Cell ontology in an age of data-driven cell classification

by Osumi-Sutherland, David
Published in BMC bioinformatics

The NHGRI-EBI GWAS Catalog: knowledgebase and deposition resource

by Sollis, Elliot, Mosaku, Abayomi, Abid, Ala, Buniello, Annalisa, Cerezo, Maria, Gil, Laurent, Groza, Tudor, Güneş, Osman, Hall, Peggy, Hayhurst, James, Ibrahim, Arwa, Ji, Yue, John, Sajo, Lewis, Elizabeth, MacArthur, Jacqueline A L, McMahon, Aoife, Osumi-Sutherland, David, Panoutsopoulou, Kalliope, Pendlington, Zoë, Ramachandran, Santhi, Stefancsik, Ray, Stewart, Jonathan, Whetzel, Patricia, Wilson, Robert, Hindorff, Lucia, Cunningham, Fiona, Lambert, Samuel A, Inouye, Michael, Parkinson, Helen, Harris, Laura W
Published in Nucleic acids research

Expression Atlas update: gene and protein expression in multiple species

by Moreno, Pablo, Fexova, Silvie, George, Nancy, Manning, Jonathan R, Miao, Zhichiao, Mohammed, Suhaib, Muñoz-Pomer, Alfonso, Fullgrabe, Anja, Bi, Yalan, Bush, Natassja, Iqbal, Haider, Kumbham, Upendra, Solovyev, Andrey, Zhao, Lingyun, Prakash, Ananth, García-Seisdedos, David, Kundu, Deepti J, Wang, Shengbo, Walzer, Mathias, Clarke, Laura, Osumi-Sutherland, David, Tello-Ruiz, Marcela Karey, Kumari, Sunita, Ware, Doreen, Eliasova, Jana, Arends, Mark J, Nawijn, Martijn C, Meyer, Kerstin, Burdett, Tony, Marioni, John, Teichmann, Sarah, Vizcaíno, Juan Antonio, Brazma, Alvis, Papatheodorou, Irene
Published in Nucleic acids research

Using OWL reasoning to support the generation of novel gene sets for enrichment analysis

by Osumi-Sutherland, David J, Ponta, Enrico, Courtot, Melanie, Parkinson, Helen, Badi, Laura
Published in Journal of biomedical semantics

The Virtual Fly Brain browser and query interface

by Milyaev, Nestor, Osumi-Sutherland, David, Reeve, Simon, Burton, Nicholas, Baldock, Richard A, Armstrong, J. Douglas
Published in Bioinformatics

Dead simple OWL design patterns

by Osumi-Sutherland, David, Courtot, Melanie, Balhoff, James P, Mungall, Christopher
Published in Journal of biomedical semantics

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

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

The Xenopus phenotype ontology: bridging model organism phenotype data to human health and development

by Fisher, Malcolm E, Segerdell, Erik, Matentzoglu, Nicolas, Nenni, Mardi J, Fortriede, Joshua D, Chu, Stanley, Pells, Troy J, Osumi-Sutherland, David, Chaturvedi, Praneet, James-Zorn, Christina, Sundararaj, Nivitha, Lotay, Vaneet S, Ponferrada, Virgilio, Wang, Dong Zhuo, Kim, Eugene, Agalakov, Sergei, Arshinoff, Bradley I, Karimi, Kamran, Vize, Peter D, Zorn, Aaron M
Published in BMC bioinformatics

Virtual Fly Brain-An interactive atlas of the Drosophila nervous system

by Court, Robert, Costa, Marta, Pilgrim, Clare, Millburn, Gillian, Holmes, Alex, McLachlan, Alex, Larkin, Aoife, Matentzoglu, Nicolas, Kir, Huseyin, Parkinson, Helen, Brown, Nicolas H, O'Kane, Cahir J, Armstrong, J Douglas, Jefferis, Gregory S X E, Osumi-Sutherland, David
Published in Frontiers in physiology

The Drosophila anatomy ontology

by Costa, Marta, Reeve, Simon, Grumbling, Gary, Osumi-Sutherland, David
Published in Journal of biomedical semantics

Guidelines for the functional annotation of microRNAs using the Gene Ontology

by Huntley, Rachael P, Sitnikov, Dmitry, Orlic-Milacic, Marija, Balakrishnan, Rama, D'Eustachio, Peter, Gillespie, Marc E, Howe, Doug, Kalea, Anastasia Z, Maegdefessel, Lars, Osumi-Sutherland, David, Petri, Victoria, Smith, Jennifer R, Van Auken, Kimberly, Wood, Valerie, Zampetaki, Anna, Mayr, Manuel, Lovering, Ruth C
Published in RNA (Cambridge)

Specimen, biological structure, and spatial ontologies in support of a Human Reference Atlas

by Herr, 2nd, Bruce W, Hardi, Josef, Quardokus, Ellen M, Bueckle, Andreas, Chen, Lu, Wang, Fusheng, Caron, Anita R, Osumi-Sutherland, David, Musen, Mark A, Börner, Katy
Published in Scientific data

