-
1
-
-
38549134393
-
The Plant Ontology Database: A community resource for plant structure and developmental stages controlled vocabulary and annotations
-
Avraham, S., C.-W. Tung, K. Ilic, P. Jaiswal, E. A. Kellogg, S. McCouch, A. Pujar, et al. 2008. The Plant Ontology Database: A community resource for plant structure and developmental stages controlled vocabulary and annotations. Nucleic Acids Research 36: D449-D454.
-
(2008)
Nucleic Acids Research
, vol.36
-
-
Avraham, S.1
Tung, C.-W.2
Ilic, K.3
Jaiswal, P.4
Kellogg, E.A.5
McCouch, S.6
Pujar, A.7
-
2
-
-
21944445759
-
An ontology for cell types
-
Bard, J., S. Y. Rhee, and M. Ashburner. 2005. An ontology for cell types. Genome Biology 6: R21 http://genomebiology.com/2005/6/2/ R21.
-
(2005)
Genome Biology
, vol.6
-
-
Bard, J.1
Rhee, S.Y.2
Ashburner, M.3
-
3
-
-
58149187893
-
The GOA database in 2009-An integrated Gene Ontology Annotation resource
-
Barrell, D., E. Dimmer, R. P. Huntley, D. Binns, C. O'Donovan, and R. Apweiler. 2009. The GOA database in 2009-An integrated Gene Ontology Annotation resource. Nucleic Acids Research 37: D396-D403.
-
(2009)
Nucleic Acids Research
, vol.37
-
-
Barrell, D.1
Dimmer, E.2
Huntley, R.P.3
Binns, D.4
O'Donovan, C.5
Apweiler, R.6
-
4
-
-
33646256547
-
Beyond the data deluge: Data integration and bio-ontologies
-
Blake, J. A., and C. J. Bult. 2006. Beyond the data deluge: Data integration and bio-ontologies. Journal of Biomedical Informatics 39: 314-320.
-
(2006)
Journal of Biomedical Informatics
, vol.39
, pp. 314-320
-
-
Blake, J.A.1
Bult, C.J.2
-
5
-
-
33748792021
-
Bio-ontologies: Current trends and future directions
-
Bodenreider, O., and R. Stevens. 2006. Bio-ontologies: Current trends and future directions. Briefings in Bioinformatics 7: 256-274.
-
(2006)
Briefings in Bioinformatics
, vol.7
, pp. 256-274
-
-
Bodenreider, O.1
Stevens, R.2
-
6
-
-
9144252016
-
The Gene Ontology Annotation (GOA) database: Sharing knowledge in UniProt with Gene Ontology
-
Camon, E., M. Magrane, D. Barrell, V. Lee, E. Dimmer, J. Maslen, D. Binns, et al. 2004. The Gene Ontology Annotation (GOA) database: Sharing knowledge in UniProt with Gene Ontology. Nucleic Acids Research 32: D262-D266.
-
(2004)
Nucleic Acids Research
, vol.32
-
-
Camon, E.1
Magrane, M.2
Barrell, D.3
Lee, V.4
Dimmer, E.5
Maslen, J.6
Binns, D.7
-
7
-
-
34247607606
-
Assembling the fungal tree of life: Constructing the structural and biochemical database
-
Celio, G. J., M. Padamsee, B. T. M. Dentinger, R. Bauer, and D. J. McLaughlin. 2006. Assembling the fungal tree of life: Constructing the structural and biochemical database. Mycologia 98: 850-859.
-
(2006)
Mycologia
, vol.98
, pp. 850-859
-
-
Celio, G.J.1
Padamsee, M.2
Dentinger, B.T.M.3
Bauer, R.4
McLaughlin, D.J.5
-
8
-
-
33846040145
-
FlyBase: Genomes by the dozen
-
FlyBase Consortium
-
Crosby, M. A., J. L. Goodman, V. B. Strelets, P. Zhang, W. M. Gelbart, and FlyBase Consortium. 2007. FlyBase: Genomes by the dozen. Nucleic Acids Research 35: D486-D491.
