The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics
Cooper, Laurel, Meier, Austin, Laporte, Marie-Angélique, Elser, Justin L, Mungall, Chris, Sinn, Brandon T, Cavaliere, Dario, Carbon, Seth, Dunn, Nathan A, Smith, Barry, Qu, Botong, Preece, Justin, Zhang, Eugene, Todorovic, Sinisa, Gkoutos, Georgios, Doonan, John H, Stevenson, Dennis W, Arnaud, Elizabeth, Jaiswal, Pankaj
Published in Nucleic acids research (04.01.2018)
Published in Nucleic acids research (04.01.2018)
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Journal Article
The Plant Ontology Facilitates Comparisons of Plant Development Stages Across Species
Walls, Ramona L, Cooper, Laurel, Elser, Justin, Gandolfo, Maria Alejandra, Mungall, Christopher J, Smith, Barry, Stevenson, Dennis W, Jaiswal, Pankaj
Published in Frontiers in plant science (04.06.2019)
Published in Frontiers in plant science (04.06.2019)
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Journal Article
Ontologies as integrative tools for plant science
Walls, Ramona L., Athreya, Balaji, Cooper, Laurel, Elser, Justin, Gandolfo, Maria A., Jaiswal, Pankaj, Mungall, Christopher J., Preece, Justin, Rensing, Stefan, Smith, Barry, Stevenson, Dennis W.
Published in American journal of botany (01.08.2012)
Published in American journal of botany (01.08.2012)
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Journal Article
Data sharing and ontology use among agricultural genetics, genomics, and breeding databases and resources of the Agbiodata Consortium
Clarke, Jennifer L, Cooper, Laurel D, Poelchau, Monica F, Berardini, Tanya Z, Elser, Justin, Farmer, Andrew D, Ficklin, Stephen, Kumari, Sunita, Laporte, Marie-Angélique, Nelson, Rex T, Sadohara, Rie, Selby, Peter, Thessen, Anne E, Whitehead, Brandon, Sen, Taner Z
Published in Database : the journal of biological databases and curation (15.11.2023)
Published in Database : the journal of biological databases and curation (15.11.2023)
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Journal Article
Using knowledge graphs to infer gene expression in plants
Thessen, Anne E, Cooper, Laurel, Swetnam, Tyson L, Hegde, Harshad, Reese, Justin, Elser, Justin, Jaiswal, Pankaj
Published in Frontiers in artificial intelligence (13.06.2023)
Published in Frontiers in artificial intelligence (13.06.2023)
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Journal Article
Sequencing of 15 622 gene‐bearing BACs clarifies the gene‐dense regions of the barley genome
Muñoz‐Amatriaín, María, Lonardi, Stefano, Luo, MingCheng, Madishetty, Kavitha, Svensson, Jan T., Moscou, Matthew J., Wanamaker, Steve, Jiang, Tao, Kleinhofs, Andris, Muehlbauer, Gary J., Wise, Roger P., Stein, Nils, Ma, Yaqin, Rodriguez, Edmundo, Kudrna, Dave, Bhat, Prasanna R., Chao, Shiaoman, Condamine, Pascal, Heinen, Shane, Resnik, Josh, Wing, Rod, Witt, Heather N., Alpert, Matthew, Beccuti, Marco, Bozdag, Serdar, Cordero, Francesca, Mirebrahim, Hamid, Ounit, Rachid, Wu, Yonghui, You, Frank, Zheng, Jie, Simková, Hana, Dolezel, Jaroslav, Grimwood, Jane, Schmutz, Jeremy, Duma, Denisa, Altschmied, Lothar, Blake, Tom, Bregitzer, Phil, Cooper, Laurel, Dilbirligi, Muharrem, Falk, Anders, Feiz, Leila, Graner, Andreas, Gustafson, Perry, Hayes, Patrick M., Lemaux, Peggy, Mammadov, Jafar, Close, Timothy J.
Published in The Plant journal : for cell and molecular biology (01.10.2015)
Published in The Plant journal : for cell and molecular biology (01.10.2015)
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Journal Article
Environmental Resilience Technology: Sustainable Solutions Using Value-Added Analytics in a Changing World
Stavros, E. Natasha, Gezon, Caroline, St. Denis, Lise, Iglesias, Virginia, Zapata, Christina, Byrne, Michael, Cooper, Laurel, Cook, Maxwell, Doyle, Ethan, Stephens, Jilmarie, Tapia, Mario, Tuff, Ty, Thomas, Evan, Maxted, S. J., Sen, Rana, Balch, Jennifer K.
