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The Unified Phenotype Ontology : a framework for cross-species integrative phenomics Matentzoglu, Nicolas; Bello, Susan M.; Stefancsik, Ray; Alghamdi, Sarah M.; Anagnostopoulos, Anna, V; Balhoff, James P.; Balk, Meghan A.; Bradford, Yvonne M.; Bridges, Yasemin; Callahan, Tiffany J.; Caufield, Harry; Cuzick, Alayne; Carmody, Leigh C.; Caron, Anita R.; de Souza, Vinicius; Engel, Stacia R.; Fey, Petra; Fisher, Malcolm; Gehrke, Sarah; Grove, Christian; Hansen, Peter; Harris, Nomi L.; Harris, Midori A.; Harris, Laura; Ibrahim, Arwa; Jacobsen, Julius O. B.; Koehler, Sebastian; Mcmurry, Julie A.; Munoz-Fuentes, Violeta; Munoz-Torres, Monica C.; Parkinson, Helen; Pendlington, Zoe M.; Pilgrim, Clare; Robb, Sofia M. C.; Robinson, Peter N.; Seager, James; Segerdell, Erik; Smedley, Damian; Sollis, Elliot; Toro, Sabrina; Vasilevsky, Nicole; Wood, Valerie; Haendel, Melissa A.; Mungall, Christopher J.; Mclaughlin, James A.; Osumi-Sutherland, David Share Save
The Medical Action Ontology: A tool for annotating and analyzing treatments and clinical management of human disease Carmody, Leigh C.; Gargano, Michael A.; Toro, Sabrina; Vasilevsky, Nicole A.; Adam, Margaret P.; Blau, Hannah; Chan, Lauren E.; Gomez-Andres, David; Horvath, Rita; Kraus, Megan L.; Ladewig, Markus S.; Lewis-Smith, David; Lochmueller, Hanns; Matentzoglu, Nicolas A.; Munoz-Torres, Monica C.; Schuetz, Catharina; Seitz, Berthold; Similuk, Morgan N.; Sparks, Teresa N.; Strauss, Timmy; Swietlik, Emilia M.; Thompson, Rachel; Zhang, Xingmin Aaron; Mungall, Christopher J.; Haendel, Melissa A.; Robinson, Peter N. Share Save
The Monarch Initiative in 2024: an analytic platform integrating phenotypes, genes and diseases across species 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, Vinicius; Fontana, Tommaso; Harris, Nomi L.; Hartley, Emily L.; Hurwitz, Eric; Jacobsen, Julius O. B.; Krishnamurthy, Madan; Laraway, Bryan J.; McLaughlin, James A.; McMurry, Julie A.; Moxon, Sierra A. T.; Mullen, Kathleen R.; O'Neil, Shawn T.; Shefchek, Kent A.; Stefancsik, Ray; Toro, Sabrina; Vasilevsky, Nicole A.; Walls, Ramona L.; Whetzel, Patricia L.; Osumi-Sutherland, David; Smedley, Damian; Robinson, Peter N.; Mungall, Christopher J.; Haendel, Melissa A.; Munoz-Torres, Monica C. Share Save
The Human Phenotype Ontology in 2024: phenotypes around the world Gargano, Michael A.; Matentzoglu, Nicolas; Coleman, Ben; Addo-Lartey, Eunice B.; Anagnostopoulos, Anna, V; Anderton, Joel; Avillach, Paul; Bagley, Anita M.; Bakstein, Eduard; Balhoff, James P.; Baynam, Gareth; Bello, Susan M.; Berk, Michael; Bertram, Holli; Bishop, Somer; Blau, Hannah; Bodenstein, David F.; Botas, Pablo; Boztug, Kaan; Cady, Jolana; Callahan, Tiffany J.; Cameron, Rhiannon; Carbon, Seth J.; Castellanos, Francisco; Caufield, J. Harry; Chan, Lauren E.; Chute, Christopher G.; Cruz-Rojo, Jaime; Dahan-Oliel, Noemi; Davids, Jon R.; de Dieuleveult, Maud; de Souza, Vinicius; de Vries, Bert B. A.; de Vries, Esther; DePaulo, J. Raymond; Derfalvi, Beata; Dhombres, Ferdinand; Diaz-Byrd, Claudia; Dingemans, Alexander