-
1
-
-
33749853613
-
OSIRIS: A tool for retrieving literature about sequence variants
-
Bonis, J. et al. (2006) OSIRIS: a tool for retrieving literature about sequence variants. Bioinformatics, 22, 2567-2569.
-
(2006)
Bioinformatics
, vol.22
, pp. 2567-2569
-
-
Bonis, J.1
-
2
-
-
34547879631
-
MutationFinder: A high-performance system for extracting point mutation mentions from text
-
Caporaso, J.G. 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
-
3
-
-
84857162071
-
Bioinformatics for personal genome interpretation
-
Capriotti, E. et al. (2012) Bioinformatics for personal genome interpretation. Brief. Bioinform., 13, 495-512.
-
(2012)
Brief. Bioinform
, vol.13
, pp. 495-512
-
-
Capriotti, E.1
-
4
-
-
84875575941
-
An improved corpus of disease mentions in PubMed citations
-
Association for Computational Linguistics, Stroudsburg, PA, USA
-
Dogan, R.I. and Lu, Z. (2012a) An improved corpus of disease mentions in PubMed citations. In: Proceedings of the ACLWorkshop on Biomedical Natural Language Processing. Association for Computational Linguistics, Stroudsburg, PA, USA, pp. 91-99.
-
(2012)
Proceedings of the ACLWorkshop on Biomedical Natural Language Processing
, pp. 91-99
-
-
Dogan, R.I.1
Lu, Z.2
-
6
-
-
79551581206
-
Toward an automatic method for extracting cancer - And other disease-related point mutations from the biomedical literature
-
Doughty, E. et al. (2011) Toward an automatic method for extracting cancer - and other disease-related point mutations from the biomedical literature. Bioinformatics, 27, 408-415.
-
(2011)
Bioinformatics
, vol.27
, pp. 408-415
-
-
Doughty, E.1
-
7
-
-
38049005041
-
Application of automatic mutation-gene pair extraction to diseases
-
Erdogmus, M. and Sezerman, O.U. (2007) Application of automatic mutation-gene pair extraction to diseases. J. Bioinform. Comput. Biol., 5, 1261-1275.
-
(2007)
J. Bioinform. Comput. Biol
, vol.5
, pp. 1261-1275
-
-
Erdogmus, M.1
Sezerman, O.U.2
-
8
-
-
41549167185
-
OSIRISv1.2: A named entity recognition system for sequence variants of genes in biomedical literature
-
Furlong, L.I. et al. (2008) OSIRISv1.2: a named entity recognition system for sequence variants of genes in biomedical literature. BMC Bioinformatics, 2008, 84.
-
(2008)
BMC Bioinformatics
, vol.2008
, pp. 84
-
-
Furlong, L.I.1
-
9
-
-
84867462394
-
ABCMdb: A database for the comparative analysis of protein mutations in ABC transporters, and a potential framework for a general application
-
Gyimesi, G. et al. (2012) ABCMdb: a database for the comparative analysis of protein mutations in ABC transporters, and a potential framework for a general application. Hum. Mutat., 33, 1547-1556.
-
(2012)
Hum. Mutat
, vol.33
, pp. 1547-1556
-
-
Gyimesi, G.1
-
10
-
-
1542400018
-
Automated extraction of mutation data from the literature: Application of MuteXt to G protein-coupled receptors and nuclear hormone receptors
-
Horn, F. et al. (2004) Automated extraction of mutation data from the literature: application of MuteXt to G protein-coupled receptors and nuclear hormone receptors. Bioinformatics, 20, 557-568.
-
(2004)
Bioinformatics
, vol.20
, pp. 557-568
-
-
Horn, F.1
-
11
-
-
46249123634
-
Integrating high dimensional bi-directional parsing models for gene mention tagging
-
Hsu, C.N. et al. (2008) Integrating high dimensional bi-directional parsing models for gene mention tagging. Bioinformatics, 24, i286-i294.
-
(2008)
Bioinformatics
, vol.24
-
-
Hsu, C.N.1
-
12
-
-
84866490380
-
Interpretation of the consequences of mutations in protein kinases: Combined use of bioinformatics and text mining
-
Izarzugaza, J.M.G. et al. (2012) Interpretation of the consequences of mutations in protein kinases: combined use of bioinformatics and text mining. Front. Physiol., 3, 323.
