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Conference Paper
R. Walls
,
Smith, B.
,
Elser, J.
, and
Goldfain, A.
,
“
A plant disease extension of the Infectious Disease Ontology
”
, in
International Conference on Biomedical Ontology (ICBO-2012)
, Graz, Austria, 2012, vol. 897.
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Conference Poster
L. D. Cooper
,
“
Annotating the Maize B73 Gene Expression Atlas – A Plant Ontology Use Case for Genomics Data Curation
”
,
Biocuration 2012
. Washington DC, USA, 2012.
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E. Huala
,
“
Development of a Unified Phenotype Dataset for Plants
”
,
Plant and Animal Genome 2013
. San Diego, CA, 2013.
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L. Cooper
,
“
Development of the Reference Plant Trait Ontology: A Unified Resource for Plant Phenomics
”
,
Plant and Animal Genome XXI Conference
. San Diego, CA, 2013.
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B. Atkinson
,
“
Plant Ontology, a controlled and structured plant vocabulary for all botanical disciplines
”
,
Botany 2013
. New Orleans, LA, 2013.
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L. Cooper
,
“
The Plant Ontology: A Tool for Linking Plant Anatomy and Development to Genomics Across Plant Taxa
”
,
Plant Biology 2012
. Austin, Tx, 2012.
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J. Preece
,
“
The Plant Ontology: A Tool for Linking Plant Anatomy and Development to Genomics Across Plant Taxa
”
,
Genome Informatics 2012
. Robinson College, Cambridge, UK, 2012.
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Conference Presentation
L. D. Cooper
,
“
Annotating Gene Expression in
Physcomitrella patens
using the Plant Ontology: Facilitating Cross-Taxa Comparisons
”
,
Plant and Animal Genome XX Conference
. San Diego, CA, 2012.
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P. Jaiswal
,
“
Annotating the Maize B73 Gene Expression Atlas in the Plant Ontology- A Tool for Plant Genomics.
”
,
54th Annual Maize Genetics Conference
. Portland, OR, 2012.
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L. D. Cooper
,
“
Expanding the Plant Ontology: Linking Plant Anatomy and Development to Genomics Across Plant Taxa
”
,
Plant and Animal Genome XX Conference
. San Diego, CA, 2012.
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L. D. Cooper
,
“
The Plant Ontology: Linking Genomic and Phenomic Data Across Plant Taxa
”
,
Plant and Animal Genome XX Conference
. San Diego, CA, 2012.
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E. Arnaud
,
“
The Species-Specific Crop Ontology (Generation Challenge Programme): Application and Integration into the Reference Plant Trait Ontology to Enable Data Mining on Phenotypes
”
,
Plant and Animal Genome XXI Conference
. San Diego, CA, 2013.
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E. Arnaud
,
“
The Species-Specific Crop Ontology (Generation Challenge Programme): Application and Integration into the Reference Plant Trait Ontology to Enable Data Mining on Phenotypes
”
,
Plant and Animal Genome XXI Conference
. San Diego, CA, 2013.
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R. L. Walls
,
“
Using the Plant Ontology to improve the interoperability of genomic and phenomic data sets
”
,
Plant Genomes & Biotechnology: from Genes to Networks
. Cold Spring Harbor Laboratory, New York, 2011.
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R. L. Walls
,
“
Using the Plant Ontology to Link Anatomical Structures to Gene Annotations in
Physcomitrella patens
”
,
Moss 2011
. Black Forest, Germany, 2011.
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Journal Article
F. Lens
,
Cooper, L.
,
Gandolfo, M. A.
,
Groover, P.
,
Jaiswal, P.
,
Lachenbruch, R.
,
Spicer, R.
,
Staton, D.
,
Stevenson, D. W.
,
Walls, R. L.
, and
Wegrzyn, J.
,
“
An extension of the Plant Ontology project supporting wood anatomy and development research
”
,
IAWA Journal
, vol. 33, pp. 113-117, 2012.
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F. Lens
,
Cooper, L.
,
Gandolfo, M. A.
,
Groover, P.
,
Jaiswal, P.
,
Lachenbruch, R.
,
Spicer, R.
,
Staton, D.
,
Stevenson, D. W.
,
Walls, R. L.
, and
Wegrzyn, J.
,
“
An extension of the Plant Ontology project supporting wood anatomy and development research
”
,
IAWA Journal
, vol. 33, pp. 113-117, 2012.
Google Scholar
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A. R. Deans
,
Lewis, S. E.
,
Huala, E.
