Post-composing ontology terms for efficient phenotyping in plant breeding.

Naama Menda

Naama Menda Bryan J. Ellerbrock Christiano C. Simoes Srikanth Kumar Karaikal Christine Nyaga Mirella Flores-Gonzalez Isaak Y. Tecle David Lyon Afolabi Agbona Paterne A. Agre Prasad Peteti Violet Akech Amos Asiimwe Eglantine Fauvelle Karima Meghar Thierry Tran Dominique Dufour Laurel Cooper Marie-Angélique Laporte Elizabeth Arnaud Lukas A. Mueller Post-composing ontology terms for efficient phenotyping in plant breeding. 2025 2025 Database J. Biol. Databases Curation https://doi.org/10.1093/database/baaf020 db/journals/biodb/biodb2025.html#MendaESKNFTLAAPAAFMTDCL25 streams/journals/biodb

Elizabeth Arnaud Marie-Angélique Laporte Soonho Kim Céline Aubert Sabina Leonelli Berta Miro Laurel Cooper Pankaj Jaiswal Gideon Kruseman Rosemary Shrestha Pier Luigi Buttigieg Christopher J. Mungall Julian Pietragalla Afolabi Agbona Jacqueline Muliro Jeffrey Detras Vilma Hualla Abhishek Rathore Roma Rani Das Ibnou Dieng Guillaume Bauchet Naama Menda Cyril Pommier Felix Shaw David Lyon Leroy Mwanzia Henry Juarez Enrico Bonaiuti Brian Chiputwa Oluremi Olatunbosun Sandrine Auzoux Esther Dzalé Yeumo Lukas A. Mueller Kevin A. T. Silverstein Alexandra Lafargue Erick Antezana Medha Devare Brian King The Ontologies Community of Practice: A CGIAR Initiative for Big Data in Agrifood Systems. 100105 2020 1 Patterns 7 https://doi.org/10.1016/j.patter.2020.100105 https://www.wikidata.org/entity/Q102144743 db/journals/patterns/patterns1.html#ArnaudLKALMCJKS20

Lisa C. Harper Jacqueline D. Campbell Ethalinda K. S. Cannon Sook Jung Monica Poelchau Ramona L. Walls Carson M. Andorf Elizabeth Arnaud Tanya Z. Berardini Clayton L. Birkett Steven B. Cannon James D. Carson Bradford Condon Laurel Cooper Nathan A. Dunn Christine G. Elsik Andrew D. Farmer Stephen P. Ficklin David M. Grant Emily S. Grau Nic Herndon Zhi-Liang Hu Jodi L. Humann Pankaj Jaiswal Clément Jonquet Marie-Angélique Laporte Pierre Larmande Gerard R. Lazo Fiona McCarthy Naama Menda Christopher J. Mungall Monica C. Munoz-Torres Sushma Naithani Rex T. Nelson Daureen Nesdill Carissa A. Park James M. Reecy Leonore Reiser Lacey-Anne Sanderson Taner Z. Sen Margaret Staton Sabarinath Subramaniam Marcela Karey Tello-Ruiz Victor Unda Deepak R. Unni Liya Wang Doreen Ware Jill L. Wegrzyn Jason Williams 0003 Margaret Woodhouse Jing Yu 0002 Doreen Main AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture. bay088 2018 2018 Database J. Biol. Databases Curation https://doi.org/10.1093/database/bay088 https://www.wikidata.org/entity/Q56655129 db/journals/biodb/biodb2018.html#HarperCCJPWAABB18

Noé Fernández-Pozo Naama Menda Jeremy D. Edwards Surya Saha Isaak Y. Tecle Susan R. Strickler Aureliano Bombarely Thomas Fisher-York Anuradha Pujar Hartmut Foerster Aimin Yan Lukas A. Mueller The Sol Genomics Network (SGN) - from genotype to phenotype to breeding. 1036-1041 2015 43 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gku1195 https://www.wikidata.org/entity/Q35254307 db/journals/nar/nar43.html#Fernandez-PozoMESTSBFPFYM15

Isaak Y. Tecle Jeremy D. Edwards Naama Menda Chiedozie Egesi Ismail Y. Rabbi Peter Kulakow Robert Kawuki Jean-Luc Jannink Lukas A. Mueller solGS: a web-based tool for genomic selection. 398 2014 15 BMC Bioinform. https://doi.org/10.1186/s12859-014-0398-7 https://www.wikidata.org/entity/Q34728799 db/journals/bmcbi/bmcbi15.html#TecleEMERKKJM14

Anuradha Pujar Naama Menda Aureliano Bombarely Jeremy D. Edwards Susan Strickler Lukas A. Mueller From manual curation to visualization of gene families and networks across Solanaceae plant species. 2013 2013 Database J. Biol. Databases Curation https://doi.org/10.1093/database/bat028 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3655285/ https://www.wikidata.org/entity/Q36847723 db/journals/biodb/biodb2013.html#PujarMBESM13

Elizabeth Arnaud Laurel Cooper Rosemary Shrestha Naama Menda Rex T. Nelson Luca Matteis Milko Skofic Ruth Bastow Pankaj Jaiswal Lukas A. Mueller Graham McLaren Towards a Reference Plant Trait Ontology for Modeling Knowledge of Plant Traits and Phenotypes. 220-225 2012 KEOD conf/ic3k/2012keod db/conf/ic3k/keod2012.html#ArnaudCSMNMSBJMM12

