Found: 27

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  • Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data.

    Published in:
    PLoS Biology, 2017, v. 15, n. 6, p. 1, doi. 10.1371/journal.pbio.2001414
    By:
    • McMurry, Julie A.;
    • Juty, Nick;
    • Blomberg, Niklas;
    • Burdett, Tony;
    • Conlin, Tom;
    • Conte, Nathalie;
    • Courtot, Mélanie;
    • Deck, John;
    • Dumontier, Michel;
    • Fellows, Donal K.;
    • Gonzalez-Beltran, Alejandra;
    • Gormanns, Philipp;
    • Grethe, Jeffrey;
    • Hastings, Janna;
    • Hériché, Jean-Karim;
    • Hermjakob, Henning;
    • Ison, Jon C.;
    • Jimenez, Rafael C.;
    • Jupp, Simon;
    • Kunze, John
    Publication type:
    Article

  • Unifying the identification of biomedical entities with the Bioregistry.

    Published in:
    Scientific Data, 2022, v. 9, n. 1, p. 1, doi. 10.1038/s41597-022-01807-3
    By:
    • Hoyt, Charles Tapley;
    • Balk, Meghan;
    • Callahan, Tiffany J.;
    • Domingo-Fernández, Daniel;
    • Haendel, Melissa A.;
    • Hegde, Harshad B.;
    • Himmelstein, Daniel S.;
    • Karis, Klas;
    • Kunze, John;
    • Lubiana, Tiago;
    • Matentzoglu, Nicolas;
    • McMurry, Julie;
    • Moxon, Sierra;
    • Mungall, Christopher J.;
    • Rutz, Adriano;
    • Unni, Deepak R.;
    • Willighagen, Egon;
    • Winston, Donald;
    • Gyori, Benjamin M.
    Publication type:
    Article

  • Who is pregnant? Defining real-world data-based pregnancy episodes in the National COVID Cohort Collaborative (N3C).

    Published in:
    JAMIA Open, 2023, v. 6, n. 3, p. 1, doi. 10.1093/jamiaopen/ooad067
    By:
    • Jones, Sara E.;
    • Bradwell, Katie R.;
    • Chan, Lauren E.;
    • McMurry, Julie A.;
    • Olson-Chen, Courtney;
    • Tarleton, Jessica;
    • Wilkins, Kenneth J.;
    • Ly, Victoria;
    • Ljazouli, Saad;
    • Qiuyuan Qin;
    • Faherty, Emily Groene;
    • Yan Kwan Lau;
    • Xie, Catherine;
    • Yu-Han Kao;
    • Liebman, Michael N.;
    • Mariona, Federico;
    • Challa, Anup P.;
    • Li Li;
    • Ratcliffe, Sarah J.;
    • Haendel, Melissa A.
    Publication type:
    Article

  • Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources.

    Published in:
    Nucleic Acids Research, 2019, v. 47, n. D1, p. D1018, doi. 10.1093/nar/gky1105
    By:
    • Köhler, Sebastian;
    • Carmody, Leigh;
    • Vasilevsky, Nicole;
    • Jacobsen, Julius O B;
    • Danis, Daniel;
    • Gourdine, Jean-Philippe;
    • Gargano, Michael;
    • Harris, Nomi L;
    • Matentzoglu, Nicolas;
    • McMurry, Julie A;
    • Osumi-Sutherland, David;
    • Cipriani, Valentina;
    • Balhoff, James P;
    • Conlin, Tom;
    • Blau, Hannah;
    • Baynam, Gareth;
    • Palmer, Richard;
    • Gratian, Dylan;
    • Dawkins, Hugh;
    • Segal, Michael
    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

  • The Human Phenotype Ontology in 2017.

    Published in:
    Nucleic Acids Research, 2017, v. 45, n. D1, p. D865, doi. 10.1093/nar/gkw1039
    By:
    • Köhler, Sebastian;
    • Vasilevsky, Nicole A.;
    • Engelstad, Mark;
    • Foster, Erin;
    • McMurry, Julie;
    • Aymé, Ségolène;
    • Baynam, Gareth;
    • Bello, Susan M.;
    • Boerkoel, Cornelius F.;
    • Boycott, Kym M.;
    • Brudno, Michael;
    • Buske, Orion J.;
    • Chinnery, Patrick F.;
    • Cipriani, Valentina;
    • Connell, Laureen E.;
    • Dawkins, Hugh J. S.;
    • DeMare, Laura E.;
    • Devereau, Andrew D.;
    • de Vries, Bert B. A.;
    • Firth, Helen V.
    Publication type:
    Article

  • Expression Atlas update—a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments.

