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2020 – today
- 2020
[c18]Laurel Cooper, Marie-Angélique Laporte, Justin Elser, Victoria Carollo Blake, Taner Z. Sen, Chris Mungall, Elizabeth Arnaud, Pankaj Jaiswal:
The Plant Trait Ontology Links Wheat Traits for Crop Improvement and Genomics (short paper). ICBO/ODLS 2020: 1-2
2010 – 2019
- 2019
- [j18]Sushma Naithani, Parul Gupta, Justin Preece, Priyanka Garg, Valerie Fraser
, Lillian K. Padgitt-Cobb, Matthew Martin, Kelly Vining, Pankaj Jaiswal:
Involving community in genes and pathway curation. Database J. Biol. Databases Curation 2019: bay146 (2019) - [j17]Parul Gupta, Sumedha Chauhan, Pankaj Jaiswal:
Classification of Smart City Research - a Descriptive Literature Review and Future Research Agenda. Inf. Syst. Frontiers 21(3): 661-685 (2019) - [c17]Amit Gupta, Weijia Xu, Pankaj Jaiswal, Crispin Taylor, Jennifer Regala:
Extracting Domain Information using Deep Learning. PEARC 2019: 67:1-67:7 - 2018
- [j16]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, Steve Cannon, James Carson, Bradford Condon, Laurel Cooper, Nathan A. Dunn, Christine G. Elsik, Andrew Farmer, Stephen P. Ficklin, David 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, Margaret Woodhouse, Jing Yu, Doreen Main:
AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture. Database J. Biol. Databases Curation 2018: bay088 (2018) - [j15]Laurel Cooper, Austin Meier, Marie-Angélique Laporte, Justin Elser, Chris Mungall, Brandon T. Sinn, Dario Cavaliere, Seth Carbon, Nathan A. Dunn, Barry Smith, Botong Qu, Justin Preece, Eugene Zhang, Sinisa Todorovic, Georgios V. Gkoutos, John H. Doonan, Dennis W. Stevenson, Elizabeth Arnaud, Pankaj Jaiswal:
The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics. Nucleic Acids Res. 46(Database-Issue): D1168-D1180 (2018) - [j14]Marcela K. Tello-Ruiz, Sushma Naithani, Joshua C. Stein, Parul Gupta, Michael Campbell, Andrew Olson, Sharon Wei, Justin Preece, Matthew J. Geniza, Yinping Jiao, Young Koung Lee, Bo Wang, Joseph Mulvaney, Kapeel Chougule, Justin Elser, Noor Al-Bader, Sunita Kumari, James Thomason, Vivek Kumar, Daniel M. Bolser, Guy Naamati, Electra Tapanari, Nuno A. Fonseca, Laura Huerta, Haider Iqbal, Maria Keays, Alfonso Muñoz-Pomer Fuentes, Y. Amy Tang, Antonio Fabregat, Peter D'Eustachio, Joel Weiser, Lincoln D. Stein, Robert Petryszak, Irene Papatheodorou, Paul J. Kersey, Patti Lockhart, Crispin Taylor, Pankaj Jaiswal, Doreen Ware:
Gramene 2018: unifying comparative genomics and pathway resources for plant research. Nucleic Acids Res. 46(Database-Issue): D1181-D1189 (2018) - [j13]Irene Papatheodorou, Nuno A. Fonseca, Maria Keays, Y. Amy Tang, Elisabet Barrera, Wojciech Bazant, Melissa L. Burke, Anja Füllgrabe, Alfonso Muñoz-Pomer Fuentes, Nancy George, Laura Huerta, Satu Koskinen, Suhaib Mohammed, Matthew J. Geniza, Justin Preece, Pankaj Jaiswal, Andrew Jarnuczak, Wolfgang Huber, Oliver Stegle, Juan Antonio Vizcaíno, Alvis Brazma, Robert Petryszak:
Expression Atlas: gene and protein expression across multiple studies and organisms. Nucleic Acids Res. 46(Database-Issue): D246-D251 (2018) - [c16]Lorena Endara, J. Gordon Burleigh, Laurel Cooper, Pankaj Jaiswal, Marie-Angélique Laporte, Hong Cui:
A Natural Language Processing Pipeline to Extract Phenotypic Data from Formal Taxonomic Descriptions with a Focus on Flagellate Plants. ICBO 2018 - [c15]Amit Gupta, Weijia Xu, Pankaj Jaiswal, Crispin Taylor, Jennifer Regala:
Domain Informational Vocabulary Extraction Experiences with Publication Pipeline Integration and Ontology Curation. ICBO 2018 - [c14]Austin Meier, Marie-Angélique Laporte, Justin Elser, Laurel Cooper, Justin Preece, Pankaj Jaiswal, Jorrit H. Poelen:
OOPS: The Ontology of Plant Stress, A Semi-Automated Standardization Methodology. ICBO 2018 - [c13]Dimitrios Trigkakis, Justin Preece, Austin Meier, Justin Elser, Kristian Kvilekval, Dmitry Fedorov, B. S. Manjunath, Pankaj Jaiswal, Sinisa Todorovic:
Planteome & BisQue: Automating Image Annotation with Ontologies using Deep-Learning Networks. ICBO 2018 - [p1]Ian Braun, James P. Balhoff, Tanya Z. Berardini, Laurel Cooper, Georgios V. Gkoutos, Lisa C. Harper, Eva Huala, Pankaj Jaiswal, Toni Kazic, Hilmar Lapp, James A. Macklin, Chelsea D. Specht, Todd J. Vision, Ramona L. Walls, Carolyn J. Lawrence-Dill:
'Computable' Phenotypes Enable Comparative and Predictive Phenomics Among Plant Species and Across Domains of Life. Application of Semantic Technology in Biodiversity Science 2018: 187-205 - [e2]Pankaj Jaiswal, Laurel Cooper, Melissa A. Haendel, Christopher J. Mungall:
Proceedings of the 9th International Conference on Biological Ontology (ICBO 2018), Corvallis, Oregon, USA, August 7-10, 2018. CEUR Workshop Proceedings 2285, CEUR-WS.org 2018 [contents] - 2017
- [j12]Sushma Naithani, Justin Preece, Peter D'Eustachio, Parul Gupta, Vindhya Amarasinghe, Palitha Dharmawardhana, Guanming Wu, Antonio Fabregat, Justin Elser, Joel Weiser, Maria Keays, Alfonso Muñoz-Pomer Fuentes, Robert Petryszak, Lincoln D. Stein, Doreen Ware, Pankaj Jaiswal:
Plant Reactome: a resource for plant pathways and comparative analysis. Nucleic Acids Res. 45(Database-Issue): D1029-D1039 (2017) - [c12]Botong Qu, Prashant Kumar, Eugene Zhang, Pankaj Jaiswal, Laurel Cooper, Justin Elser, Yue Zhang:
Interactive design and visualization of N-ary relationships. SIGGRAPH Asia Symposium on Visualization 2017: 15:1-15:8 - 2016
- [j11]Robert Petryszak, Maria Keays, Y. Amy Tang, Nuno A. Fonseca, Elisabet Barrera, Tony Burdett, Anja Füllgrabe, Alfonso Muñoz-Pomer Fuentes, Simon Jupp, Satu Koskinen, Oliver Mannion, Laura Huerta, Karine Megy, Catherine Snow, Eleanor Williams, Mitra Barzine, Emma Hastings, Hendrik Weisser, James C. Wright, Pankaj Jaiswal, Wolfgang Huber, Jyoti Choudhary, Helen E. Parkinson, Alvis Brazma:
Expression Atlas update - an integrated database of gene and protein expression in humans, animals and plants. Nucleic Acids Res. 44(Database-Issue): 746-752 (2016) - [j10]Marcela K. Tello-Ruiz, Joshua C. Stein, Sharon Wei, Justin Preece, Andrew Olson, Sushma Naithani, Vindhya Amarasinghe, Palitha Dharmawardhana, Yinping Jiao, Joseph Mulvaney, Sunita Kumari, Kapeel Chougule, Justin Elser, Bo Wang, James Thomason, Daniel M. Bolser, Arnaud Kerhornou, Brandon Walts, Nuno A. Fonseca, Laura Huerta, Maria Keays, Y. Amy Tang, Helen E. Parkinson, Antonio Fabregat, Sheldon J. McKay, Joel Weiser, Peter D'Eustachio, Lincoln Stein, Robert Petryszak, Paul J. Kersey, Pankaj Jaiswal, Doreen Ware:
Gramene 2016: comparative plant genomics and pathway resources. Nucleic Acids Res. 44(Database-Issue): 1133-1140 (2016) - [c11]Laurel Cooper, Austin Meier, Justin Elser, Justin Preece, Xu Xu, Ryan Kitchen, Botong Qu, Eugene Zhang, Sinisa Todorovic, Pankaj Jaiswal, Marie-Angélique Laporte, Elizabeth Arnaud, Seth Carbon, Chris Mungall, Barry Smith, Georgios V. Gkoutos, John H. Doonan:
The Planteome Project. ICBO/BioCreative 2016 - [c10]Marie-Angélique Laporte, Léo Valette, Laurel Cooper, Chris Mungall, Austin Meier, Pankaj Jaiswal, Elizabeth Arnaud:
Comparison of Ontology Mapping Techniques to Map Plant Trait Ontologies. ICBO/BioCreative 2016 - [c9]Austin Meier, Laurel Cooper, Justin Elser, Pankaj Jaiswal, Marie-Angélique Laporte:
Annotating Germplasm to Planteome Reference Ontologies. ICBO/BioCreative 2016 - [c8]Justin Preece, Justin Elser, Pankaj Jaiswal, Kristian Kvilekval, Dmitry Fedorov, B. S. Manjunath, Ryan Kitchen, Xu Xu, Dmitrios Trigkakis, Sinisa Todorovic, Seth Carbon:
Plant Image Segmentation and Annotation with Ontologies in BisQue. ICBO/BioCreative 2016 - [c7]Botong Qu, Jaden Diefenbaugh, Eugene Zhang, Justin Elser, Pankaj Jaiswal, Seth Carbon, Christopher J. Mungall:
Planteome Gene Annotation Enrichment Analysis. ICBO/BioCreative 2016 - [c6]Weijia Xu, Amit Gupta, Pankaj Jaiswal, Crispin Taylor, Patti Lockhart:
Enhancing Information Accessibility of Publications with Text Mining and Ontology. ICBO/BioCreative 2016 - [c5]Weijia Xu, Amit Gupta, Pankaj Jaiswal, Crispin Taylor, Patti Lockhart:
A Web Application for Extracting Key Domain Information for Scientific Publications Using Ontology. ICBO/BioCreative 2016 - [e1]Pankaj Jaiswal, Robert Hoehndorf, Cecilia N. Arighi, Austin Meier:
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, Corvallis, Oregon, United States, August 1-4, 2016. CEUR Workshop Proceedings 1747, CEUR-WS.org 2016 [contents] - 2014
- [j9]Nikhil Lingutla, Justin Preece, Sinisa Todorovic, Laurel Cooper, Laura Moore, Pankaj Jaiswal:
AISO: Annotation of Image Segments with Ontologies. J. Biomed. Semant. 5: 50 (2014) - [j8]Marcela K. Monaco, Joshua C. Stein, Sushma Naithani, Sharon Wei, Palitha Dharmawardhana, Sunita Kumari, Vindhya Amarasinghe, Ken Youens-Clark, James Thomason, Justin Preece, Shiran Pasternak, Andrew Olson, Yinping Jiao, Zhenyuan Lu, Daniel M. Bolser, Arnaud Kerhornou, Daniel M. Staines, Brandon Walts, Guanming Wu, Peter D'Eustachio, Robin Haw, David Croft, Paul J. Kersey, Lincoln Stein, Pankaj Jaiswal, Doreen Ware:
Gramene 2013: comparative plant genomics resources. Nucleic Acids Res. 42(Database-Issue): 1193-1199 (2014) - 2012
- [c4]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. KEOD 2012: 220-225 - [c3]Ramona L. Walls, Hong Cui, James A. Macklin, Chris Mungall, Laurel Cooper, Dennis W. Stevenson, Pankaj Jaiswal:
Mapping of glossary terms from the Flora of North America to the Plant Ontology enhances both resources. ICBO 2012 - [c2]Ramona L. Walls, Barry Smith, Justin Elser, Albert Goldfain, Dennis W. Stevenson, Pankaj Jaiswal:
A plant disease extension of the Infectious Disease Ontology. ICBO 2012 - 2011
- [j7]Shuchi Smita, Sangram Keshari Lenka, Amit Katiyar, Pankaj Jaiswal, Justin Preece, Kailash Chander Bansal:
QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice. Database J. Biol. Databases Curation 2011 (2011) - [j6]Ken Youens-Clark, Edward S. Buckler, Terry M. Casstevens, Charles Chen, Genevieve DeClerck, Paul S. Derwent, Palitha Dharmawardhana, Pankaj Jaiswal, Paul J. Kersey, A. S. Karthikeyan, Jerry Lu, Susan McCouch, Liya Ren, William Spooner, Joshua C. Stein, Jim Thomason, Sharon Wei, Doreen Ware:
Gramene database in 2010: updates and extensions. Nucleic Acids Res. 39(Database-Issue): 1085-1094 (2011) - [c1]Justin Preece, Justin Elser, Pankaj Jaiswal:
Planteome annotation wiki: a semantic application for the community curation of plant genotypes and phenotypes. SWAT4LS 2011: 96-97
2000 – 2009
- 2009
- [j5]Junjian Ni, Anuradha Pujar, Ken Youens-Clark, Immanuel Yap, Pankaj Jaiswal, Isaak Y. Tecle, Chih-Wei Tung, Liya Ren, William Spooner, Xuehong Wei, Shuly Avraham, Doreen Ware, Lincoln Stein, Susan McCouch:
Gramene QTL database: development, content and applications. Database J. Biol. Databases Curation 2009 (2009) - 2008
- [j4]Shulamit Avraham, Chih-Wei Tung, Katica Ilic, Pankaj Jaiswal, Elizabeth A. Kellogg, Susan McCouch, Anuradha Pujar, Leonore Reiser, Seung Yon Rhee, Martin M. Sachs, Mary L. Schaeffer, Lincoln Stein, Peter F. Stevens, Leszek Vincent, Felipe Zapata, Doreen Ware:
The Plant Ontology Database: a community resource for plant structure and developmental stages controlled vocabulary and annotations. Nucleic Acids Res. 36(Database-Issue): 449-454 (2008) - [j3]Chengzhi Liang, Pankaj Jaiswal, Claire Hebbard, Shuly Avraham, Edward S. Buckler, Terry M. Casstevens, Bonnie L. Hurwitz, Susan McCouch, Junjian Ni, Anuradha Pujar, Dean Ravenscroft, Liya Ren, William Spooner, Isaak Y. Tecle, Jim Thomason, Chih-Wei Tung, Xuehong Wei, Immanuel Yap, Ken Youens-Clark, Doreen Ware, Lincoln Stein:
Gramene: a growing plant comparative genomics resource. Nucleic Acids Res. 36(Database-Issue): 947-953 (2008) - 2006
- [j2]Pankaj Jaiswal, Junjian Ni, Immanuel Yap, Doreen Ware, William Spooner, Ken Youens-Clark, Liya Ren, Chengzhi Liang, Wei Zhao, Kiran Ratnapu, Benjamin Faga, Payan Canaran, Molly Fogleman, Claire Hebbard, Shuly Avraham, Steven Schmidt, Terry M. Casstevens, Edward S. Buckler, Lincoln Stein, Susan McCouch:
Gramene: a bird's eye view of cereal genomes. Nucleic Acids Res. 34(Database-Issue): 717-723 (2006) - 2002
- [j1]Doreen Ware, Pankaj Jaiswal, Junjian Ni, Xiaokang Pan, Kuan Y. Chang, Kenneth Clark, Leonid Teytelman, Steven Schmidt, Wei Zhao, Samuel Cartinhour, Susan McCouch, Lincoln Stein:
Gramene: a resource for comparative grass genomics. Nucleic Acids Res. 30(1): 103-105 (2002)
Coauthor Index
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