Sook Jung Naama Menda Seth Redmond Robert M. Buels Maren Friesen Yuri R. Bendaña Lacey-Anne Sanderson Hilmar Lapp Taein Lee Bob MacCallum Kirstin E. Bett Scott Cain Dave Clements Lukas A. Mueller Dorrie Main The Chado Natural Diversity module: a new generic database schema for large-scale phenotyping and genotyping data. 2011 2011 Database J. Biol. Databases Curation https://doi.org/10.1093/database/bar051 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3225077/ https://www.wikidata.org/entity/Q34084427 db/journals/biodb/biodb2011.html#JungMRBFBSLLMBCCMM11

Aureliano Bombarely Naama Menda Isaak Y. Tecle Robert M. Buels Susan Strickler Thomas Fischer-York Anuradha Pujar Jonathan Leto Joseph Gosselin Lukas A. Mueller The Sol Genomics Network (solgenomics.net): growing tomatoes using Perl. 1149-1155 2011 39 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkq866 https://www.wikidata.org/entity/Q34456616 db/journals/nar/nar39.html#BombarelyMTBSFPLGM11

Isaak Y. Tecle Naama Menda Robert M. Buels Esther van der Knaap Lukas A. Mueller solQTL: a tool for QTL analysis, visualization and linking to genomes at SGN database. 525 2010 11 BMC Bioinform. https://doi.org/10.1186/1471-2105-11-525 https://www.wikidata.org/entity/Q33724735 db/journals/bmcbi/bmcbi11.html#TecleMBKM10

Lukas A. Mueller Adri A. Mills Beth Skwarecki Robert M. Buels Naama Menda Steven D. Tanksley The SGN comparative map viewer. 422-423 2008 24 Bioinform. 3 https://doi.org/10.1093/bioinformatics/btm597 https://www.wikidata.org/entity/Q48365102 db/journals/bioinformatics/bioinformatics24.html#MuellerMSBMT08

Afolabi Agbona Paterne A. Agre Violet Akech Carson M. Andorf Erick Antezana Elizabeth Arnaud Amos Asiimwe Céline Aubert Sandrine Auzoux Ruth Bastow Guillaume Bauchet Yuri R. Bendaña Tanya Z. Berardini Kirstin E. Bett Clayton L. Birkett Aureliano Bombarely Enrico Bonaiuti Robert M. Buels Pier Luigi Buttigieg Scott Cain Jacqueline D. Campbell Ethalinda K. S. Cannon Steven B. Cannon James D. Carson Brian Chiputwa Dave Clements Bradford Condon Laurel Cooper Roma Rani Das Jeffrey Detras Medha Devare Ibnou Dieng Dominique Dufour Nathan A. Dunn Jeremy D. Edwards Chiedozie Egesi Bryan J. Ellerbrock Christine G. Elsik Andrew D. Farmer Eglantine Fauvelle Noé Fernández-Pozo Stephen P. Ficklin Mirella Flores-Gonzalez Hartmut Foerster Maren Friesen Joseph Gosselin David M. Grant Emily S. Grau Lisa C. Harper Nic Herndon Zhi-Liang Hu Vilma Hualla Jodi L. Humann Pankaj Jaiswal Jean-Luc Jannink Clément Jonquet Henry Juarez Sook Jung Srikanth Kumar Karaikal Robert Kawuki Soonho Kim Brian King Esther van der Knaap Gideon Kruseman Peter Kulakow Alexandra Lafargue Marie-Angélique Laporte Hilmar Lapp Pierre Larmande Gerard R. Lazo Taein Lee Sabina Leonelli Jonathan Leto David Lyon Bob MacCallum Dorrie MainDoreen Main Luca Matteis Fiona McCarthy Graham McLaren Karima Meghar Adri A. Mills Berta Miro Lukas A. Mueller Jacqueline Muliro Chris MungallChristopher J. Mungall Monica C. Munoz-Torres Leroy Mwanzia Sushma Naithani Rex T. Nelson Daureen Nesdill Christine Nyaga Oluremi Olatunbosun Carissa A. Park Prasad Peteti Julian Pietragalla Monica Poelchau Cyril Pommier Anuradha Pujar Ismail Y. Rabbi Abhishek Rathore Seth Redmond James M. Reecy Leonore Reiser Surya Saha Lacey-Anne Sanderson Taner Z. Sen Felix Shaw Rosemary Shrestha Kevin A. T. Silverstein Christiano C. Simoes Milko Skofic Beth Skwarecki Margaret Staton Susan StricklerSusan R. Strickler Sabarinath Subramaniam Steven D. Tanksley Isaak Y. Tecle Marcela K. Tello-RuizMarcela Karey Tello-Ruiz Thierry Tran Victor Unda Deepak R. Unni Ramona L. Walls Liya Wang Doreen Ware Jill L. Wegrzyn Jason Williams 0003 Margaret Woodhouse Aimin Yan Esther Dzalé Yeumo Thomas L. YorkThomas Fischer-YorkThomas Fisher-York Jing Yu 0002