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Found 37 results
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Author
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Cooper, Laurel
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2018
L. Harper
,
Campbell, J.
,
Cannon, E. K. S.
,
Jung, S.
,
Poelchau, M.
,
Walls, R.
,
Andorf, C.
,
Arnaud, E.
,
Berardini, T. Z.
,
Birkett, C.
,
Cannon, S.
,
Carson, J.
,
Condon, B.
,
Cooper, L.
,
Dunn, N.
,
Elsik, C. G.
,
Farmer, A.
,
Ficklin, S. P.
,
Grant, D.
,
Grau, E.
,
Herndon, N.
,
Hu, Z. - L.
,
Humann, J.
,
Jaiswal, P.
,
Jonquet, C.
,
Laporte, M. - A.
,
Larmande, P.
,
Lazo, G.
,
McCarthy, F.
,
Menda, N.
,
Mungall, C. J.
,
Munoz-Torres, M. C.
,
Naithani, S.
,
Nelson, R.
,
Nesdill, D.
,
Park, C.
,
Reecy, J.
,
Reiser, L.
,
Sanderson, L. - A.
,
Sen, T. Z.
,
Staton, M.
,
Subramaniam, S.
,
Tello-Ruiz, M. K.
,
Unda, V.
,
Unni, D.
,
Wang, L.
,
Ware, D.
,
Wegrzyn, J.
,
Williams, J.
,
Woodhouse, M.
,
Yu, J.
, and
Main, D.
,
“
AgBioData Consortium Recommendations for Sustainable Genomics and Genetics Databases for Agriculture
”
,
Database
, vol. 2018, no. 1, 2018.
L. Endara
,
Burleigh, G.
,
Cooper, L.
,
Jaiswal, P.
,
Laporte, M. - A.
, and
Cui, H.
,
“
A Natural Language Processing Pipeline to extract phenotypic data from formal taxonomic descriptions with a Focus on Flagellate Plants
”
, in
ICBO 2018
, Corvallis, OR, 2018.
A. Meier
,
Laporte, M. - A.
,
Elser, J.
,
Cooper, L.
,
Preece, J.
,
Jaiswal, P.
, and
Poelen, J.
,
“
OOPS: The Ontology of Plant Stress, A semi-automated standardization methodology
”
, in
ICBO 2018
, Corvallis, OR, 2018.
L. Cooper
,
Meier, A.
,
Laporte, M. - A.
,
Elser, J. L.
,
Mungall, C.
,
Sinn, B. T.
,
Cavaliere, D.
,
Dunn, N. A.
,
Smith, B.
,
Qu, B.
,
Preece, J.
,
Zhang, E.
,
Todorovic, S.
,
Gkoutos, G.
,
Doonan, J.
,
Stevenson, D. W.
,
Arnaud, E.
, and
Jaiswal, P.
,
“
The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics
”
,
Nucleic Acids Research
, 2018.
L. Cooper
and
Jaiswal, P.
,
“
The Planteome Project- Reference Ontologies for Data Integration
”
. 2018.
2017
E. D. Yeumo
,
Alaux, M.
,
Arnaud, E.
,
Aubin, S.
,
Baumann, U.
,
Buche, P.
,
Cooper, L.
,
Ćwiek-Kupczyńska, H.
,
Davey, R. P.
,
Fulss, R. A.
,
Jonquet, C.
,
Laporte, M. - A.
,
Larmande, P.
,
Pommier, C.
,
Protonotarios, V.
,
Reverte, C.
,
Shrestha, R.
,
Subirats, I.
,
Venkatesan, A.
,
Whan, A.
, and
Quesneville, H.
,
“
Developing data interoperability using standards: A wheat community use case
”
,
F1000 Research
, vol. 6, 2017.
2016
A. Meier
,
Cooper, L.
,
Laporte, M. A. -
,
Elser, J.
, and
Jaiswal, P.
,
“
Annotating germplasm to Planteome reference ontologies
”
, in
ICBO-BioCreative 2016 Food, Nutrition, Health and Environment for the 9 Billion
, Corvallis, Oregon, USA, 2016.
M. - A. Laporte
,
Valette, Léo
,
Cooper, L.
,
Mungall, C.
,
Meier, A.
