interaction Literature
-
Lourenco A, Conover M, Wong A, Pan F, Abi-Haidar A, Nematzadeh A, Shatkay H, Rocha L. Extensive Use of NER tools in Article Classification and a Statistical Approach for Method Interaction Extraction in the Protein-Protein Interaction Literature. BMC Bioinformatics 2011,
-
(2011)
BMC Bioinformatics
-
-
Lourenco, A.1
Conover, M.2
Wong, A.3
Pan, F.4
Abi-Haidar, A.5
Nematzadeh, A.6
Shatkay, H.7
Rocha, L.8
-
62
-
-
51749123368
-
Multi-dimensional classification of biomedical text: Toward automated, practical provision of high-utility text to diverse users
-
10.1093/bioinformatics/btn381, 2530883, 18718948
-
Shatkay H, Pan F, Rzhetsky A, Wilbur W. Multi-dimensional classification of biomedical text: Toward automated, practical provision of high-utility text to diverse users. Bioinformatics 2008, 24(18):2086. 10.1093/bioinformatics/btn381, 2530883, 18718948.
-
(2008)
Bioinformatics
, vol.24
, Issue.18
, pp. 2086
-
-
Shatkay, H.1
Pan, F.2
Rzhetsky, A.3
Wilbur, W.4
-
63
-
-
84888274880
-
Yona S. CPAN module, Lingua-EN-Sentence
-
Yona S. CPAN module, Lingua-EN-Sentence. , http://search.cpan.org/~shlomoy/Lingua-EN-Sentence-0.25/lib/Lingua/EN/Sentence.pm
-
-
-
-
64
-
-
76749092270
-
The WEKA data mining software: An update
-
Hall M, Frank E, Holmes G, Pfahringer B, Reutemann P, Witten I. The WEKA data mining software: An update. ACM SIGKDD Explorations Newsletter 2009, 11:10-18., http://www.cs.waikato.ac.nz/ml/weka/
-
(2009)
ACM SIGKDD Explorations Newsletter
, vol.11
, pp. 10-18
-
-
Hall, M.1
Frank, E.2
Holmes, G.3
Pfahringer, B.4
Reutemann, P.5
Witten, I.6
-
65
-
-
84888278024
-
KLEIO
-
KLEIO. , http://www.nactem.ac.uk/software/kleio
-
-
-
-
66
-
-
84888285645
-
PM.A.C
-
PM.A.C. , http://www.cs.tufts.edu/~noto/pmac
-
-
-
-
67
-
-
58149202169
-
The Transporter Classification Database: recent advances
-
Saier M, Yen M, Noto K, Tamang D, Elkan C. The Transporter Classification Database: recent advances. Nucleic Acids Research 2009, (37 Database):D274.
-
(2009)
Nucleic Acids Research
, Issue.37 DATABASE
-
-
Saier, M.1
Yen, M.2
Noto, K.3
Tamang, D.4
Elkan, C.5
-
69
-
-
84888283348
-
Identifying Relevant Data for a Biological Database: Handcrafted Rules Versus Machine Learning
-
Sehgal A, Das S, Noto K, Saier M, Elkan C. Identifying Relevant Data for a Biological Database: Handcrafted Rules Versus Machine Learning. Computational Biology and Bioinformatics, IEEE/ACM Transactions on (99):1.
-
Computational Biology and Bioinformatics, IEEE/ACM Transactions on
, Issue.99
, pp. 1
-
-
Sehgal, A.1
Das, S.2
Noto, K.3
Saier, M.4
Elkan, C.5
-
70
-
-
38549166666
-
PubMed related articles: a probabilistic topic-based model for content similarity
-
10.1186/1471-2105-8-423, 2212667, 17971238
-
Lin J, Wilbur W. PubMed related articles: a probabilistic topic-based model for content similarity. BMC bioinformatics 2007, 8:423. 10.1186/1471-2105-8-423, 2212667, 17971238.
-
(2007)
BMC bioinformatics
, vol.8
, pp. 423
-
-
Lin, J.1
Wilbur, W.2
-
71
-
-
34547987951
-
Learning to rank: from pairwise approach to listwise approach
-
Cao Z, Qin T, Liu T, Tsai M, Li H. Learning to rank: from pairwise approach to listwise approach. Proceedings of the 24th international conference on Machine learning, ACM 2007, 129-136.
-
(2007)
Proceedings of the 24th international conference on Machine learning, ACM
, pp. 129-136
-
-
Cao, Z.1
Qin, T.2
Liu, T.3
Tsai, M.4
Li, H.5
-
72
-
-
67849119585
-
MedlineRanker: flexible ranking of biomedical literature
-
Fontaine J, Barbosa-Silva A, Schaefer M, Huska M, Muro E, Andrade-Navarro M. MedlineRanker: flexible ranking of biomedical literature. Nucleic Acids Research 2009, (37 Web Server):W141.
