-
3
-
-
41349107398
-
OpenDMAP: An open-source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-specific gene expression
-
Hunter, L., Lu, Z., Firby, J., Baumgartner, W. A. Jr., Johnson, H. L., Ogren, P. V., et al. (2008). OpenDMAP: An open-source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-specific gene expression. BMC Bioinformatics, 9(78).
-
(2008)
BMC Bioinformatics
, vol.9
, Issue.78
-
-
Hunter, L.1
Lu, Z.2
Firby, J.3
Baumgartner Jr., W.A.4
Johnson, H.L.5
Ogren, P.V.6
-
6
-
-
1542332886
-
Protege-2000: An open-source ontology-development and knowledge-acquisition environment
-
Noy, N. F., Crubezy, M., Fergerson, R. W., Knublauch, H., Tu, S. W., Vendetti, J., et al. (2003). Protege-2000: an open-source ontology-development and knowledge-acquisition environment. AMIA Annu Symp Proc, 953.
-
(2003)
AMIA Annu Symp Proc
, pp. 953
-
-
Noy, N.F.1
Crubezy, M.2
Fergerson, R.W.3
Knublauch, H.4
Tu, S.W.5
Vendetti, J.6
-
7
-
-
51049090818
-
Concept Recognition for Extracting Protein Interactions 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 Interactions 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
-
8
-
-
79952060037
-
-
to appear
-
Leitner, F., Mardis, S. A., Krallinger, M., Cesareni, G., Hirschman, L.A. and Valencia, A. (to appear). An Overview of BioCreative II.5 Transactions On Computational Biology And Bioinformatics.
-
An Overview of BioCreative II.5 Transactions on Computational Biology and Bioinformatics
-
-
Leitner, F.1
Mardis, S.A.2
Krallinger, M.3
Cesareni, G.4
Hirschman, L.A.5
Valencia, A.6
-
9
-
-
0037396730
-
The Gene Ontology Annotation (GOA) project: Implementation of GO in SWISS-PROT, TrEMBL, and interpro
-
DOI 10.1101/gr.461403
-
Camon E., Magrane M, Barrell D., Binns D., Fleischmann W., Kersey P., Mulder N., Oinn T., Maslen J., Cox A. and Apweiler R. (2003) The Gene Ontology Annotation (GOA) project: implementation of GO in Swiss-Prot, TrEMBL and InterPro. Genome Research Apr 13(4): 662-672. (Pubitemid 36511925)
-
(2003)
Genome Research
, vol.13
, Issue.4
, pp. 662-672
-
-
Camon, E.1
Magrane, M.2
Barrell, D.3
Binns, D.4
Fleischmann, W.5
Kersey, P.6
Mulder, N.7
Oinn, T.8
Maslen, J.9
Cox, A.10
Apweiler, R.11
-
10
-
-
0034069495
-
Gene ontology: Tool for the unification of biology
-
DOI 10.1038/75556
-
Ashburner, M., et al., (2000). Gene ontology: tool for the unification of biology. Nat Genet, 25(1), 25-29. (Pubitemid 30257031)
-
(2000)
Nature Genetics
, vol.25
, Issue.1
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Harris, M.A.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
more..
-
11
-
-
37849005226
-
-
University of Colorado Health Sciences Center
-
Lu, Z. (2007). Text Mining on GeneRIFs. University of Colorado Health Sciences Center.
-
(2007)
Text Mining on GeneRIFs
-
-
Lu, Z.1
-
12
-
-
79952046508
-
-
Personal Communication with Zhiyong Lu regarding [11]
-
Personal Communication with Zhiyong Lu regarding [11]
-
-
-
-
13
-
-
52649147589
-
Nominalization and alternations in biomedical language
-
Cohen, K. B., Palmer, M., & Hunter, L. (2008). Nominalization and alternations in biomedical language. PLoS One, 3(9), e3158.
-
(2008)
PLoS One
, vol.3
, Issue.9
-
-
Cohen, K.B.1
Palmer, M.2
Hunter, L.3
-
14
-
-
79952054208
-
-
BioNLP-Corpora
-
BioNLP-Corpora (2010) Activation Corpus http://bionlp-corpora. sourceforge.net/annotproj
-
(2010)
Activation Corpus
-
-
-
15
-
-
47749119407
-
Improving biomedical corpus annotation guidelines
-
Lu, Z., Bada, M., Ogren, P., Cohen, K., and Hunter, L. (2006) Improving biomedical corpus annotation guidelines. Proceedings of the Joint BioLINK and 9th Bio-Ontologies Meeting.
-
(2006)
Proceedings of the Joint BioLINK and 9th Bio-Ontologies Meeting
-
-
Lu, Z.1
Bada, M.2
Ogren, P.3
Cohen, K.4
Hunter, L.5
-
16
-
-
70350540641
-
Resolving References and Identifying Existing Knowledge in a Memory Based Parser
-
Paper presented at the
-
Livingston, K., & Riesbeck, C. K. (2009). Resolving References and Identifying Existing Knowledge in a Memory Based Parser. Paper presented at the AAAI 2009 Spring Symposium on Learning by Reading and and Learning to Read, Stanford University, California, USA.
-
(2009)
AAAI 2009 Spring Symposium on Learning by Reading and and Learning to Read, Stanford University, California, USA
-
-
Livingston, K.1
Riesbeck, C.K.2
-
17
-
-
77955439720
-
Exploring species-based strategies for gene normalization
-
in press
-
Verspoor, K., Roeder, C., Johnson, H. L., Cohen, K. B., Baumgartner, W. A. Jr., & Hunter, L. (2010). Exploring species-based strategies for gene normalization. Transactions on Computational Biology and Bioinformatics, in press.