Published in Applied sciences (01.10.2023)
Published in Applied sciences (01.10.2023)
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Journal Article
Emerging semantics to link phenotype and environment
Thessen, Anne E, Bunker, Daniel E, Buttigieg, Pier Luigi, Cooper, Laurel D, Dahdul, Wasila M, Domisch, Sami, Franz, Nico M, Jaiswal, Pankaj, Lawrence-Dill, Carolyn J, Midford, Peter E, Mungall, Christopher J, Ramírez, Martín J, Specht, Chelsea D, Vogt, Lars, Vos, Rutger Aldo, Walls, Ramona L, White, Jeffrey W, Zhang, Guanyang, Deans, Andrew R, Huala, Eva, Lewis, Suzanna E, Mabee, Paula M
Published in PeerJ (San Francisco, CA) (14.12.2015)
Published in PeerJ (San Francisco, CA) (14.12.2015)
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Journal Article
Genes affecting novel seed constituents in Limnanthes alba Benth: transcriptome analysis of developing embryos and a new genetic map of meadowfoam
Slabaugh, Mary B, Cooper, Laurel D, Kishore, Venkata K, Knapp, Steven J, Kling, Jennifer G
Published in PeerJ (San Francisco, CA) (19.05.2015)
Published in PeerJ (San Francisco, CA) (19.05.2015)
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Journal Article
Developing data interoperability using standards: A wheat community use case
Dzale Yeumo, Esther, Alaux, Michael, Arnaud, Elizabeth, Aubin, Sophie, Baumann, Ute, Buche, Patrice, Cooper, Laurel, Ćwiek-Kupczyńska, Hanna, Davey, Robert P., Fulss, Richard Allan, Jonquet, Clement, Laporte, Marie-Angélique, Larmande, Pierre, Pommier, Cyril, Protonotarios, Vassilis, Reverte, Carmen, Shrestha, Rosemary, Subirats, Imma, Venkatesan, Aravind, Whan, Alex, Quesneville, Hadi
Published in F1000 research (2017)
Published in F1000 research (2017)
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Journal Article
Developing data interoperability using standards: A wheat community use case [version 1; peer review: 1 approved]
Dzale Yeumo, Esther, Alaux, Michael, Arnaud, Elizabeth, Aubin, Sophie, Baumann, Ute, Buche, Patrice, Cooper, Laurel, Ćwiek-Kupczyńska, Hanna, Davey, Robert P, Fulss, Richard Allan, Jonquet, Clement, Laporte, Marie-Angélique, Larmande, Pierre, Pommier, Cyril, Protonotarios, Vassilis, Reverte, Carmen, Shrestha, Rosemary, Subirats, Imma, Venkatesan, Aravind, Whan, Alex, Quesneville, Hadi
Published in F1000 research (2017)
Published in F1000 research (2017)
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Journal Article
The Gene Ontology knowledgebase in 2023
Aleksander, Suzi A, Balhoff, James, Carbon, Seth, Cherry, J Michael, Drabkin, Harold J, Ebert, Dustin, Harris, Nomi L, Moxon, Sierra, Mungall, Christopher J, Sternberg, Paul W, Thomas, Paul D, Quaglia, Federica, Giglio, Michelle, Antonazzo, Giulia, Attrill, Helen, dos Santos, Gil, Tabone, Christopher J, Zhou, Pinglei, Ahmed, Saadullah H, Asanitthong, Praoparn, Erdol, Meltem N, Gage, Matthew C, Ali Kadhum, Mohamed, Li, Kan Yan Chloe, Michalak, Aleksandra, Pritazahra, Armalya, Saverimuttu, Shirin C C, Su, Renzhi, Thurlow, Kate E, Lovering, Ruth C, Logie, Colin, Oliferenko, Snezhana, Blake, Judith, Corbani, Lori, Ni, Li, Sitnikov, Dmitry, Smith, Cynthia, Seager, James, Cooper, Laurel, Jaiswal, Pankaj, Naithani, Sushma, Lera-Ramirez, Manuel, Rutherford, Kim, Wood, Valerie, De Pons, Jeffrey L, Dwinell, Melinda R, Hayman, G Thomas, Kwitek, Anne E, Laulederkind, Stanley J F, Tutaj, Marek A, Vedi, Mahima, Wang, Shur-Jen, D’Eustachio, Peter, Axelsen, Kristian, Aleksander, Suzi A, Engel, Stacia R, Karra, Kalpana, Miyasato, Stuart R, Nash, Robert S, Weng, Shuai, Wong, Edith D, Bakker, Erika, Berardini, Tanya