Found: 14

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  • The Monarch Initiative in 2024: an analytic platform integrating phenotypes, genes and diseases across species.

    Published in:
    Nucleic Acids Research, 2024, v. 52, n. D1, p. D938, doi. 10.1093/nar/gkad1082
    By:
    • Putman, Tim E;
    • Schaper, Kevin;
    • Matentzoglu, Nicolas;
    • Rubinetti, Vincent P;
    • Alquaddoomi, Faisal S;
    • Cox, Corey;
    • Caufield, J Harry;
    • Elsarboukh, Glass;
    • Gehrke, Sarah;
    • Hegde, Harshad;
    • Reese, Justin T;
    • Braun, Ian;
    • Bruskiewich, Richard M;
    • Cappelletti, Luca;
    • Carbon, Seth;
    • Caron, Anita R;
    • Chan, Lauren E;
    • Chute, Christopher G;
    • Cortes, Katherina G;
    • De Souza, Vinícius
    Publication type:
    Article

  • A method for increasing expressivity of Gene Ontology annotations using a compositional approach.

    Published in:
    BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2105-15-155
    By:
    • Huntley, Rachael P.;
    • Harris, Midori A.;
    • Alam-Faruque, Yasmin;
    • Blake, Judith A.;
    • Carbon, Seth;
    • Dietze, Heiko;
    • Dimmer, Emily C.;
    • Foulger, Rebecca E.;
    • Hil, David P.;
    • Khodiyar, Varsha K.;
    • Lock, Antonia;
    • Lomax, Jane;
    • Lovering, Ruth C.;
    • Mutowo-Meullenet, Prudence;
    • Sawford, Tony;
    • Auken, Kimberly Van;
    • Wood, Valerie;
    • Mungall, Christopher J.
    Publication type:
    Article

  • Crowdsourcing biocuration: The Community Assessment of Community Annotation with Ontologies (CACAO).

    Published in:
    PLoS Computational Biology, 2021, v. 17, n. 10, p. 1, doi. 10.1371/journal.pcbi.1009463
    By:
    • Ramsey, Jolene;
    • McIntosh, Brenley;
    • Renfro, Daniel;
    • Aleksander, Suzanne A.;
    • LaBonte, Sandra;
    • Ross, Curtis;
    • Zweifel, Adrienne E.;
    • Liles, Nathan;
    • Farrar, Shabnam;
    • Gill, Jason J.;
    • Erill, Ivan;
    • Ades, Sarah;
    • Berardini, Tanya Z.;
    • Bennett, Jennifer A.;
    • Brady, Siobhan;
    • Britton, Robert;
    • Carbon, Seth;
    • Caruso, Steven M.;
    • Clements, Dave;
    • Dalia, Ritu
    Publication type:
    Article

  • Navigating the Phenotype Frontier: The Monarch Initiative.

    Published in:
    Genetics, 2016, v. 203, n. 4, p. 1491, doi. 10.1534/genetics.116.188870
    By:
    • McMurry, Julie A.;
    • Köhler, Sebastian;
    • Washington, Nicole L.;
    • Balhoff, James P.;
    • Borromeo, Charles;
    • Brush, Matthew;
    • Carbon, Seth;
    • Conlin, Tom;
    • Dunn, Nathan;
    • Engelstad, Mark;
    • Foster, Erin;
    • Gourdine, Jean-Philippe;
    • Jacobsen, Julius O. B.;
    • Keith, Daniel;
    • Laraway, Bryan;
    • Nguyen Xuan, Jeremy;
    • Shefchek, Kent;
    • Vasilevsky, Nicole A.;
    • Zhou Yuan;
    • Lewis, Suzanna E.
    Publication type:
    Article

  • Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies.

    Published in:
    Database: The Journal of Biological Databases & Curation, 2022, v. 2022, p. 1, doi. 10.1093/database/baac087
    By:
    • Matentzoglu, Nicolas;
    • Goutte-Gattat, Damien;
    • Tan, Shawn Zheng Kai;
    • Balhoff, James P;
    • Carbon, Seth;
    • Caron, Anita R;
    • Duncan, William D;
    • Flack, Joe E;
    • Haendel, Melissa;
    • Harris, Nomi L;
    • Hogan, William R;
    • Hoyt, Charles Tapley;
    • Jackson, Rebecca C;
    • Kim, HyeongSik;
    • Kir, Huseyin;
    • Larralde, Martin;
    • McMurry, Julie A;
    • Overton, James A;
    • Peters, Bjoern;
    • Pilgrim, Clare
    Publication type:
    Article

  • OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies.

    Published in:
    Database: The Journal of Biological Databases & Curation, 2021, v. 2021, p. 1, doi. 10.1093/database/baab069
    By:
    • Jackson, Rebecca;
    • Matentzoglu, Nicolas;
    • Overton, James A;
    • Vita, Randi;
    • Balhoff, James P;
    • Buttigieg, Pier Luigi;
    • Carbon, Seth;
    • Courtot, Melanie;
    • Diehl, Alexander D;
    • Dooley, Damion M;
    • Duncan, William D;
    • Harris, Nomi L;
    • Haendel, Melissa A;
    • Lewis, Suzanna E;
    • Natale, Darren A;
    • Osumi-Sutherland, David;
    • Ruttenberg, Alan;
    • Schriml, Lynn M;
    • Smith, Barry;
    • Stoeckert Jr., Christian J
    Publication type:
    Article

  • KG-Hub—building and exchanging biological knowledge graphs.