-
(2012)
Front. Physiol
, vol.3
, pp. 323
-
-
Izarzugaza, J.M.G.1
-
13
-
-
37849020226
-
A workflow for mutation extraction and structure annotation
-
Kanagasabai, R. et al. (2007) A workflow for mutation extraction and structure annotation. J. Bioinform. Comput. Biol., 5, 1319-1337.
-
(2007)
J. Bioinform. Comput. Biol
, vol.5
, pp. 1319-1337
-
-
Kanagasabai, R.1
-
14
-
-
77956287596
-
Novel tools for extraction and validation of disease-related mutations applied to Fabry disease
-
Kuipers, R. et al. (2012) Novel tools for extraction and validation of disease-related mutations applied to Fabry disease. Hum. Mutat., 31, 1026-1032.
-
(2012)
Hum. Mutat
, vol.31
, pp. 1026-1032
-
-
Kuipers, R.1
-
15
-
-
0142192295
-
Conditional randomi fields: Probabilistic models for segmenting and labeling sequence data
-
Morgan Kaufmann Publishers Inc., San Francisco, CA, USA
-
Lafferty, J. et al. (2001) Conditional random fields: probabilistic models for segmenting and labeling sequence data. In: Proceedings of the International Conference on Machine Learning (ICML 01). Morgan Kaufmann Publishers Inc., San Francisco, CA, USA, pp. 282-289.
-
(2001)
Proceedings of the International Conference on Machine Learning (ICML 01)
, pp. 282-289
-
-
Lafferty, J.1
-
16
-
-
40549140499
-
BANNER: An executable survey of advances in biomedical named entity recognition
-
World Scientific Publishing Co. Pte. Ltd Singapore
-
Leaman, R. and Gonzalez, G. (2008) BANNER: an executable survey of advances in biomedical named entity recognition. In: Proceedsing of the Pacific Symposium on Biocomputing. World Scientific Publishing Co. Pte. Ltd., Singapore, pp. 652-663.
-
(2008)
Proceedsing of the Pacific Symposium on Biocomputing
, pp. 652-663
-
-
Leaman, R.1
Gonzalez, G.2
-
17
-
-
33646887390
-
On the limited memory BFGS method for large scale optimization
-
Liu, D.C. and Nocedal, J. (1989) On the limited memory BFGS method for large scale optimization. Math. Prog. B, 45, 503-528.
-
(1989)
Math. Prog. B
, vol.45
, pp. 503-528
-
-
Liu, D.C.1
Nocedal, J.2
-
18
-
-
80052774027
-
The gene normalization task in BioCreative III
-
Lu, Z. et al. (2011) The gene normalization task in BioCreative III. BMC Bioinformatics, 12, S9.
-
(2011)
BMC Bioinformatics
, vol.12
-
-
Lu, Z.1
-
20
-
-
10244245027
-
An entity tagger for recognizing acquired genomic variations in cancer literature
-
McDonald, R.T. et al. (2004) An entity tagger for recognizing acquired genomic variations in cancer literature. Bioinformatics, 20, 3249-3251.
-
(2004)
Bioinformatics
, vol.20
, pp. 3249-3251
-
-
McDonald, R.T.1
-
21
-
-
41349103793
-
Overview of BioCreative II gene normalization
-
Morgan, A.A. et al. (2008) Overview of BioCreative II gene normalization. Genome Biol., 9, S3.
-
(2008)
Genome Biol
, vol.9
-
-
Morgan, A.A.1
-
22
-
-
84868014906
-
Automated extraction and semantic analysis of mutation impacts from the biomedical literature
-
Naderi, N. and Witte, R. (2012) Automated extraction and semantic analysis of mutation impacts from the biomedical literature. BMC Genomics, 13 (Suppl. 4), S10.
-
(2012)
BMC Genomics
, vol.13 SUPPL. 4
-
-
Naderi, N.1
Witte, R.2
-
23
-
-
79952765434
-
Semi-automatic semantic annotation of PubMed queries: A study on quality, efficiency, satisfaction
-
Ne've'ol, A. et al. (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
-
-
Ne'Ve'Ol, A.1
-
24
-
-
84864051137
-
Improving links between literature and biological data with text mining: A case study with GEO
-
Database 2012, article ID bas026 doi:10.1093/database/bas026
-
Ne've'ol, A. et al. (2012) Improving links between literature and biological data with text mining: a case study with GEO, PDB and MEDLINE. Database, 2012, article ID bas026; doi:10.1093/database/bas026.