Z, Reiser, Leonore, Auchincloss, Andrea, Argoud-Puy, Ghislaine, Blatter, Marie-Claude, Boutet, Emmanuel, Breuza, Lionel, Casals-Casas, Cristina, Gruaz-Gumowski, Nadine, Hulo, Chantal, Jungo, Florence, Le Mercier, Philippe, Masson, Patrick, Pedruzzi, Ivo, Pourcel, Lucille, Poux, Sylvain, Rivoire, Catherine, Sundaram, Shyamala, Bowler-Barnett, Emily, Denny, Paul, Ignatchenko, Alexandr, Lock, Antonia, Magrane, Michele, Martin, Maria J, Raposo, Pedro, Speretta, Elena, Tyagi, Nidhi, Warner, Kate, Zaru, Rossana, Diehl, Alexander D, Lee, Raymond, Chan, Juancarlos, Zarowiecki, Magdalena, Fisher, Malcolm, Ponferrada, Virgilio, Zorn, Aaron, Ramachandran, Sridhar, Ruzicka, Leyla
Published in Genetics (Austin) (04.05.2023)
Published in Genetics (Austin) (04.05.2023)
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Journal Article
Planteome 2024 Update: Reference Ontologies and Knowledgebase for Plant Biology
Cooper, Laurel, Elser, Justin, Laporte, Marie-Angelique, Arnaud, Elizabeth, Jaiswal, Pankaj
Published in Nucleic acids research (05.01.2024)
Published in Nucleic acids research (05.01.2024)
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Journal Article
The Gene Ontology resource: enriching a GOld mine
Carbon, Seth, Good, Benjamin M, Harris, Nomi L, Basu, Siddartha, Chisholm, Rex L, Dodson, Robert J, Hartline, Eric, Thomas, Paul D, Ebert, Dustin, Muruganujan, Anushya, Huang, Xiaosong, LaBonte, Sandra A, Siegele, Deborah A, Antonazzo, Giulia, Attrill, Helen, Garapati, Phani, Marygold, Steven J, Strelets, Victor B, Garmiri, Penelope, Acencio, Marcio L, Kuiper, Martin, Saverimuttu, Shirin C C, Pinheiro, Sandra M, Gunn, Heather, Thurlow, Katherine E, Nadendla, Suvarna, Jackson, Rebecca, Paneerselvam, Kalpana, Perfetto, Livia, Porras, Pablo, Orchard, Sandra, Shrivastava, Anjali, Finn, Robert Daniel, Rawlings, Neil David, Richardson, Lorna, Blake, Judith A, Christie, Karen R, Hill, David P, Sitnikov, Dmitry M, Harris, Midori A, Wood, Valerie, Bähler, Jürg, De Pons, Jeffery L, Dwinell, Melinda R, Kaldunski, Mary L, Kwitek, Anne E, Laulederkind, Stanley J F, Plasterer, Cody, Vedi, Mahima, D’Eustachio, Peter, Matthews, Lisa, Alexander, Michael J, Engel, Stacia R, Gondwe, Felix, Karra, Kalpana, Miyasato, Stuart R, Nash, Robert S, Simison, Matt, Skrzypek, Marek S, Weng, Shuai, Reiser, Leonore, Huala, Eva, Argoud-Puy, Ghislaine, Blatter, Marie-Claude, Boutet, Emmanuel, Bowler, Emily, Bridge, Alan, Britto, Ramona, Bye-A-Jee, Hema, Casas, Cristina Casals, Denny, Paul, Famiglietti, Maria Livia, Georghiou, George, Gos, Arnaud, Hulo, Chantal, Ignatchenko, Alexandr, Jungo, Florence, Lieberherr, Damien, Lock, Antonia, Natale, Darren A, Hyka-Nouspikel, Nevila, Pedruzzi, Ivo, Pourcel, Lucille, Poux, Sylvain, Warner, Kate, Zaru, Rossana, Wu, Cathy H, Diehl, Alexander D, Grove, Christian, Lee, Raymond Y N, Muller, Hans-Michael, Raciti, Daniela, Van Auken, Kimberly, Sternberg, Paul W, Berriman, Matthew, Howe, Kevin, Gao, Sibyl, Wright, Adam, Stein, Lincoln, Toro, Sabrina
Published in Nucleic acids research (08.01.2021)
Published in Nucleic acids research (08.01.2021)
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Journal Article
Finding our way through phenotypes