    Published in:
    Nucleic Acids Research, 2014, v. 42, n. D1, p. D926, doi. 10.1093/nar/gkt1270
    By:
    • Petryszak, Robert;
    • Burdett, Tony;
    • Fiorelli, Benedetto;
    • Fonseca, Nuno A.;
    • Gonzalez-Porta, Mar;
    • Hastings, Emma;
    • Huber, Wolfgang;
    • Jupp, Simon;
    • Keays, Maria;
    • Kryvych, Nataliya;
    • McMurry, Julie;
    • Marioni, John C.;
    • Malone, James;
    • Megy, Karine;
    • Rustici, Gabriella;
    • Tang, Amy Y.;
    • Taubert, Jan;
    • Williams, Eleanor;
    • Mannion, Oliver;
    • Parkinson, Helen E.
    Publication type:
    Article

  • Finding Long-COVID: temporal topic modeling of electronic health records from the N3C and RECOVER programs.

    Published in:
    NPJ Digital Medicine, 2024, v. 7, n. 1, p. 1, doi. 10.1038/s41746-024-01286-3
    By:
    • O'Neil, Shawn T.;
    • Madlock-Brown, Charisse;
    • Wilkins, Kenneth J.;
    • McGrath, Brenda M.;
    • Davis, Hannah E.;
    • Assaf, Gina S.;
    • Wei, Hannah;
    • Zareie, Parya;
    • French, Evan T.;
    • Loomba, Johanna;
    • McMurry, Julie A.;
    • Zhou, Andrea;
    • Chute, Christopher G.;
    • Moffitt, Richard A.;
    • Pfaff, Emily R.;
    • Yoo, Yun Jae;
    • Leese, Peter;
    • Chew, Robert F.;
    • Lieberman, Michael;
    • Haendel, Melissa A.
    Publication type:
    Article

  • Long COVID risk and pre-COVID vaccination in an EHR-based cohort study from the RECOVER program.

    Published in:
    Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-38388-7
    By:
    • Brannock, M. Daniel;
    • Chew, Robert F.;
    • Preiss, Alexander J.;
    • Hadley, Emily C.;
    • Redfield, Signe;
    • McMurry, Julie A.;
    • Leese, Peter J.;
    • Girvin, Andrew T.;
    • Crosskey, Miles;
    • Zhou, Andrea G.;
    • Moffitt, Richard A.;
    • Funk, Michele Jonsson;
    • Pfaff, Emily R.;
    • Haendel, Melissa A.;
    • Chute, Christopher G.;
    • N3C;
    • Stürmer, Til;
    • Loomba, Johanna J.;
    • Koraishy, Farrukh M.;
    • RECOVER Consortia
    Publication type:
    Article

  • The Environmental Conditions, Treatments, and Exposures Ontology (ECTO): connecting toxicology and exposure to human health and beyond.

    Published in:
    Journal of Biomedical Semantics, 2023, v. 14, n. 1, p. 1, doi. 10.1186/s13326-023-00283-x
    By:
    • Chan, Lauren E.;
    • Thessen, Anne E.;
    • Duncan, William D.;
    • Matentzoglu, Nicolas;
    • Schmitt, Charles;
    • Grondin, Cynthia J.;
    • Vasilevsky, Nicole;
    • McMurry, Julie A.;
    • Robinson, Peter N.;
    • Mungall, Christopher J.;
    • Haendel, Melissa A.
    Publication type:
    Article

  • NSAID use and clinical outcomes in COVID-19 patients: a 38-center retrospective cohort study.

    Published in:
    Virology Journal, 2022, v. 19, n. 1, p. 1, doi. 10.1186/s12985-022-01813-2
    By:
    • Reese, Justin T.;
    • Coleman, Ben;
    • Chan, Lauren;
    • Blau, Hannah;
    • Callahan, Tiffany J.;
    • Cappelletti, Luca;
    • Fontana, Tommaso;
    • Bradwell, Katie R.;
    • Harris, Nomi L.;
    • Casiraghi, Elena;
    • Valentini, Giorgio;
    • Karlebach, Guy;
    • Deer, Rachel;
    • McMurry, Julie A.;
    • Haendel, Melissa A.;
    • Chute, Christopher G.;
    • Pfaff, Emily;
    • Moffitt, Richard;
    • Spratt, Heidi;
    • Singh, Jasvinder A.
    Publication type:
    Article

  • Characteristics, Outcomes, and Severity Risk Factors Associated With SARS-CoV-2 Infection Among Children in the US National COVID Cohort Collaborative.