-
(2010)
Transactions on Computational Biology and Bioinformatics
-
-
Verspoor, K.1
Roeder, C.2
Johnson, H.L.3
Cohen, K.B.4
Baumgartner Jr., W.A.5
Hunter, L.6
-
18
-
-
79952062021
-
-
NCBI
-
NCBI (2010b) FTP resources. ftp://ftp.ncbi.nih.gov/gene/DATA/gene2go.gz
-
(2010)
FTP Resources
-
-
-
19
-
-
85028749883
-
Coupling semi-supervised learning of categories and relations
-
Paper presented at the
-
Carlson, A., Betteridge, J., Hruschka Jr, E., & Mitchell, T. (2009). Coupling semi-supervised learning of categories and relations. Paper presented at the Proceedings of the NAACL HLT 2009 Workshop on Semi-supervised Learning for Natural Language Processing
-
(2009)
Proceedings of the NAACL HLT 2009 Workshop on Semi-supervised Learning for Natural Language Processing
-
-
Carlson, A.1
Betteridge, J.2
Hruschka Jr., E.3
Mitchell, T.4
-
21
-
-
84859903043
-
Refining Event Extraction through Cross-Document Inference
-
Paper presented at the
-
Ji, H., & Grishman, R. (2008). Refining Event Extraction through Cross-Document Inference. Paper presented at the Proceedings of ACL-08: HLT, , Columbus, OH.
-
(2008)
Proceedings of ACL-08: HLT,, Columbus, OH
-
-
Ji, H.1
Grishman, R.2
-
22
-
-
84858416754
-
Multi-document Relationship Fusion via Constraints on Probabilistic Databases
-
Paper presented at the
-
Mann, G. (2007). Multi-document Relationship Fusion via Constraints on Probabilistic Databases. Paper presented at the Proc. HLT/NAACL 2007, Rochester, NY.
-
(2007)
Proc. HLT/NAACL 2007, Rochester, NY
-
-
Mann, G.1
-
23
-
-
0035236048
-
GENIES: A natural-language processing system for the extraction of molecular pathways from journal articles
-
Friedman, C., Kra, P., Yu, H., Krauthammer, M., & Rzhetsky, A. (2001). GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles. Bioinformatics, 17(Suppl. 1), S74-S82.
-
(2001)
Bioinformatics
, vol.17
, Issue.SUPPL. 1
-
-
Friedman, C.1
Kra, P.2
Yu, H.3
Krauthammer, M.4
Rzhetsky, A.5
-
24
-
-
33744499195
-
A categorization approach to automated ontological function annotation
-
DOI 10.1110/ps.062184006
-
Verspoor, K., Cohn, J., Mniszewski, S., & Joslyn, C. (2006). A Categorization Approach to Automated Ontological Function Annotation. Protein Science, 15, 1544-1549. (Pubitemid 43800029)
-
(2006)
Protein Science
, vol.15
, Issue.6
, pp. 1544-1549
-
-
Verspoor, K.1
Cohn, J.2
Mniszewski, S.3
Joslyn, C.4
-
25
-
-
0037480738
-
Investigating semantic similarity measures across the gene ontology: The relationship between sequence and annotation
-
DOI 10.1093/bioinformatics/btg153
-
Lord, P. W., Stevens, R. D., Brass, A., & Goble, C. A. (2003). Investigating semantic similarity measures across the Gene Ontology: the relationship between sequence and annotation. Bioinformatics 19, 1275-1283. (Pubitemid 36850221)
-
(2003)
Bioinformatics
, vol.19
, Issue.10
, pp. 1275-1283
-
-
Lord, P.W.1
Stevens, R.D.2
Brass, A.3
Goble, C.A.4
-
26
-
-
19944402235
-
Who Tangos with GOA? - Use of Gene Ontology Annotation (GOA) for Biological Interpretation of '-omics' Data and for Validation of Automatic Annotation Tools
-
2005
-
Lee, V., Camon, E., Dimmer, E., Barrell, D., & Apweiler, R. (2005). Who Tangos with GOA? - Use of Gene Ontology Annotation (GOA) for Biological Interpretation of '-omics' Data and for Validation of Automatic Annotation Tools. Silico Biology, 5(Number 1/2005), 5-8.
-
(2005)
Silico Biology
, vol.5
, Issue.1
, pp. 5-8
-
-
Lee, V.1
Camon, E.2
Dimmer, E.3
Barrell, D.4
Apweiler, R.5
-
27
-
-
33845442570
-
Evaluation of BioCreAtIvE assessment of task 2
-
Blaschke, C., Leon, E. A., Krallinger, M., & Valencia, A. (2005). Evaluation of BioCreAtIvE assessment of task 2. BMC Bioinformatics, 6 Suppl 1, S16.
-
(2005)
BMC Bioinformatics
, vol.6
, Issue.SUPPL. 1
-
-
Blaschke, C.1
Leon, E.A.2
Krallinger, M.3
Valencia, A.4
-
28
-
-
49549120418
-
Inter-species normalization of gene mentions with GNAT
-
Hakenberg, J., Plake, C., Leaman, R., Schroeder, M., & Gonzalez, G. (2008). Inter-species normalization of gene mentions with GNAT. Bioinformatics, 24(16), i126.
-
(2008)
Bioinformatics
, vol.24
, Issue.16
-
-
Hakenberg, J.1
Plake, C.2
Leaman, R.3
Schroeder, M.4
Gonzalez, G.5
|