,
Anzaldo, S. S.
,
Ashburner, M.
,
Balhoff, J. P.
,
Blackburn, D. C.
,
Blake, J. A.
,
Burleigh, G. J.
,
Chanet, B.
,
Cooper, L. D.
,
Courtot, M.
,
Csösz, S.
,
Cui, H.
,
Dahdul, W.
,
Das, S.
,
Dececchi, A. T.
,
Dettai, A.
,
Diogo, R.
,
Druzinsky, R. E.
,
Dumontier, M.
,
Franz, N. M.
,
Friedrich, F.
,
Gkoutos, G. V.
,
Haendel, M.
,
Harmon, L. J.
,
Hayamizu, T. F.
,
He, Y.
,
Hines, H. M.
,
Ibrahim, N.
,
Jackson, L. M.
,
Jaiswal, P.
,
James-Zorn, C.
,
Köhler, S.
,
Lecointre, G.
,
Lapp, H.
,
Lawrence, C. J.
,
Le Novère, N.
,
Lundberg, J. G.
,
Macklin, J.
,
Mast, A. R.
,
Midford, P. E.
,
Mikó, I.
,
Mungall, C. J.
,
Oellrich, A.
,
Osumi-Sutherland, D.
,
Parkinson, H.
,
Ramírez, M. J.
,
Richter, S.
,
Robinson, P. N.
,
Ruttenberg, A.
,
Schulz, K. S.
,
Segerdell, E.
,
Seltmann, K. C.
,
Sharkey, M. J.
,
Smith, A. D.
,
Smith, B.
,
Specht, C. D.
,
Squires, B. R.
,
Thacker, R. W.
,
Thessen, A.
,
Fernandez-Triana, J.
,
Vihinen, M.
,
Vize, P. D.
,
Vogt, L.
,
Wall, C. E.
,
Walls, R. L.
,
Westerfeld, M.
,
Wharton, R. A.
,
Wirkner, C. S.
,
Woolley, J. B.
,
Yoder, M. J.
,
Zorn, A. M.
, and
Mabee, P.
,
“
Finding Our Way through Phenotypes
”
,
PLoS Biol
, vol. 13, p. e1002033, 2015.
DOI
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V. Shulaev
,
Sargent, D. J.
,
Crowhurst, R. N.
,
Mockler, T. C.
,
Folkerts, O.
,
Delcher, A. L.
,
Jaiswal, P.
,
Mockaitis, K.
,
Liston, A.
,
Mane, S. P.
,
Burns, P.
,
Davis, T. M.
,
Slovin, J. P.
,
Bassil, N.
,
Hellens, R. P.
,
Evans, C.
,
Harkins, T.
,
Kodira, C.
,
Desany, B.
,
Crasta, O. R.
,
Jensen, R. V.
,
Allan, A. C.
,
Michael, T. P.
,
Setubal, J. C.
,
Celton, J. - M.
,
Rees, J. D. G.
,
Williams, K. P.
,
Holt, S. H.
,
Rojas, J. J. R.
,
Chatterjee, M.
,
Liu, B.
,
Silva, H.
,
Meisel, L.
,
Adato, A.
,
Filichkin, S. A.
,
Troggio, M.
,
Viola, R.
,
Ashman, T. - L.
,
Wang, H.
,
Dharmawardhana, P.
,
Elser, J.
,
Raja, R.
,
Priest, H. D.
,
Bryant, D. W.
,
Fox, S. E.
,
Givan, S. A.
,
Wilhelm, L. J.
,
Naithani, S.
,
Christoffels, A.
,
Salama, D. Y.
,
Carter, J.
,
Girona, E. L.
,
Zdepski, A.
,
Wang, W.
,
Kerstetter, R. A.
,
Schwab, W.
,
Korban, S. S.
,
Davik, J.
,
Monfort, A.
,
Denoyes-Rothan, B.
,
Arus, P.
,
Mittler, R.
,
Flinn, B.
,
Aharoni, A.
,
Bennetzen, J. L.
,
Salzberg, S. L.
,
Dickerman, A. W.
,
Velasco, R.
,
Borodovsky, M.
,
Veilleux, R. E.
, and
Folta, K. M.
,
“
The genome of woodland strawberry (
Fragaria vesca
)
”
,
Nat Genet
, vol. 43, pp. 109 - 116, 2011.
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V. Shulaev
,
Sargent, D. J.
,
Crowhurst, R. N.
,
Mockler, T. C.
,
Folkerts, O.
,
Delcher, A. L.
