Works by Vasilevsky, Nicole A.

Results: 31

The Hearing Impairment Ontology: A Tool for Unifying Hearing Impairment Knowledge to Enhance Collaborative Research.

Published in:

Genes, 2019, v. 10, n. 12, p. 960, doi. 10.3390/genes10120960

By:

Hotchkiss, Jade;
Manyisa, Noluthando;
Mawuli Adadey, Samuel;
Oluwole, Oluwafemi Gabriel;
Wonkam, Edmond;
Mnika, Khuthala;
Yalcouye, Abdoulaye;
Nembaware, Victoria;
Haendel, Melissa;
Vasilevsky, Nicole;
Mulder, Nicola J.;
Jupp, Simon;
Wonkam, Ambroise;
K. Mazandu, Gaston

Publication type:

Article

Is authorship sufficient for today's collaborative research? A call for contributor roles.

Published in:

Accountability in Research: Policies & Quality Assurance, 2021, v. 28, n. 1, p. 23, doi. 10.1080/08989621.2020.1779591

By:

Vasilevsky, Nicole A.;
Hosseini, Mohammad;
Teplitzky, Samantha;
Ilik, Violeta;
Mohammadi, Ehsan;
Schneider, Juliane;
Kern, Barbara;
Colomb, Julien;
Edmunds, Scott C.;
Gutzman, Karen;
Himmelstein, Daniel S.;
White, Marijane;
Smith, Britton;
O'Keefe, Lisa;
Haendel, Melissa;
Holmes, Kristi L.

Publication type:

Article

Effect of impact factor and discipline on journal data sharing policies.

Published in:

Accountability in Research: Policies & Quality Assurance, 2019, v. 26, n. 3, p. 139, doi. 10.1080/08989621.2019.1591277

By:

Resnik, David B.;
Morales, Melissa;
Landrum, Rachel;
Shi, Min;
Minnier, Jessica;
Vasilevsky, Nicole A.;
Champieux, Robin E.

Publication type:

Article

Semantic integration of clinical laboratory tests from electronic health records for deep phenotyping and biomarker discovery.

Published in:

NPJ Digital Medicine, 2019, v. 2, p. N.PAG, doi. 10.1038/s41746-019-0110-4

By:

Zhang, Xingmin Aaron;
Yates, Amy;
Vasilevsky, Nicole;
Gourdine, J. P.;
Callahan, Tiffany J.;
Carmody, Leigh C.;
Danis, Daniel;
Joachimiak, Marcin P.;
Ravanmehr, Vida;
Pfaff, Emily R.;
Champion, James;
Robasky, Kimberly;
Xu, Hao;
Fecho, Karamarie;
Walton, Nephi A.;
Zhu, Richard L.;
Ramsdill, Justin;
Mungall, Christopher J.;
Köhler, Sebastian;
Haendel, Melissa A.

Publication type:

Article

Evolution and adoption of contributor role ontologies and taxonomies.

Published in:

Learned Publishing, 2023, v. 36, n. 2, p. 275, doi. 10.1002/leap.1496

By:

Hosseini, Mohammad;
Colomb, Julien;
Holcombe, Alex O.;
Kern, Barbara;
Vasilevsky, Nicole A.;
Holmes, Kristi L.

Publication type:

Article

OX40 engagement stabilizes Mxd4 and Mnt protein levels in antigen-stimulated T cells leading to an increase in cell survival.

Published in:

European Journal of Immunology, 2011, v. 41, n. 4, p. 1024, doi. 10.1002/eji.201040449

By:

Vasilevsky, Nicole A.;
Ruby, Carl E.;
Hurlin, Peter J.;
Weinberg, Andrew D.

Publication type:

Article

The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability.

Published in:

Journal of Biomedical Semantics, 2016, v. 7, p. 1, doi. 10.1186/s13326-016-0088-7

By:

Diehl, Alexander D.;
Meehan, Terrence F.;
Bradford, Yvonne M.;
Brush, Matthew H.;
Dahdul, Wasila M.;
Dougall, David S.;
Yongqun He;
Osumi-Sutherland, David;
Ruttenberg, Alan;
Sarntivijai, Sirarat;
Van Slyke, Ceri E.;
Vasilevsky, Nicole A.;
Haendel, Melissa A.;
Blake, Judith A.;
Mungall, Christopher J.