,
Jaiswal, P.
, and
Arnaud, E.
,
“
Comparison of ontology mapping techniques to map plant trait ontologies
”
, in
ICBO-BioCreative 2016 Food, Nutrition, Health and Environment for the 9 Billion
, Corvallis, Oregon, USA, 2016.
P. Jaiswal
,
Cooper, L.
,
Elser, J.
,
Meier, A.
, and
et al,
“
Planteome: A Resource for Common Reference Ontologies and Applications for Plant Biology
”
. 2016.
L. Cooper
,
Meier, A.
,
Elser, J. L.
,
Laporte, M. - A.
,
Preece, J.
,
Carbon, S.
,
Xu, X.
,
Kitchen, R. S.
,
Qu, B.
,
Zhang, E.
,
Todorovic, S.
,
Smith, B.
,
Gkoutos, G.
,
Doonan, J.
,
Stevenson, D. W.
,
Arnaud, E.
,
Mungall, C.
, and
Jaiswal, P.
,
“
The Planteome Project
”
, in
ICBO-BioCreative 2016 Food, Nutrition, Health and Environment for the 9 Billion
, Corvallis, OR, 2016.
2015
S. Lennon
,
Cooper, L.
,
Jaiswal, P.
,
Ougham, H.
, and
Stevenson, D. W.
,
“
New Phytologist and the Plant Ontology: Working Together to Enhance Journal Content
”
. 2015.
A. Oellrich
,
Walls, R. L.
,
Cannon, E. K. S.
,
Cannon, S. B.
,
Cooper, L.
,
Gardiner, J.
,
Gkoutos, G. V.
,
Harper, L.
,
He, M.
,
Hoehndorf, R.
,
Jaiswal, P.
,
Kalberer, S. R.
,
Lloyd, J. P.
,
Meinke, D.
,
Menda, N.
,
Moore, L.
,
Nelson, R. T.
,
Pujar, A.
,
Lawrence, C. J.
, and
Huala, E.
,
“
An ontology approach to comparative phenomics in plants.
”
,
Plant methods
, vol. 11, p. 10, 2015.
L. Harper
,
Oellrich, A.
,
Walls, R.
,
Cannon, E.
,
Cannon, S. B.
,
Cooper, L.
,
Gardiner, J.
,
Gkoutos, G.
,
He, M.
,
Hoehndorf, R.
, and
et al,
“
An Ontology Approach to Comparative Phenomics in Plants
”
. 2015.
L. Cooper
,
“
Planteome Overview- DivSeek 2015
”
. 2015.
2014
N. Lingutla
,
Preece, J.
,
Todorovic, S.
,
Cooper, L.
,
Moore, L.
, and
Jaiswal, P.
,
“
AISO: Annotation of Image Segments with Ontologies
”
,
Journal of Biomedical Semantics
, vol. 5, p. 50, 2014.
L. Cooper
,
“
Common Reference Ontologies for Plant Biology (cROP): A Platform for Integrative Plant Genomics
”
. San Diego, CA, 2014.
P. Jaiswal
,
“
Plant Environmental Condition Ontology (EO)
”
. Phenotype Research Coordination Network, Biosphere2, Tucson, AZ, 2014.
L. Cooper
,
“
The Plant Ontology and the Trait Ontology: Resources for Plant Genomics
”
. Montpellier, France, 2014.
2013
E. Huala
,
“
Development of a Unified Phenotype Dataset for Plants
”
. San Diego, CA, 2013.
L. Cooper
,
“
Development of the Reference Plant Trait Ontology: A Unified Resource for Plant Phenomics
”
. San Diego, CA, 2013.
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.
B. Atkinson
,
“
Plant Ontology, a controlled and structured plant vocabulary for all botanical disciplines
”
,
Botany 2013
. New Orleans, LA, 2013.
L. Cooper
and
Walls, R. L.
,
“
The Plant Ontology as a Tool for Comparative Plant Anatomy and Genomic Analyses
”
,
Plant & Cell Physiology
, vol. 54, pp. 1-23, 2013.
P. Jaiswal
,
“
A Resource for a Common Reference Ontology for Plants
”
,
Plant and Animal Genome XXI Meeting
. San Diego, CA, 2013.
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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