    Published in:
    JAMA Network Open, 2022, v. 5, n. 2, p. e2143151, doi. 10.1001/jamanetworkopen.2021.43151
    By:
    • Martin, Blake;
    • DeWitt, Peter E.;
    • Russell, Seth;
    • Anand, Adit;
    • Bradwell, Katie R.;
    • Bremer, Carolyn;
    • Gabriel, Davera;
    • Girvin, Andrew T.;
    • Hajagos, Janos G.;
    • McMurry, Julie A.;
    • Neumann, Andrew J.;
    • Pfaff, Emily R.;
    • Walden, Anita;
    • Wooldridge, Jacob T.;
    • Yoo, Yun Jae;
    • Saltz, Joel;
    • Gersing, Ken R.;
    • Chute, Christopher G.;
    • Haendel, Melissa A.;
    • Moffitt, Richard
    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

  • landscape of nutri-informatics: a review of current resources and challenges for integrative nutrition research.

    Published in:
    Database: The Journal of Biological Databases & Curation, 2021, v. 2021, p. 1, doi. 10.1093/database/baab003
    By:
    • Chan, Lauren;
    • Vasilevsky, Nicole;
    • Thessen, Anne;
    • McMurry, Julie;
    • Haendel, Melissa
    Publication type:
    Article

  • Representing glycophenotypes: semantic unification of glycobiology resources for disease discovery.

    Published in:
    Database: The Journal of Biological Databases & Curation, 2019, v. 2019, p. N.PAG, doi. 10.1093/database/baz114
    By:
    • Gourdine, Jean-Philippe F;
    • Brush, Matthew H;
    • Vasilevsky, Nicole A;
    • Shefchek, Kent;
    • Köhler, Sebastian;
    • Matentzoglu, Nicolas;
    • Munoz-Torres, Monica C;
    • McMurry, Julie A;
    • Zhang, Xingmin Aaron;
    • Robinson, Peter N;
    • Haendel, Melissa A
    Publication type:
    Article

  • Risk factors associated with post-acute sequelae of SARS-CoV-2: an N3C and NIH RECOVER study.

    Published in:
    BMC Public Health, 2023, v. 23, n. 1, p. 1, doi. 10.1186/s12889-023-16916-w
    By:
    • Hill, Elaine L.;
    • Mehta, Hemalkumar B.;
    • Sharma, Suchetha;
    • Mane, Klint;
    • Singh, Sharad Kumar;
    • Xie, Catherine;
    • Cathey, Emily;
    • Loomba, Johanna;
    • Russell, Seth;
    • Spratt, Heidi;
    • DeWitt, Peter E.;
    • Ammar, Nariman;
    • Madlock-Brown, Charisse;
    • Brown, Donald;
    • McMurry, Julie A.;
    • Chute, Christopher G.;
    • Haendel, Melissa A.;
    • Moffitt, Richard;
    • Pfaff, Emily R.;
    • Bennett, Tellen D.
    Publication type:
    Article

  • Coding long COVID: characterizing a new disease through an ICD-10 lens.

    Published in:
    BMC Medicine, 2023, v. 21, n. 1, p. 1, doi. 10.1186/s12916-023-02737-6
    By:
    • Pfaff, Emily R.;
    • Madlock-Brown, Charisse;
    • Baratta, John M.;
    • Bhatia, Abhishek;
    • Davis, Hannah;
    • Girvin, Andrew;
    • Hill, Elaine;
    • Kelly, Elizabeth;
    • Kostka, Kristin;
    • Loomba, Johanna;
    • McMurry, Julie A.;
    • Wong, Rachel;
    • Bennett, Tellen D.;
    • Moffitt, Richard;
    • Chute, Christopher G.;
    • Haendel, Melissa
    Publication type:
    Article

  • GA4GH Phenopackets: A Practical Introduction.

    Published in:
    Advanced Genetics, 2023, v. 4, n. 1, p. 1, doi. 10.1002/ggn2.202200016
    By:
    • Ladewig, Markus S.;
    • Jacobsen, Julius O. B.;
    • Wagner, Alex H.;
    • Danis, Daniel;
    • El Kassaby, Baha;
    • Gargano, Michael;
    • Groza, Tudor;
    • Baudis, Michael;
    • Steinhaus, Robin;
    • Seelow, Dominik;
    • Bechrakis, Nikolaos E.;
    • Mungall, Christopher J.;
    • Schofield, Paul N.;
    • Elemento, Olivier;
    • Smith, Lindsay;
    • McMurry, Julie A.;
    • Munoz‐Torres, Monica;
    • Haendel, Melissa A.;
    • Robinson, Peter N.
    Publication type:
    Article

  • Synergies between centralized and federated approaches to data quality: a report from the national COVID cohort collaborative.