-
(2012)
PDB and MEDLINE
-
-
Neveol, A.1
-
25
-
-
1242264326
-
Automatic extraction of mutations from Medline and cross-validation with OMIM
-
Rebholz-Schuhmann, D. et al. (2004) Automatic extraction of mutations from Medline and cross-validation with OMIM. Nucleic Acids Res., 32, 135-142.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 135-142
-
-
Rebholz-Schuhmann, D.1
-
26
-
-
84878301455
-
Extraction of genetic mutations associated with cancer from public literature
-
doi:10.4172/2157-7420.S2-002
-
Schenck, M. et al. (2012) Extraction of genetic mutations associated with cancer from public literature. J. Health Med. Informat., S2. doi:10.4172/2157-7420.S2-002.
-
(2012)
J. Health Med. Informat
-
-
Schenck, M.1
-
27
-
-
17244376942
-
Biomedical named entity recognition using conditional random fields and rich feature sets
-
Association for Computational Linguistics, Stroudsburg, PA, USA
-
Settles, B. (2004) Biomedical named entity recognition using conditional random fields and rich feature sets. In: Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications, Association for Computational Linguistics, Stroudsburg, PA, USA, pp. 104-107.
-
(2004)
Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and Its Applications
, pp. 104-107
-
-
Settles, B.1
-
28
-
-
26944481683
-
Conditional random fields: An introduction
-
Department of Computer and Information Science, University of Pennsylvania, Philadelphia, PA, USA
-
Wallach, H.M. (2004) Conditional random fields: an introduction. Technical Report MS-CIS-04-21. Department of Computer and Information Science, University of Pennsylvania, Philadelphia, PA, USA.
-
(2004)
Technical Report MS-CIS-04-21
-
-
Wallach, H.M.1
-
30
-
-
84876499465
-
Accelerating literature curation with text-mining tools: A case study of using PubTator to curate genes in PubMed abstracts
-
doi:10.1093/database/bas041
-
Wei, C.H. et al. (2012a) Accelerating literature curation with text-mining tools: a case study of using PubTator to curate genes in PubMed abstracts. Database, 2012, article ID bas041; doi:10.1093/database/bas041.
-
(2012)
Database 2012 Article ID bas041
-
-
Wei, C.H.1
-
31
-
-
84861878785
-
Pubtator: A pubmed-like interactive curation system for document triage and literature curation
-
Washington DC USA
-
Wei, C.H. et al. (2012b) PubTator: a PubMed-like interactive curation system for document triage and literature curation. In: Proceedings of the International BioCreative 2012 workshop. Washington DC, USA, pp. 145-150.
-
(2012)
Proceedings of the International BioCreative 2012 workshop
, pp. 145-150
-
-
Wei, C.H.1
-
32
-
-
84861856856
-
SR4GN: A species recognition software tool for gene normalization
-
Wei, C.H. et al. (2012c) SR4GN: a species recognition software tool for gene normalization. PLoS One, 7, e38460.
-
(2012)
PLoS One
, vol.7
-
-
Wei, C.H.1
-
33
-
-
69549112939
-
Improved mutation tagging with gene identifiers applied to membrane protein stability prediction
-
Winnenburg, R. et al. (2009) Improved mutation tagging with gene identifiers applied to membrane protein stability prediction. BMC Bioinformatics, 10, S3.
-
(2009)
BMC Bioinformatics
, vol.10
-
-
Winnenburg, R.1
-
34
-
-
38049046226
-
Towards a systematic evaluation of protein mutation extraction systems
-
Witte, R. and Baker, C.J.O. (2007) Towards a systematic evaluation of protein mutation extraction systems. J. Bioinform. Comput. Biol., 5, 1339-1359.
-
(2007)
J. Bioinform. Comput. Biol
, vol.5
, pp. 1339-1359
-
-
Witte, R.1
Baker, C.J.O.2
-
35
-
-
69549129466
-
EnzyMiner: Automatic identification of protein level mutations and their impact on target enzymes from PubMed abstracts
-
Yeniterzi, S. and Sezerman, U. (2009) EnzyMiner: automatic identification of protein level mutations and their impact on target enzymes from PubMed abstracts. BMC Bioinformatics, 10, S2.
-
(2009)
BMC Bioinformatics
, vol.10
-
-
Yeniterzi, S.1
Sezerman, U.2
-
36
-
-
77049109708
-
The need for genetic variant naming standards in published abstracts of human genetic association studies
-
Yu, W. et al. (2009) The need for genetic variant naming standards in published abstracts of human genetic association studies. BMC Res. Notes, 2, 56.
-
(2009)
BMC Res. Notes
, vol.2
, pp. 56
-
-
Yu, W.1
|