,
Jaiswal, P.
,
Mockaitis, K.
,
Liston, A.
,
Mane, S. P.
,
Burns, P.
,
Davis, T. M.
,
Slovin, J. P.
,
Bassil, N.
,
Hellens, R. P.
,
Evans, C.
,
Harkins, T.
,
Kodira, C.
,
Desany, B.
,
Crasta, O. R.
,
Jensen, R. V.
,
Allan, A. C.
,
Michael, T. P.
,
Setubal, J. C.
,
Celton, J. - M.
,
Rees, J. D. G.
,
Williams, K. P.
,
Holt, S. H.
,
Rojas, J. J. R.
,
Chatterjee, M.
,
Liu, B.
,
Silva, H.
,
Meisel, L.
,
Adato, A.
,
Filichkin, S. A.
,
Troggio, M.
,
Viola, R.
,
Ashman, T. - L.
,
Wang, H.
,
Dharmawardhana, P.
,
Elser, J.
,
Raja, R.
,
Priest, H. D.
,
Bryant, D. W.
,
Fox, S. E.
,
Givan, S. A.
,
Wilhelm, L. J.
,
Naithani, S.
,
Christoffels, A.
,
Salama, D. Y.
,
Carter, J.
,
Girona, E. L.
,
Zdepski, A.
,
Wang, W.
,
Kerstetter, R. A.
,
Schwab, W.
,
Korban, S. S.
,
Davik, J.
,
Monfort, A.
,
Denoyes-Rothan, B.
,
Arus, P.
,
Mittler, R.
,
Flinn, B.
,
Aharoni, A.
,
Bennetzen, J. L.
,
Salzberg, S. L.
,
Dickerman, A. W.
,
Velasco, R.
,
Borodovsky, M.
,
Veilleux, R. E.
, and
Folta, K. M.
,
“
The genome of woodland strawberry (
Fragaria vesca
)
”
,
Nat Genet
, vol. 43, pp. 109 - 116, 2011.
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R. L. Walls
,
Athreya, B.
,
Cooper, L.
,
Elser, J.
,
Gandolfo, M. A.
,
Jaiswal, P.
,
Mungall, C. J.
,
Preece, J.
,
Rensing, S.
,
Smith, B.
, and
Stevenson, D. W.
,
“
Ontologies as Integrative Tools for Plant Science
”
,
American Journal of Botany
, vol. 99, no. 8, pp. 1263-75, 2012.
PubMed
DOI
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C. N. Arighi
,
Carterette, B.
,
Cohen, B. K.
,
Krallinger, M.
,
Wilbur, J. W.
,
Fey, P.
,
Dodson, R.
,
Cooper, L.
,
Van Slyke, C. E.
,
Dahdul, W.
,
Mabee, P.
,
Li, D.
,
Harris, B.
,
Gillespie, M.
,
Jimenez, S.
,
Roberts, P.
,
Matthews, L.
,
Becker, K.
,
Drabkin, H.
,
Bello, S.
,
Licata, L.
,
Chatr-aryamontri, A.
,
Schaeffer, M. L.
,
Park, J.
,
Haendel, M.
,
Van Auken, K.
,
Li, Y.
,
Chan, J.
,
Muller, H. - M.
,
Cui, H.
,
Balhoff, J. P.
,
Chi-Yang Wu, J.
,
Lu, Z.
,
Wei, C. - H.
,
Tudor, C. O.
,
Raja, K.
,
Subramani, S.
,
Natarajan, J.
,
Cejuela, J. M.
,
Dubey, P.
, and
Wu, C.
,
“
An overview of the BioCreative 2012 Workshop Track III: interactive text mining task
”
,
Database
, vol. 2013, 2013.
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L. Cooper
,
Walls, R. L.
,
Elser, J.
,
Gandolfo, M. A.
,
Stevenson, D. W.
,
Smith, B.
,
Preece, J.
,
Athreya, B.
,
Mungall, C. J.
,
Rensing, S.
,
Hiss, M.
,
Lang, D.
,
Reski, R.
,
Berardini, T. Z.
,
Li, D.
,
Huala, E.
,
Schaeffer, M.
,
Menda, N.
,
Arnaud, E.
,
Shrestha, R.
,
Yamazaki, Y.
, and
Jaiswal, P.
,
“
The Plant Ontology as a Tool for Comparative Plant Anatomy and Genomic Analyses
”
,
Plant & Cell Physiology
, vol. 54, no. 2, pp. 1-23, 2013.
PubMed
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