    Published in:
    Bioinformatics, 2023, v. 39, n. 7, p. 1, doi. 10.1093/bioinformatics/btad418
    By:
    • Caufield, J Harry;
    • Putman, Tim;
    • Schaper, Kevin;
    • Unni, Deepak R;
    • Hegde, Harshad;
    • Callahan, Tiffany J;
    • Cappelletti, Luca;
    • Moxon, Sierra A T;
    • Ravanmehr, Vida;
    • Carbon, Seth;
    • Chan, Lauren E;
    • Cortes, Katherina;
    • Shefchek, Kent A;
    • Elsarboukh, Glass;
    • Balhoff, Jim;
    • Fontana, Tommaso;
    • Matentzoglu, Nicolas;
    • Bruskiewich, Richard M;
    • Thessen, Anne E;
    • Harris, Nomi L
    Publication type:
    Article

  • Reactome and the Gene Ontology: digital convergence of data resources.

    Published in:
    Bioinformatics, 2021, v. 37, n. 19, p. 3343, doi. 10.1093/bioinformatics/btab325
    By:
    • Good, Benjamin M;
    • Auken, Kimberly Van;
    • Hill, David P;
    • Mi, Huaiyu;
    • Carbon, Seth;
    • Balhoff, James P;
    • Albou, Laurent-Philippe;
    • Thomas, Paul D;
    • Mungall, Christopher J;
    • Blake, Judith A;
    • D'Eustachio, Peter
    Publication type:
    Article

  • The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.

    Published in:
    Nucleic Acids Research, 2020, v. 48, n. D1, p. D704, doi. 10.1093/nar/gkz997
    By:
    • Shefchek, Kent A;
    • Harris, Nomi L;
    • Gargano, Michael;
    • Matentzoglu, Nicolas;
    • Unni, Deepak;
    • Brush, Matthew;
    • Keith, Daniel;
    • Conlin, Tom;
    • Vasilevsky, Nicole;
    • Zhang, Xingmin Aaron;
    • Balhoff, James P;
    • Babb, Larry;
    • Bello, Susan M;
    • Blau, Hannah;
    • Bradford, Yvonne;
    • Carbon, Seth;
    • Carmody, Leigh;
    • Chan, Lauren E;
    • Cipriani, Valentina;
    • Cuzick, Alayne
    Publication type:
    Article

  • The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics.

    Published in:
    Nucleic Acids Research, 2018, v. 46, n. D1, p. D1168, doi. 10.1093/nar/gkx1152
    By:
    • Cooper, Laurel;
    • Meier, Austin;
    • Laporte, Marie-Angélique;
    • Elser, Justin L;
    • Mungall, Chris;
    • Sinn, Brandon T;
    • Cavaliere, Dario;
    • Carbon, Seth;
    • Dunn, Nathan A;
    • Smith, Barry
    Publication type:
    Article

  • The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species.

    Published in:
    Nucleic Acids Research, 2017, v. 45, n. D1, p. D712, doi. 10.1093/nar/gkw1128
    By:
    • Mungall, Christopher J.;
    • McMurry, Julie A.;
    • Köhler3, Sebastian;
    • Balhoff, James P.;
    • Borromeo, Charles;
    • Brush, Matthew;
    • Carbon, Seth;
    • Conlin, Tom;
    • Dunn, Nathan;
    • Engelstad, Mark;
    • Foster, Erin;
    • Gourdine, J. P.;
    • Jacobsen, Julius O. B.;
    • Keith, Dan;
    • Laraway, Bryan;
    • Lewis, Suzanna E.;
    • NguyenXuan, Jeremy;
    • Shefchek, Kent;
    • Vasilevsky, Nicole;
    • Zhou Yuan
    Publication type:
    Article

  • modMine: flexible access to modENCODE data.

    Published in:
    Nucleic Acids Research, 2012, p. D1082, doi. 10.1093/nar/gkr921
    By:
    • Contrino, Sergio;
    • Smith, Richard N.;
    • Butano, Daniela;
    • Carr, Adrian;
    • Hu, Fengyuan;
    • Lyne, Rachel;
    • Rutherford, Kim;
    • Kalderimis, Alex;
    • Sullivan, Julie;
    • Carbon, Seth;
    • Kephart, Ellen T.;
    • Lloyd, Paul;
    • Stinson, E. O.;
    • Washington, Nicole L.;
    • Perry, Marc D.;
    • Ruzanov, Peter;
    • Zha, Zheng;
    • Lewis, Suzanna E.;
    • Stein, Lincoln D.;
    • Micklem, Gos
    Publication type:
    Article

  • AmiGO: online access to ontology and annotation data.

    Published in:
    Bioinformatics, 2009, v. 25, n. 2, p. 288
    By:
    • Seth Carbon;
    • Amelia Ireland;
    • Christopher J. Mungall;
    • ShengQiang Shu;
    • Brad Marshall;
    • Suzanna Lewis;
    • the AmiGO Hub;
    • the Web Presence Working Group
    Publication type:
    Article

  • An analysis and metric of reusable data licensing practices for biomedical resources.

    Published in:
    PLoS ONE, 2019, v. 14, n. 3, p. 1, doi. 10.1371/journal.pone.0213090
    By:
    • Carbon, Seth;
    • Champieux, Robin;
    • McMurry, Julie A.;
    • Winfree, Lilly;
    • Wyatt, Letisha R.;
    • Haendel, Melissa A.
    Publication type:
    Article