-
(2009)
Nucleic Acids Research
, Issue.37 WEB SERVER
-
-
Fontaine, J.1
Barbosa-Silva, A.2
Schaefer, M.3
Huska, M.4
Muro, E.5
Andrade-Navarro, M.6
-
73
-
-
80052839148
-
The ineffectiveness of within-document term frequency in text classification
-
10.1007/s10791-008-9069-5, 2744136, 19802376
-
Wilbur W, Kim W. The ineffectiveness of within-document term frequency in text classification. Information retrieval 2009, 12(5):509-525. 10.1007/s10791-008-9069-5, 2744136, 19802376.
-
(2009)
Information retrieval
, vol.12
, Issue.5
, pp. 509-525
-
-
Wilbur, W.1
Kim, W.2
-
74
-
-
33947359082
-
BioCreAtIvE task 1A: gene mention finding evaluation
-
10.1186/1471-2105-6-S1-S2, 1866388, 16351746
-
Yeh A, Morgan A, Colosimo M, Hirschman L. BioCreAtIvE task 1A: gene mention finding evaluation. BMC bioinformatics 2005, 6(Suppl 1):S2. 10.1186/1471-2105-6-S1-S2, 1866388, 16351746.
-
(2005)
BMC bioinformatics
, vol.6
, Issue.SUPPL. 1
-
-
Yeh, A.1
Morgan, A.2
Colosimo, M.3
Hirschman, L.4
-
75
-
-
84888283373
-
ODIN system
-
ODIN system. , http://www.ontogene.org
-
-
-
-
76
-
-
84888283300
-
Bc3imt69
-
bc3imt69. , http://diego.asu.edu/downloads/bc3imt
-
-
-
-
77
-
-
84888280982
-
PIE
-
PIE. , http://www.ncbi.nlm.nih.gov/CBBresearch/Wilbur/IRET/PIE/
-
-
-
-
78
-
-
84888279697
-
IIT Madras ACT
-
IIT Madras ACT. , http://www.cse.iitm.ac.in/\~{}ashish/research/ACT
-
-
-
-
79
-
-
84888279633
-
IIT Madras IMT
-
IIT Madras IMT. , http://www.cse.iitm.ac.in/\~{}ashish/research/IMT
-
-
-
-
80
-
-
84888277725
-
Simple Classifier system used by team 89 for ACT
-
Simple Classifier system used by team 89 for ACT. , http://sourceforge.net/p/simpleclassify/home/
-
-
-
-
81
-
-
84888282350
-
OntoNorm system used by team 89 for IMT
-
OntoNorm system used by team 89 for IMT. , http://sourceforge.net/p/ontonorm/home/
-
-
-
-
82
-
-
84888276053
-
MedlineRanker
-
MedlineRanker. , http://cbdm.mdc-berlin.de/tools/medlineranker
-
-
-
-
83
-
-
84888275157
-
SVM software for optimizing multivariate performance measures
-
SVM software for optimizing multivariate performance measures. , http://www.cs.cornell.edu/People/tj/svm_light/svm_perf.html
-
-
-
-
84
-
-
84888280189
-
LIBSVM
-
LIBSVM. , http://www.csie.ntu.edu.tw/~cjlin/libsvm
-
-
-
-
85
-
-
84875379930
-
MATLAB
-
MATLAB. , http://www.mathworks.com
-
-
-
-
86
-
-
84888285269
-
LIBLINEAR
-
LIBLINEAR. , http://www.csie.ntu.edu.tw/~cjlin/liblinear/
-
-
-
-
87
-
-
84888276689
-
MEGA Model Optimization Package
-
MEGA Model Optimization Package. , http://www.cs.utah.edu/~hal/megam
-
-
-
-
88
-
-
84888274967
-
TreeTagger
-
TreeTagger. , http://www.ims.uni-stuttgart.de/projekte/corplex/TreeTagger
-
-
-
-
89
-
-
84885651014
-
Snowball
-
Snowball. , http://snowball.tartarus.org
-
-
-
-
90
-
-
84888274599
-
NooJ
-
NooJ. , http://www.nooj4nlp.net/pages/nooj.html
-
-
-
-
91
-
-
84888284642
-
LingPipe
-
LingPipe. , http://alias-i.com/lingpipe/
-
-
-
-
92
-
-
84888278942
-
MeSH
-
MeSH. , http://www.ncbi.nlm.nih.gov/mesh
-
-
-
-
93
-
-
84888284743
-
ChEBI
-
ChEBI. , http://www.ebi.ac.uk/chebi/
-
-
-
-
94
-
-
84888275740
-
NLProt
-
NLProt. , https://rostlab.org/owiki/index.php/NLProt
-
-
-
-
95
-
-
84888282534
-
OSCAR3
-
OSCAR3. , http://apidoc.ch.cam.ac.uk/oscar3/
-
-
-
|