Deans, Andrew R, Lewis, Suzanna E, Huala, Eva, Anzaldo, Salvatore S, Ashburner, Michael, Balhoff, James P, Blackburn, David C, Blake, Judith A, Burleigh, J Gordon, Chanet, Bruno, Cooper, Laurel D, Courtot, Mélanie, Csösz, Sándor, Cui, Hong, Dahdul, Wasila, Das, Sandip, Dececchi, T Alexander, Dettai, Agnes, Diogo, Rui, Druzinsky, Robert E, Dumontier, Michel, Franz, Nico M, Friedrich, Frank, Gkoutos, George V, Haendel, Melissa, Harmon, Luke J, Hayamizu, Terry F, He, Yongqun, Hines, Heather M, Ibrahim, Nizar, Jackson, Laura M, Jaiswal, Pankaj, James-Zorn, Christina, Köhler, Sebastian, Lecointre, Guillaume, Lapp, Hilmar, Lawrence, Carolyn J, Le Novère, Nicolas, Lundberg, John G, Macklin, James, Mast, Austin R, Midford, Peter E, Mikó, István, Mungall, Christopher J, Oellrich, Anika, Osumi-Sutherland, David, Parkinson, Helen, Ramírez, Martín J, Richter, Stefan, Robinson, Peter N, Ruttenberg, Alan, Schulz, Katja S, Segerdell, Erik, Seltmann, Katja C, Sharkey, Michael J, Smith, Aaron D, Smith, Barry, Specht, Chelsea D, Squires, R Burke, Thacker, Robert W, Thessen, Anne, Fernandez-Triana, Jose, Vihinen, Mauno, Vize, Peter D, Vogt, Lars, Wall, Christine E, Walls, Ramona L, Westerfeld, Monte, Wharton, Robert A, Wirkner, Christian S, Woolley, James B, Yoder, Matthew J, Zorn, Aaron M, Mabee, Paula
Published in PLoS biology (01.01.2015)
Published in PLoS biology (01.01.2015)
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Journal Article
GrainGenes: a data-rich repository for small grains genetics and genomics
Yao, Eric, Blake, Victoria C, Cooper, Laurel, Wight, Charlene P, Michel, Steve, Cagirici, H Busra, Lazo, Gerard R, Birkett, Clay L, Waring, David J, Jannink, Jean-Luc, Holmes, Ian, Waters, Amanda J, Eickholt, David P, Sen, Taner Z
Published in Database : the journal of biological databases and curation (25.05.2022)
Published in Database : the journal of biological databases and curation (25.05.2022)
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Journal Article
The Ontologies Community of Practice: A CGIAR Initiative for Big Data in Agrifood Systems
Arnaud, Elizabeth, Laporte, Marie-Angélique, Kim, Soonho, Aubert, Céline, Leonelli, Sabina, Miro, Berta, Cooper, Laurel, Jaiswal, Pankaj, Kruseman, Gideon, Shrestha, Rosemary, Buttigieg, Pier Luigi, Mungall, Christopher J., Pietragalla, Julian, Agbona, Afolabi, Muliro, Jacqueline, Detras, Jeffrey, Hualla, Vilma, Rathore, Abhishek, Das, Roma Rani, Dieng, Ibnou, Bauchet, Guillaume, Menda, Naama, Pommier, Cyril, Shaw, Felix, Lyon, David, Mwanzia, Leroy, Juarez, Henry, Bonaiuti, Enrico, Chiputwa, Brian, Obileye, Olatunbosun, Auzoux, Sandrine, Yeumo, Esther Dzalé, Mueller, Lukas A., Silverstein, Kevin, Lafargue, Alexandra, Antezana, Erick, Devare, Medha, King, Brian
Published in Gene Expression Patterns (09.10.2020)
Published in Gene Expression Patterns (09.10.2020)
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Journal Article
AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture
Harper, Lisa, Campbell, Jacqueline, Cannon, Ethalinda K S, Jung, Sook, Poelchau, Monica, Walls, Ramona, Andorf, Carson, Arnaud, Elizabeth, Berardini, Tanya Z, Birkett, Clayton, Cannon, Steve, Carson, James, Condon, Bradford, Cooper, Laurel, Dunn, Nathan, Elsik, Christine G, Farmer, Andrew, Ficklin, Stephen P, Grant, David, Grau, Emily, Herndon, Nic, Hu, Zhi-Liang, Humann, Jodi, Jaiswal, Pankaj, Jonquet, Clement, Laporte, Marie-Angélique, Larmande, Pierre, Lazo, Gerard, McCarthy, Fiona, Menda, Naama, Mungall, Christopher J, Munoz-Torres, Monica C, Naithani, Sushma, Nelson, Rex, Nesdill, Daureen, Park, Carissa, Reecy, James, Reiser, Leonore, Sanderson, Lacey-Anne, Sen, Taner Z, Staton, Margaret, Subramaniam, Sabarinath, Tello-Ruiz, Marcela Karey, Unda, Victor, Unni, Deepak, Wang, Liya, Ware, Doreen, Wegrzyn, Jill, Williams, Jason, Woodhouse, Margaret, Yu, Jing, Main, Doreen
Published in Database (Weston) (01.01.2018)
Published in Database (Weston) (01.01.2018)
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Journal Article