Brain Data Standards - A method for building data-driven cell-type ontologies

by Tan, Shawn Zheng Kai, Kir, Huseyin, Aevermann, Brian D, Gillespie, Tom, Harris, Nomi, Hawrylycz, Michael J, Jorstad, Nikolas L, Lein, Ed S, Matentzoglu, Nicolas, Miller, Jeremy A, Mollenkopf, Tyler S, Mungall, Christopher J, Ray, Patrick L, Sanchez, Raymond E A, Staats, Brian, Vermillion, Jim, Yadav, Ambika, Zhang, Yun, Scheuermann, Richard H, Osumi-Sutherland, David
Published in Scientific data

Author Correction: Brain Data Standards - A method for building data-driven cell-type ontologies

by Tan, Shawn Zheng Kai, Kir, Huseyin, Aevermann, Brian D, Gillespie, Tom, Harris, Nomi, Hawrylycz, Michael J, Jorstad, Nikolas L, Lein, Ed S, Matentzoglu, Nicolas, Miller, Jeremy A, Mollenkopf, Tyler S, Mungall, Christopher J, Ray, Patrick L, Sanchez, Raymond E A, Staats, Brian, Vermillion, Jim, Yadav, Ambika, Zhang, Yun, Scheuermann, Richard H, Osumi-Sutherland, David
Published in Scientific data

Systematic analysis of experimental phenotype data reveals gene functions

by Hoehndorf, Robert, Hardy, Nigel W, Osumi-Sutherland, David, Tweedie, Susan, Schofield, Paul N, Gkoutos, Georgios V
Published in PloS one

FlyBase: enhancing Drosophila Gene Ontology annotations

by Tweedie, Susan, Ashburner, Michael, Falls, Kathleen, Leyland, Paul, McQuilton, Peter, Marygold, Steven, Millburn, Gillian, Osumi-Sutherland, David, Schroeder, Andrew, Seal, Ruth, Zhang, Haiyan
Published in Nucleic acids research

FlyBase 101 - the basics of navigating FlyBase

by McQuilton, Peter, St. Pierre, Susan E, Thurmond, Jim
Published in Nucleic acids research

FlyBase: improvements to the bibliography

by Marygold, Steven J, Leyland, Paul C, Seal, Ruth L, Goodman, Joshua L, Thurmond, Jim, Strelets, Victor B, Wilson, Robert J
Published in Nucleic acids research

Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly

by De Waegeneer, Maxime, Kolluru, Sai Saroja, Davie, Kristofer, Gardeux, Vincent, Saelens, Wouter, David, Fabrice P A, Brbić, Maria, Spanier, Katina, Leskovec, Jure, McLaughlin, Colleen N, Jones, Robert C, Shim, Jiwon, Tattikota, Sudhir Gopal, Schnorrer, Frank, Rust, Katja, Nystul, Todd G, Ribeiro, Carlos, Pal, Soumitra, Mahadevaraju, Sharvani, Przytycka, Teresa M, Allen, Aaron M, Goodwin, Stephen F, Fuller, Margaret T, Matunis, Erika L, Galenza, Anthony, O'Brien, Lucy Erin, Jasper, Heinrich, Oliver, Brian, Perrimon, Norbert, Deplancke, Bart, Quake, Stephen R, Aerts, Stein, Ahmed-Braimah, Yasir, Arbeitman, Michelle, Ariss, Majd M, Augsburger, Jordan, Ayush, Kumar, Bolival, Benjamin, Brantley, Susanna E, Brill, Julie A, Brown, Nora C, Cai, Xiaoyu Tracy, Chang, Amy, Clandinin, Thomas R, Crasta, Sheela, Engert, Stefanie, Floc'hlay, Swann, González-Segarra, Amanda J, Groves, Andrew K, Gumbin, Samantha, Harris, Devon E, Heifetz, Yael, Holtz, Stephen L, Hudry, Bruno, Hung, Ruei-Jiun, Jan, Yuh Nung, Jaszczak, Jacob S, Karr, Timothy L, Kim, Seung K, Kockel, Lutz, Konstantinides, Nikolaos, Kornberg, Thomas B, Labott, Andrew Thomas, Laturney, Meghan, Lehmann, Ruth, Li, Jiefu, Li, Joshua Shing Shun, Li, Kai, Li, Liying, Li, Tun, Liu, Yifang, Manning, Jonathan, Mase, Anjeli, Matera-Vatnick, Mikaela, Neff, Norma, Ngo, Sang, Nielsen, Tanja, Osumi-Sutherland, David, Özel, Mehmet Neset, Papatheodorou, Irene, Dos Santos, Gilberto, Scott, Kristin, Sherlekar, Aparna, Shiu, Philip, Sims, David, Sit, Rene V, Slaidina, Maija, Su, Yu-Han, Sutton, Daniel, Tan, Michelle, Tastekin, Ibrahim, Treiber, Christoph, Vogler, Georg, Wang, Wanpeng, Wilson, Rachel I, Wong, Yiu-Cheung E, Xie, Anthony, Yan, Jia, Yao, Zepeng, Zhu, Ruijun
Published in Science (American Association for the Advancement of Science)

COVoc and COVTriage: novel resources to support literature triage

by Caucheteur, Déborah, May Pendlington, Zoë, Roncaglia, Paola, Gobeill, Julien, Mottin, Luc, Matentzoglu, Nicolas, Agosti, Donat, Osumi-Sutherland, David, Parkinson, Helen, Ruch, Patrick
Published in Bioinformatics (Oxford, England)