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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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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 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
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
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

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