-
(2007)
Nucleic Acids Research
, vol.35
-
-
Crosby, M.A.1
Goodman, J.L.2
Strelets, V.B.3
Zhang, P.4
Gelbart, W.M.5
-
9
-
-
77956229224
-
Evolutionary characters, phenotypes and ontologies: Curating data from the systematic biology literature
-
Dahdul, W. M., J. P. Balhoff, J. Engeman, T. Grande, E. J. Hilton, C. Kothari, H. Lapp, et al. 2010. Evolutionary characters, phenotypes and ontologies: Curating data from the systematic biology literature. PLoS ONE 5: e10708.
-
(2010)
PLoS ONE
, vol.5
-
-
Dahdul, W.M.1
Balhoff, J.P.2
Engeman, J.3
Grande, T.4
Hilton, E.J.5
Kothari, C.6
Lapp, H.7
-
10
-
-
34548595489
-
OBO-Edit-An ontology editor for biologists
-
Group T.G.O.O.-E. W
-
Day-Richter, J., M. A. Harris, M. Haendel, Group T.G.O.O.-E.W., and S. Lewis. 2007. OBO-Edit-An ontology editor for biologists. Bioinformatics 23: 2198-2200.
-
(2007)
Bioinformatics
, vol.23
, pp. 2198-2200
-
-
Day-Richter, J.1
Harris, M.A.2
Haendel, M.3
Lewis, S.4
-
11
-
-
42449121454
-
An anatomy ontology to represent biological knowledge in Dictyostelium discoideum
-
Gaudet, P., J. G. Williams, P. Fey, and R. L. Chisholm. 2008. An anatomy ontology to represent biological knowledge in Dictyostelium discoideum. BMC Genomics 9: 130.
-
(2008)
BMC Genomics
, vol.9
, pp. 130
-
-
Gaudet, P.1
Williams, J.G.2
Fey, P.3
Chisholm, R.L.4
-
12
-
-
0034069495
-
Gene Ontology: Tool for the unification of biology
-
Gene Ontology Consortium
-
Gene Ontology Consortium, M. Ashburner, C. A. Ball, J. A. Blake, D. Botstein, H. Butler, J. M. Cherry et al. 2000. Gene Ontology: Tool for the unification of biology. Nature Genetics 25: 25-29.
-
(2000)
Nature Genetics
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
-
13
-
-
0346801873
-
The Gene Ontology (GO) database and informatics resource
-
Gene Ontology Consortium
-
Gene Ontology Consortium. 2004. The Gene Ontology (GO) database and informatics resource. Nucleic Acids Research 32: D258-D261.
-
(2004)
Nucleic Acids Research
, vol.32
-
-
-
14
-
-
33644875286
-
The Gene Ontology (GO) project in 2006
-
Gene Ontology Consortium
-
Gene Ontology Consortium. 2006. The Gene Ontology (GO) project in 2006. Nucleic Acids Research 34: D322-D326.
-
(2006)
Nucleic Acids Research
, vol.34
-
-
-
15
-
-
84984996500
-
The Gene Ontology (GO) project in 2008
-
Gene Ontology Consortium
-
Gene Ontology Consortium. 2008. The Gene Ontology (GO) project in 2008. Nucleic Acids Research 36: D440-D444.
-
(2008)
Nucleic Acids Research
, vol.36
-
-
-
16
-
-
35148839490
-
A translational approach to portable ontology specifications
-
Gruber, T. R. 1993. A translational approach to portable ontology specifications. Knowledge Acquisition 5: 199-220.
-
(1993)
Knowledge Acquisition
, vol.5
, pp. 199-220
-
-
Gruber, T.R.1
-
17
-
-
0019365546
-
Nucleus-associated organelles in Fungi
-
Heath, I. B. 1981. Nucleus-associated organelles in Fungi. International Review of Cytology 69: 191-221.
