Publications by authors named "Justin Elser"

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Gramene 2025: expanded comparative genomics and pathway resources, integrated search, and pan-genome portals for crop research.
Andrew Olson, Sunita Kumari, Xuehong Wei, Kapeel Chougule, Zhenyuan Lu, Justin Elser

Nucleic Acids Res· December 2025

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The PanOryza pangene catalog of Asian cultivated rice.
Bruno Contreras-Moreira, Eshan Sharma, Shradha Saraf, Guy Naamati, Parul Gupta, Justin Elser

Genome Res· December 2025

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A pan-gene catalogue of Asian cultivated rice.
Bruno Contreras-Moreira, Eshan Sharma, Shradha Saraf, Guy Naamati, Parul Gupta, Justin Elser

bioRxiv· February 2025

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Plant Reactome Knowledgebase: empowering plant pathway exploration and OMICS data analysis.
Parul Gupta, Justin Elser, Elizabeth Hooks, Peter D'Eustachio, Pankaj Jaiswal

Nucleic Acids Res· January 2024

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Planteome 2024 Update: Reference Ontologies and Knowledgebase for Plant Biology.
Laurel Cooper, Justin Elser, Marie-Angelique Laporte, Elizabeth Arnaud, Pankaj Jaiswal

Nucleic Acids Res· January 2024

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Reference genome of the nutrition-rich orphan crop chia () and its implications for future breeding.
Parul Gupta, Matthew Geniza, Justin Elser, Noor Al-Bader, Rachel Baschieri

Front Plant Sci· December 2023

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Data sharing and ontology use among agricultural genetics, genomics, and breeding databases and resources of the Agbiodata Consortium.
Jennifer L Clarke, Laurel D Cooper, Monica F Poelchau, Tanya Z Berardini, Justin Elser

Database (Oxford)· November 2023

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Using knowledge graphs to infer gene expression in plants.
Anne E Thessen, Laurel Cooper, Tyson L Swetnam, Harshad Hegde, Justin Reese, Justin Elser

Front Artif Intell· June 2023

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The Gene Ontology knowledgebase in 2023.

Genetics· May 2023

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Biocuration of a Transcription Factors Network Involved in Submergence Tolerance during Seed Germination and Coleoptile Elongation in Rice ().
Sushma Naithani, Bijayalaxmi Mohanty, Justin Elser, Peter D'Eustachio, Pankaj Jaiswal

Plants (Basel)· May 2023

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Plant Reactome and PubChem: The Plant Pathway and (Bio)Chemical Entity Knowledgebases.
Parul Gupta, Sushma Naithani, Justin Preece, Sunghwan Kim, Tiejun Cheng, Justin Elser

Methods Mol Biol· March 2022

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Ensembl Genomes 2022: an expanding genome resource for non-vertebrates.
Andrew D Yates, James Allen, Ridwan M Amode, Andrey G Azov, Matthieu Barba, Justin Elser

Nucleic Acids Res· January 2022

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A draft phased assembly of the diploid Cascade hop (Humulus lupulus) genome.
Lillian K Padgitt-Cobb, Sarah B Kingan, Jackson Wells, Justin Elser, Brent Kronmiller

Plant Genome· March 2021

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Gramene 2021: harnessing the power of comparative genomics and pathways for plant research.
Marcela K Tello-Ruiz, Sushma Naithani, Parul Gupta, Andrew Olson, Sharon Wei, Justin Elser

Nucleic Acids Res· January 2021

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Plant Reactome: a knowledgebase and resource for comparative pathway analysis.
Sushma Naithani, Parul Gupta, Justin Preece, Peter D'Eustachio, Justin L Elser

Nucleic Acids Res· January 2020

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The Plant Ontology Facilitates Comparisons of Plant Development Stages Across Species.
Ramona L Walls, Laurel Cooper, Justin Elser, Maria Alejandra Gandolfo, Christopher J Mungall

Front Plant Sci· June 2019

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Gramene 2018: unifying comparative genomics and pathway resources for plant research.
Marcela K Tello-Ruiz, Sushma Naithani, Joshua C Stein, Parul Gupta, Michael Campbell, Justin Elser

Nucleic Acids Res· January 2018

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The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics.
Laurel Cooper, Austin Meier, Marie-Angélique Laporte, Justin L Elser, Chris Mungall

Nucleic Acids Res· January 2018

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Plant Reactome: a resource for plant pathways and comparative analysis.
Sushma Naithani, Justin Preece, Peter D'Eustachio, Parul Gupta, Vindhya Amarasinghe, Justin L Elser

Nucleic Acids Res· January 2017

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FragariaCyc: A Metabolic Pathway Database for Woodland Strawberry Fragaria vesca.
Sushma Naithani, Christina M Partipilo, Rajani Raja, Justin L Elser, Pankaj Jaiswal

Front Plant Sci· March 2016

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Gramene 2016: comparative plant genomics and pathway resources.
Marcela K Tello-Ruiz, Joshua Stein, Sharon Wei, Justin Preece, Andrew Olson, Justin Elser

Nucleic Acids Res· January 2016

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Differential Expression of Genes Involved in Host Recognition, Attachment, and Degradation in the Mycoparasite Tolypocladium ophioglossoides.
C Alisha Quandt, Yanming Di, Justin Elser, Pankaj Jaiswal, Joseph W Spatafora

G3 (Bethesda)· January 2016

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De novo transcriptome assembly and analyses of gene expression during photomorphogenesis in diploid wheat Triticum monococcum.
Samuel E Fox, Matthew Geniza, Mamatha Hanumappa, Sushma Naithani, Chris Sullivan, Justin Elser

PLoS One· January 2015

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VitisCyc: a metabolic pathway knowledgebase for grapevine (Vitis vinifera).
Sushma Naithani, Rajani Raja, Elijah N Waddell, Justin Elser, Satyanarayana Gouthu

Front Plant Sci· December 2014

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The genome of Eucalyptus grandis.
Alexander A Myburg, Dario Grattapaglia, Gerald A Tuskan, Uffe Hellsten, Richard D Hayes, Justin Elser

Nature· June 2014

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