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

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

Community Approaches for Integrating Environmental Exposures into Human Models of Disease.

Published in:

Environmental Health Perspectives, 2020, v. 128, n. 12, p. 125002-1, doi. 10.1289/EHP7215

By:

Thessen, Anne E.;
Grondin, Cynthia J.;
Kulkarni, Resham D.;
Brander, Susanne;
Truong, Lisa;
Vasilevsky, Nicole A.;
Callahan, Tiffany J.;
Chan, Lauren E.;
Westra, Brian;
Willis, Mary;
Rothenberg, Sarah E.;
Jarabek, Annie M.;
Burgoon, Lyle;
Korrick, Susan A.;
Haendel, Melissa A.

Publication type:

Article

Dealing with Data: A Case Study on Information and Data Management Literacy.

Published in:

2012

By:

Haendel, Melissa A.;
Vasilevsky, Nicole A.;
Wirz, Jacqueline A.

Publication type:

Case Study

The Resource Identification Initiative: a cultural shift in publishing.

Published in:

2016

By:

Bandrowski, Anita;
Brush, Matthew;
Grethe, Jeffery S.;
Haendel, Melissa A.;
Kennedy, David N.;
Hill, Sean;
Hof, Patrick R.;
Martone, Maryann E.;
Pols, Maaike;
Tan, Serena C.;
Washington, Nicole;
Zudilova‐Seinstra, Elena;
Vasilevsky, Nicole

Publication type:

Editorial

Conference report: Biocuration 2021 Virtual Conference.

Published in:

Database: The Journal of Biological Databases & Curation, 2022, v. 2022, p. 1, doi. 10.1093/database/baac027

By:

Quaglia, Federica;
Balakrishnan, Rama;
Bello, Susan M;
Vasilevsky, Nicole

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

Gold-standard ontology-based anatomical annotation in the CRAFT Corpus.

Published in:

Database: The Journal of Biological Databases & Curation, 2017, v. 2017, n. 1, p. 1, doi. 10.1093/database/bax087

By:

Bada, Michael;
Vasilevsky, Nicole;
Baumgartner Jr., William A.;
Haendel, Melissa;
Hunter, Lawrence E.

Publication type:

Article

Research resources: curating the new eagle-i discovery system†.

Published in:

Database: The Journal of Biological Databases & Curation, 2012, v. 2012, p. 1

By:

Vasilevsky, Nicole;
Johnson, Tenille;
Corday, Karen;
Torniai, Carlo;
Brush, Matthew;
Segerdell, Erik;
Wilson, Melanie;
Shaffer, Chris;
Robinson, David;
Haendel, Melissa

Publication type:

Article

The Resource Identification Initiative: A cultural shift in publishing.

Published in:

Journal of Comparative Neurology, 2016, v. 524, n. 1, p. 8, doi. 10.1002/cne.23913

By:

Bandrowski, Anita;
Brush, Matthew;
Grethe, Jeffery S.;
Haendel, Melissa A;
Kennedy, David N.;
Hill, Sean;
Hof, Patrick R.;
Martone, Maryann E.;
Pols, Maaike;
Tan, Serena C.;
Washington, Nicole;
Zudilova‐Seinstra, Elena;
Vasilevsky, Nicole

Publication type:

Article

Disease insights through cross-species phenotype comparisons.

Published in:

Mammalian Genome, 2015, v. 26, n. 9/10, p. 548, doi. 10.1007/s00335-015-9577-8

By:

Haendel, Melissa;
Vasilevsky, Nicole;
Brush, Matthew;
Hochheiser, Harry;
Jacobsen, Julius;
Oellrich, Anika;
Mungall, Christopher;
Washington, Nicole;
Köhler, Sebastian;
Lewis, Suzanna;
Robinson, Peter;
Smedley, Damian

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

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

Effects of Hydrastis Canadensis, Commiphora Habessinica, Phytolacca Americana, and Echinacea Purpurea on Bacterial Growth.