-
(1981)
International Review of Cytology
, vol.69
, pp. 191-221
-
-
Heath, I.B.1
-
18
-
-
34250341823
-
A higherlevel phylogenetic classification of the Fungi
-
Hibbett, D. S., M. Binder, J. F. Bischoff, M. Blackwell, P. F. Cannon, O. E. Eriksson, S. Huhndorf, et al. 2007. A higherlevel phylogenetic classification of the Fungi. Mycological Research 111: 509-547.
-
(2007)
Mycological Research
, vol.111
, pp. 509-547
-
-
Hibbett, D.S.1
Binder, M.2
Bischoff, J.F.3
Blackwell, M.4
Cannon, P.F.5
Eriksson, O.E.6
Huhndorf, S.7
-
19
-
-
38549123363
-
Gene Ontology annotations at SGD: New data sources and annotation methods
-
Hong, E. L., R. Balakrishnan, Q. Dong, K. R. Christie, J. Park, G. Binkley, M. C. Costanzo, et al. 2007. Gene Ontology annotations at SGD: New data sources and annotation methods. Nucleic Acids Research 36: D577-D581.
-
(2007)
Nucleic Acids Research
, vol.36
-
-
Hong, E.L.1
Balakrishnan, R.2
Dong, Q.3
Christie, K.R.4
Park, J.5
Binkley, G.6
Costanzo, M.C.7
-
20
-
-
45549094918
-
Animal trait ontology: The importance of a unified trait vocabulary for animal species
-
Hughes, L. M., J. Bao, Z.-L. Hu, V. Honavar, and J. M. Reecy. 2008. Animal trait ontology: The importance of a unified trait vocabulary for animal species. Journal of Animal Science 86: 1485-1491.
-
(2008)
Journal of Animal Science
, vol.86
, pp. 1485-1491
-
-
Hughes, L.M.1
Bao, J.2
Hu, Z.-L.3
Honavar, V.4
Reecy, J.M.5
-
21
-
-
34247192074
-
The plant structure ontology, a unified vocabulary of anatomy and morphology of a flowering plant
-
Ilic, K. E., E. A. Kellogg, P. Jaiswal, F. Zapat, P. F. Stevens, L. Vincent, S. Avraham, et al. 2007. The plant structure ontology, a unified vocabulary of anatomy and morphology of a flowering plant. Plant Physiology 143: 587-599.
-
(2007)
Plant Physiology
, vol.143
, pp. 587-599
-
-
Ilic, K.E.1
Kellogg, E.A.2
Jaiswal, P.3
Zapat, F.4
Stevens, P.F.5
Vincent, L.6
Avraham, S.7
-
22
-
-
34247642095
-
A molecular phylogeny of the flagellated fungi (Chytridiomycota) and a proposal for a new phylum (Blastocladiomycota)
-
James, T. Y., P. M. Letcher, J. E. Longcore, S. E. Mozley-Standridge, D. Porter, M. J. Powell, G. W. Griffith, and R. Vilgalys. 2006. A molecular phylogeny of the flagellated fungi (Chytridiomycota) and a proposal for a new phylum (Blastocladiomycota). Mycologia 98: 860-871.
-
(2006)
Mycologia
, vol.98
, pp. 860-871
-
-
James, T.Y.1
Letcher, P.M.2
Longcore, J.E.3
Mozley-Standridge, S.E.4
Porter, D.5
Powell, M.J.6
Griffith, G.W.7
Vilgalys, R.8
-
23
-
-
84858394873
-
A formal anatomy of subcellular neuroanatomy
-
Larson, S. D., L. L. Fong, A. Gupta, C. Condit, W. J. Bug, and M. E. Martone. 2007. A formal anatomy of subcellular neuroanatomy. Frontiers in Neuroinformatics 1: 1-12.