    Published in:
    2022
    By:
    • Pfaff, Emily R;
    • Girvin, Andrew T;
    • Gabriel, Davera L;
    • Kostka, Kristin;
    • Morris, Michele;
    • Palchuk, Matvey B;
    • Lehmann, Harold P;
    • Amor, Benjamin;
    • Bissell, Mark;
    • Bradwell, Katie R;
    • Gold, Sigfried;
    • Hong, Stephanie S;
    • Loomba, Johanna;
    • Manna, Amin;
    • McMurry, Julie A;
    • Niehaus, Emily;
    • Qureshi, Nabeel;
    • Walden, Anita;
    • Zhang, Xiaohan Tanner;
    • Zhu, Richard L
    Publication type:
    journal article

  • The Ontology of Biological Attributes (OBA)—computational traits for the life sciences.

    Published in:
    Mammalian Genome, 2023, v. 34, n. 3, p. 364, doi. 10.1007/s00335-023-09992-1
    By:
    • Stefancsik, Ray;
    • Balhoff, James P.;
    • Balk, Meghan A.;
    • Ball, Robyn L.;
    • Bello, Susan M.;
    • Caron, Anita R.;
    • Chesler, Elissa J.;
    • de Souza, Vinicius;
    • Gehrke, Sarah;
    • Haendel, Melissa;
    • Harris, Laura W.;
    • Harris, Nomi L.;
    • Ibrahim, Arwa;
    • Koehler, Sebastian;
    • Matentzoglu, Nicolas;
    • McMurry, Julie A.;
    • Mungall, Christopher J.;
    • Munoz-Torres, Monica C.;
    • Putman, Tim;
    • Robinson, Peter
    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

  • Community risks for SARS-CoV-2 infection among fully vaccinated US adults by rurality: A retrospective cohort study from the National COVID Cohort Collaborative.

    Published in:
    PLoS ONE, 2023, v. 17, n. 1, p. 1, doi. 10.1371/journal.pone.0279968
    By:
    • Anzalone, Alfred Jerrod;
    • Sun, Jing;
    • Vinson, Amanda J.;
    • Beasley, William H.;
    • Hillegass, William B.;
    • Murray, Kimberly;
    • Hendricks, Brian M.;
    • Haendel, Melissa;
    • Geary, Carol Reynolds;
    • Bailey, Kristina L.;
    • Hanson, Corrine K.;
    • Miele, Lucio;
    • Horswell, Ronald;
    • McMurry, Julie A.;
    • Porterfield, J. Zachary;
    • Vest, Michael T.;
    • Bunnell, H. Timothy;
    • Harper, Jeremy R.;
    • Price, Bradley S.;
    • Santangelo, Susan L.
    Publication type:
    Article

  • Novel function of complement C3d as an autologous helper T-cell target.

    Published in:
    Immunology & Cell Biology, 2008, v. 86, n. 3, p. 221, doi. 10.1038/sj.icb.7100147
    By:
    • Knopf, Paul M.;
    • Rivera, Daniel S.;
    • Hai, Si-Han;
    • McMurry, Julie;
    • Martin, William;
    • De Groot, Anne S.
    Publication type:
    Article

  • Novel function of complement C3d as an autologous helper T‐cell target.

    Published in:
    Immunology & Cell Biology, 2008, v. 86, n. 3, p. 221, doi. 10.1038/sj.icb.7100147
    By:
    • Knopf, Paul M;
    • Rivera, Daniel S;
    • Hai, Si‐Han;
    • McMurry, Julie;
    • Martin, William;
    • De Groot, Anne S
    Publication type:
    Article

  • Immuno-informatics: Mining genomes for vaccine components.

    Published in:
    Immunology & Cell Biology, 2002, v. 80, n. 3, p. 255, doi. 10.1046/j.1440-1711.2002.01092.x
    By:
    • De Groot, Anne S;
    • Sbai, Hakima;
    • Aubin, Caitlin Saint;
    • McMurry, Julie;
    • Martin, William
    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

  • UVB Radiation Alone May Not Explain Sunlight Inactivation of SARS-CoV-2.

    Published in:
    2021
    By:
    • Luzzatto-Fegiz, Paolo;
    • Temprano-Coleto, Fernando;
    • Peaudecerf, François J;
    • Landel, Julien R;
    • Zhu, Yangying;
    • McMurry, Julie A
    Publication type:
    Letter