Published in:

2021

By:

Corn, Joshua;
Tibbitts, Deanne;
Ito, Haruka;
Schafer, Morgan;
Vasilevsky, Nicole

Publication type:

journal article

Significantly different clinical phenotypes associated with mutations in synthesis and transamidase+remodeling glycosylphosphatidylinositol (GPI)-anchor biosynthesis genes.

Published in:

2020

By:

Carmody, Leigh C.;
Blau, Hannah;
Danis, Daniel;
Zhang, Xingman A.;
Gourdine, Jean-Philippe;
Vasilevsky, Nicole;
Krawitz, Peter;
Thompson, Miles D.;
Robinson, Peter N.

Publication type:

journal article

Increased discoverability of rare disease datasets through knowledge graph integration.

Published in:

JAMIA Open, 2025, v. 8, n. 1, p. 1, doi. 10.1093/jamiaopen/ooaf001

By:

Braun, Ian;
Hartley, Emily;
Olson, Daniel;
Matentzoglu, Nicolas;
Schaper, Kevin;
Walls, Ramona;
Vasilevsky, Nicole

Publication type:

Article

Reproducibility and conflicts in immune epitope data.

Published in:

Immunology, 2016, v. 147, n. 3, p. 349, doi. 10.1111/imm.12566

By:

Vita, Randi;
Vasilevsky, Nicole;
Bandrowski, Anita;
Haendel, Melissa;
Sette, Alessandro;
Peters, Bjoern

Publication type:

Article

Ontology based molecular signatures for immune cell types via gene expression analysis.

Published in:

BMC Bioinformatics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2105-14-263

By:

Meehan, Terrence F.;
Vasilevsky, Nicole A.;
Mungall, Christopher J.;
Dougall, David S.;
Haendel, Melissa A.;
Blake, Judith A.;
Diehl, Alexander D.

Publication type:

Article

Registered report: A chromatin-mediated reversible drug-tolerant state in cancer cell subpopulations.

Published in:

eLife, 2016, p. 1, doi. 10.7554/eLife.09462

By:

Haven, Babette;
Heilig, Elysia;
Donham, Cristine;
Settles, Michael;
Vasilevsky, Nicole;
Owen, Katherine

Publication type:

Article

TMOD-19. GABRIELLA MILLER KIDS FIRST DATA RESOURCE CENTER: LARGE-SCALE HARMONIZED CLINICAL AND GENOMIC DATA PLATFORM TO SUPPORT CHILDHOOD CANCER AND STRUCTURAL BIRTH DEFECT RESEARCH.

Published in:

Neuro-Oncology, 2019, v. 21, p. ii125, doi. 10.1093/neuonc/noz036.256

By:

Heath, Allison;
Raman, Pichai;
Zhu, Yuankun;
Lilly, Jena;
Taylor, Deanne;
Storm, Phillip;
Waanders, Angela;
Ferretti, Vincent;
Mattioni, Michele;
Davis-Dusenbery, Brandi;
Flamig, Zachary;
Grossman, Robert;
Volchenboum, Samuel;
Mueller, Sabine;
Nazarian, Javad;
Vasilevsky, Nicole;
Haendel, Melissa;
Resnick, Adam

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

Guidelines for reporting single-cell RNA-seq experiments.

Published in:

2020

By:

Füllgrabe, Anja;
George, Nancy;
Green, Matthew;
Nejad, Parisa;
Aronow, Bruce;
Fexova, Silvie Korena;
Fischer, Clay;
Freeberg, Mallory Ann;
Huerta, Laura;
Morrison, Norman;
Scheuermann, Richard H.;
Taylor, Deanne;
Vasilevsky, Nicole;
Clarke, Laura;
Gehlenborg, Nils;
Kent, Jim;
Marioni, John;
Teichmann, Sarah;
Brazma, Alvis;
Papatheodorou, Irene

Publication type:

Letter