-
(2007)
Frontiers in Neuroinformatics
, vol.1
, pp. 1-12
-
-
Larson, S.D.1
Fong, L.L.2
Gupta, A.3
Condit, C.4
Bug, W.J.5
Martone, M.E.6
-
24
-
-
32044471897
-
Where are we in assembling the fungal tree of life, classifying the fungi, and understanding the evolution of their subcellular traits?
-
Lutzoni, F., F. Kauff, C. J. Cox, D. McLaughlin, G. Celio, B. Dentinger, M. Padamsee, et al. 2004. Where are we in assembling the fungal tree of life, classifying the fungi, and understanding the evolution of their subcellular traits? American Journal of Botany 91: 1446-1480.
-
(2004)
American Journal of Botany
, vol.91
, pp. 1446-1480
-
-
Lutzoni, F.1
Kauff, F.2
Cox, C.J.3
McLaughlin, D.4
Celio, G.5
Dentinger, B.6
Padamsee, M.7
-
25
-
-
34250625734
-
Phenotype ontologies: The bridge between genomics and evolution
-
Mabee, P. M., M. Ashburner, Q. Cronk, G. V. Gkoutos, M. Haendel, E. Segerdell, C. Mungall, and M. Westerfield. 2007. Phenotype ontologies: The bridge between genomics and evolution. Trends in Ecology & Evolution 22: 345-350.
-
(2007)
Trends in Ecology & Evolution
, vol.22
, pp. 345-350
-
-
Mabee, P.M.1
Ashburner, M.2
Cronk, Q.3
Gkoutos, G.V.4
Haendel, M.5
Segerdell, E.6
Mungall, C.7
Westerfield, M.8
-
26
-
-
70350340838
-
The search for the fungal tree of life
-
McLaughlin, D. J., D. S. Hibbett, F. Lutzoni, J. W. Spatafora, and R. Vilgalys. 2009. The search for the fungal tree of life. Trends in Microbiology 17: 488-497.
-
(2009)
Trends in Microbiology
, vol.17
, pp. 488-497
-
-
McLaughlin, D.J.1
Hibbett, D.S.2
Lutzoni, F.3
Spatafora, J.W.4
Vilgalys, R.5
-
27
-
-
77349112447
-
Integrating phenotype ontologies across multiple species
-
Mungall, C. J., G. V. Gkoutos, C. L. Smith, M. A. Haendel, S. E. Lewis, and M. Ashburner. 2010. Integrating phenotype ontologies across multiple species. Genome Biology 11: R2.
-
(2010)
Genome Biology
, vol.11
-
-
Mungall, C.J.1
Gkoutos, G.V.2
Smith, C.L.3
Haendel, M.A.4
Lewis, S.E.5
Ashburner, M.6
-
28
-
-
35048835647
-
On the application of formal principles to life science data: A case study in the Gene Ontology
-
In E. Rahm [ed.], Springer-Verlag, Berlin, Germany
-
Smith, B., J. Köhler, and A. Kumar. 2004. On the application of formal principles to life science data: A case study in the Gene Ontology. In E. Rahm [ed.], Proceedings of DILS 2004 (Database Integration in the Life Sciences, Lecture notes in computer science 2994), 79-94. Springer-Verlag, Berlin, Germany.
-
(2004)
Proceedings of DILS 2004 (Database Integration in the Life Sciences, Lecture notes in computer science 2994)
, pp. 79-94
-
-
Smith, B.1
Köhler, J.2
Kumar, A.3
-
29
-
-
7944230660
-
Controlled vocabularies in bioinformatics: A case study in the gene ontology
-
Smith, B., and A. Kumar. 2004. Controlled vocabularies in bioinformatics: A case study in the gene ontology. DDT: Biosilico 2: 246-252.
-
(2004)
DDT: Biosilico
, vol.2
, pp. 246-252
-
-
Smith, B.1
Kumar, A.2
-
30
-
-
35948989284
-
The OBO Foundry: Coordinated evolution of ontologies to support biomedical data integration
-
Smith, B. A. M, C. Rosse, J. Bard, W. Bug, W. Ceusters, L. J. Goldberg, K. Eilbeck, et al. 2007. The OBO Foundry: Coordinated evolution of ontologies to support biomedical data integration. Nature Biotechnology 25: 1251-1255.
-
(2007)
Nature Biotechnology
, vol.25
, pp. 1251-1255
-
-
Smith B.A.M1
Rosse, C.2
Bard, J.3
Bug, W.4
Ceusters, W.5
Goldberg, L.J.6
Eilbeck, K.7
-
31
-
-
16544371402
-
The ontology of the Gene Ontology
-
In M. Musen [ed.], Washington, D.C., USA. American Medical Informatics Association, Bethesda, Maryland, USA
-
Smith, B., J. Williams, and S. Schulze-Kremer. 2003. The ontology of the Gene Ontology. In M. Musen [ed.], Biomedical and health informatics: From foundations to applications, Proceedings of AMIA Annual Symposium 2003, 609-613, Washington, D.C., USA. American Medical Informatics Association, Bethesda, Maryland, USA.
-
(2003)
Biomedical and health informatics: From foundations to applications, Proceedings of AMIA Annual Symposium 2003
, pp. 609-613
-
-
Smith, B.1
Williams, J.2
Schulze-Kremer, S.3
-
32
-
-
26844450908
-
The mammalian phenotype ontology as a tool for annotating, analyzing and comparing phenotypic information
-
Smith, C. L., C. A. Goldsmith, and J. T. Eppig. 2005. The mammalian phenotype ontology as a tool for annotating, analyzing and comparing phenotypic information. Genome Biology 6: R7.
-
(2005)
Genome Biology
, vol.6
-
-
Smith, C.L.1
Goldsmith, C.A.2
Eppig, J.T.3
-
33
-
-
0037246723
-
The Zebrafish information Network (ZFIN): The Zebrafish model organism database
-
Sprague, J., D. Clements, T. Conlin, P. Edwards, K. Frazer, K. Schaper, E. Segerdell, et al. 2003. The Zebrafish information Network (ZFIN): The Zebrafish model organism database. Nucleic Acids Research 31: D241-D243.
-
(2003)
Nucleic Acids Research
, vol.31
-
-
Sprague, J.1
Clements, D.2
Conlin, T.3
Edwards, P.4
Frazer, K.5
Schaper, K.6
Segerdell, E.7
-
34
-
-
70349279062
-
The Fungi
-
Stajich, J. E., M. E. Berbee, M. Blackwell, D. S. Hibbett, T. Y. James, J. W. Spatafora, and J. W. Taylor. 2009. The Fungi. Current Biology 19: R840-R845.
-
(2009)
Current Biology
, vol.19
-
-
Stajich, J.E.1
Berbee, M.E.2
Blackwell, M.3
Hibbett, D.S.4
James, T.Y.5
Spatafora, J.W.6
Taylor, J.W.7
-
35
-
-
84906311581
-
Clarity in the usage of the terms ontology, taxonomy and classification
-
Van Rees, R. 2003. Clarity in the usage of the terms ontology, taxonomy and classification. CIB Report 284: 432-439.
-
(2003)
CIB Report
, vol.284
, pp. 432-439
-
-
van Rees, R.1
-
36
-
-
78751486381
-
Molecular phylogenetic and zoospore ultrastructural analyses of Chytridium olla establish the limits of a monophyletic Chytridiales
-
Vélez, C. G., P. M. Letcher, S. Schultz, M. J. Powell, and P. F. Churchill. 2011. Molecular phylogenetic and zoospore ultrastructural analyses of Chytridium olla establish the limits of a monophyletic Chytridiales. Mycologia 103: 118-130.
-
(2011)
Mycologia
, vol.103
, pp. 118-130
-
-
Vélez, C.G.1
Letcher, P.M.2
Schultz, S.3
Powell, M.J.4
Churchill, P.F.5
|