J. M.; Donadille, Bruno; Duyzend, Michael; Elfeky, Reem; Essaid, Shahim; Fabrizzi, Carolina; Fico, Giovanna; Firth, Helen, V; Freudenberg-Hua, Yun; Fullerton, Janice M.; Gabriel, Davera L.; Gilmour, Kimberly; Giordano, Jessica; Goes, Fernando S.; Moses, Rachel Gore; Green, Ian; Griese, Matthias; Groza, Tudor; Gu, Weihong; Guthrie, Julia; Gyori, Benjamin; Hamosh, Ada; Hanauer, Marc; Hanusova, Katerina; He, Yongqun (Oliver); Hegde, Harshad; Helbig, Ingo; Holasova, Katerina; Hoyt, Charles Tapley; Huang, Shangzhi; Hurwitz, Eric; Jacobsen, Julius O. B.; Jiang, Xiaofeng; Joseph, Lisa; Keramatian, Kamyar; King, Bryan; Knoflach, Katrin; Koolen, David A.; Kraus, Megan L.; Kroll, Carlo; Kusters, Maaike; Ladewig, Markus S.; Lagorce, David; Lai, Meng-Chuan; Lapunzina, Pablo; Laraway, Bryan; Lewis-Smith, David; Li, Xiarong; Lucano, Caterina; Majd, Marzieh; Marazita, Mary L.; Martinez-Glez, Victor; McHenry, Toby H.; McInnis, Melvin G.; McMurry, Julie A.; Mihulova, Michaela; Millett, Caitlin E.; Mitchell, Philip B.; Moslerova, Veronika; Narutomi, Kenji; Nematollahi, Shahrzad; Nevado, Julian; Nierenberg, Andrew A.; Cajbikova, Nikola Novak; Nurnberger, John I., Jr.; Ogishima, Soichi; Olson, Daniel; Ortiz, Abigail; Pachajoa, Harry; Perez de Nanclares, Guiomar; Peters, Amy; Putman, Tim; Rapp, Christina K.; Rath, Ana; Reese, Justin; Rekerle, Lauren; Roberts, Angharad M.; Roy, Suzy; Sanders, Stephan J.; Schuetz, Catharina; Schulte, Eva C.; Schulze, Thomas G.; Schwarz, Martin; Scott, Katie; Seelow, Dominik; Seitz, Berthold; Shen, Yiping; Similuk, Morgan N.; Simon, Eric S.; Singh, Balwinder; Smedley, Damian; Smith, Cynthia L.; Smolinsky, Jake T.; Sperry, Sarah; Stafford, Elizabeth; Stefancsik, Ray; Steinhaus, Robin; Strawbridge, Rebecca; Sundaramurthi, Jagadish Chandrabose; Talapova, Polina; Tenorio Castano, Jair A.; Tesner, Pavel; Thomas, Rhys H.; Thurm, Audrey; Turnovec, Marek; van Gijn, Marielle E.; Vasilevsky, Nicole A.; Vlckova, Marketa; Walden, Anita; Wang, Kai; Wapner, Ron; Ware, James S.; Wiafe, Addo A.; Wiafe, Samuel A.; Wiggins, Lisa D.; Williams, Andrew E.; Wu, Chen; Wyrwoll, Margot J.; Xiong, Hui; Yalin, Nefize; Yamamoto, Yasunori; Yatham, Lakshmi N.; Yocum, Anastasia K.; Young, Allan H.; Yueksel, Zafer; Zandi, Peter P.; Zankl, Andreas; Zarante, Ignacio; Zvolsky, Miroslav; Toro, Sabrina; Carmody, Leigh C.; Harris, Nomi L.; Munoz-Torres, Monica C.; Danis, Daniel; Mungall, Christopher J.; Koehler, Sebastian; Haendel, Melissa A.; Robinson, Peter N. Share Save
Ontologizing health systems data at scale: making translational discovery a reality Callahan, Tiffany J.; Stefanski, Adrianne L.; Wyrwa, Jordan M.; Zeng, Chenjie; Ostropolets, Anna; Banda, Juan M.; Baumgartner, William A., Jr.; Boyce, Richard D.; Casiraghi, Elena; Coleman, Ben D.; Collins, Janine H.; Davies, Sara J. Deakyne; Feinstein, James A.; Lin, Asiyah Y.; Martin, Blake; Matentzoglu, Nicolas A.; Meeker, Daniella; Reese, Justin; Sinclair, Jessica; Taneja, Sanya B.; Trinkley, Katy E.; Vasilevsky, Nicole A.; Williams, Andrew E.; Zhang, Xingmin A.; Denny, Joshua C.; Ryan, Patrick B.; Hripcsak, George; Bennett, Tellen D.; Haendel, Melissa A.; Robinson, Peter N.; Hunter, Lawrence E.; Kahn, Michael G. Share Save
Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies 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; Stefancsik, Ray; Robb, Sofia M. C.; Toro, Sabrina; Vasilevsky, Nicole A.; Walls, Ramona; Mungall, Christopher J.; Osumi-Sutherland, David Share Save
The GA4GH Phenopacket schema defines a computable representation of clinical data Jacobsen, Julius O. B.; Baudis, Michael; Baynam, Gareth S.; Beckmann, Jacques S.; Beltran, Sergi; Buske, Orion J.; Callahan, Tiffany J.; Chute, Christopher G.; Courtot, Melanie; Danis, Daniel; Elemento, Olivier; Essenwanger, Andrea; Freimuth, Robert R.; Gargano, Michael A.; Groza, Tudor; Hamosh, Ada; Harris, Nomi L.; Kaliyaperumal, Rajaram; Lloyd, Kevin C. Kent; Khalifa, Aly; Krawitz, Peter M.; Koeler, Sebastian; Laraway, Brian J.; Lehvaslaiho, Heikki; Matalonga, Leslie; McMurry, Julie A.; Metke-Jimenez, Alejandro; Mungall, Christopher J.; Munoz-Torres, Monica C.; Ogishima, Soichi; Papakonstantinou, Anastasios; Piscia, Davide; Pontikos, Nikolas; Queralt-Rosinach, Nuria; Roos, Marco; Sass, Julian; Schofield, Paul N.; Seelow, Dominik; Siapos, Anastasios; Smedley, Damian; Smith, Lindsay D.; Steinhaus, Robin; Sundaramurthi, Jagadish Chandrabose; Swietlik, Emilia M.; Thun, Sylvia; Vasilevsky, Nicole A.; Wagner, Alex H.; Warner, Jeremy L.; Weiland, Claus; Haendel, Melissa A.; Robinson, Peter N. Share Save
A Simple Standard for Sharing Ontological Mappings (SSSOM) Matentzoglu, Nicolas; Balhoff, James P.; Bello, Susan M.; Bizon, Chris; Brush, Matthew; Callahan, Tiffany J.; Chute, Christopher G.; Duncan, William D.; Evelo, Chris T.; Gabriel, Davera; Graybeal, John; Gray, Alasdair; Gyori, Benjamin M.; Haendel, Melissa; Harmse, Henriette; Harris, Nomi L.; Harrow, Ian; Hegde, Harshad B.; Hoyt, Amelia L.; Hoyt, Charles T.; Jiao, Dazhi; Jimenez-Ruiz, Ernesto; Jupp, Simon; Kim, Hyeongsik; Koehler, Sebastian; Liener, Thomas; Long, Qinqin; Malone, James; McLaughlin, James A.; McMurry, Julie A.; Moxon, Sierra; Munoz-Torres, Monica C.; Osumi-Sutherland, David; Overton, James A.; Peters, Bjoern; Putman, Tim; Queralt-Rosinach, Nuria; Shefchek, Kent; Solbrig, Harold; Thessen, Anne; Tudorache, Tania; Vasilevsky, Nicole; Wagner, Alex H.; Mungall, Christopher J. Share Save
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Characterizing Long COVID: Deep Phenotype of a Complex Condition Deer, Rachel R.; Rock, Madeline A.; Vasilevsky, Nicole; Carmody, Leigh; Rando, Halie; Anzalone, Alfred J.; Basson, Marc D.; Bennett, Tellen D.; Bergquist, Timothy; Boudreau, Eilis A.; Bramante, Carolyn T.; Byrd, James Brian; Callahan, Tiffany J.; Chan, Lauren E.; Chu, Haitao; Chute, Christopher G.; Coleman, Ben D.; Davis, Hannah E.; Gagnier, Joel; Greene, Casey S.; Hillegass, William B.; Kavuluru, Ramakanth; Kimble, Wesley D.; Koraishy, Farrukh M.; Kohler, Sebastian; Liang, Chen; Liu, Feifan; Liu, Hongfang; Madhira, Vithal; Madlock-Brown, Charisse R.; Matentzoglu, Nicolas; Mazzotti, Diego R.; McMurry, Julie A.; McNair, Douglas S.; Moffitt, Richard A.; Monteith, Teshamae S.; Parker, Ann M.; Perry, Mallory A.; Pfaff, Emily; Reese, Justin T.; Saltz, Joel; Schuff, Robert A.; Solomonides, Anthony E.; Solway, Julian; Spratt, Heidi; Stein, Gary S.; Sule, Anupam A.; Topaloglu, Umit; Vavougios, George D.; Wang, Liwei; Haendel, Melissa A.; Robinson, Peter N. Share Save
OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies 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, Christian J., Jr.; Vasilevsky, Nicole A.; Walls, Ramona L.; Zheng, Jie; Mungall, Christopher J.; Peters, Bjoern Share Save
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The Human Phenotype Ontology in 2021 Koehler, Sebastian; Gargano, Michael; Matentzoglu, Nicolas; Carmody, Leigh C.; Lewis-Smith, David; Vasilevsky, Nicole A.; Danis, Daniel; Balagura, Ganna; Baynam, Gareth; Brower, Amy M.; Callahan, Tiffany J.; Chute, Christopher G.; Est, Johanna L.; Galer, Peter D.; Ganesan, Shiva; Griese, Matthias; Haimel, Matthias; Pazmandi, Julia; Hanauer, Marc; Harris, Nomi L.; Hartnett, Michael J.; Hastreiter, Maximilian; Hauck, Fabian; He, Yongqun; Jeske, Tim; Kearney, Hugh; Kindle, Gerhard; Klein, Christoph; Knoflach, Katrin; Krause, Roland; Lagorce, David; McMurry, Julie A.; Miller, Jillian A.; Munoz-Torres, Monica C.; Peters, Rebecca L.; Rapp, Christina K.; Rath, Ana M.; Rind, Shahmir A.; Rosenberg, Avi Z.; Segal, Michael M.; Seidel, Markus G.; Smedley, Damian; Talmy, Tomer; Thomas, Yarlalu; Wiafe, Samuel A.; Xian, Julie; Yueksel, Zafer; Helbig, Ingo; Mungall, Christopher J.; Haendel, Melissa A.; Robinson, Peter N. Share Save
Community Approaches for Integrating Environmental Exposures into Human Models of Disease 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. Share Save
Guidelines for reporting single-cell RNA-seq experiments Fullgrabe, 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 Share Save
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The Sickle Cell Disease Ontology: enabling universal sickle cell-based knowledge representation Adekile, Adekunle; Anie, Kofi A.; Ben Hamda, Cherif; Brown, Biobele; Bukini, Daima; Campbell, Andrew; Chaouch, Melek; Chimusa, Emile; Chunda-Liyoka, Catherine; Dennis-Antwi, Jemima; Derebail, Vimal K.; Flor-Park, Miriam; Geard, Amy; Ghedira, Kais; Haendel, Melissa; Hanchard, Neil A.; Hotchkiss, Jade; Jonas, Mario; Ibrahim, Muntaser; Ingram, Clair; Inusa, Baba; Jimoh, Adijat Ozohu; Jupp, Simon; Kamga, Karen; Kashim, Zainab Abimbola; Knight-Madden, Jennifer; Landoure, Guida; Lopez-Sall, Philomene; Makani, Julie; Malasa, Leonard; Masekoameng, Tshepiso; Mazandu, Gaston; Mnika, Khuthala; Mulder, Nicola; Munung, Nchangwi Syntia; Munube, Deogratias; Mwita, Liberata; Nembaware, Victoria; Nnodu, Obiageli; Ofori-Acquah, Solomon; Ohene-Frempong, Kwaku; Osei-Akoto, Alex; Paintsil, Vivian; Panji, Sumir; Rahimy, Mohamed Cherif; Royal, Charmaine; Sangeda, Raphael Z.; Tayo, Bamidele; Tiouiri, Ines; Tluway, Furahini; Treadwell, Marsha; Tshilolo, Leon; Vasilevsky, Nicole; Waiswa, Kasadhakawo Musa; Wonkam, Ambroise Share Save
Representing glycophenotypes: semantic unification of glycobiology resources for disease discovery Gourdine, Jean-Philippe F.; Brush, Matthew H.; Vasilevsky, Nicole A.; Shefchek, Kent; Koehler, Sebastian; Matentzoglu, Nicolas; Munoz-Torres, Monica C.; McMurry, Julie A.; Zhang, Xingmin Aaron; Robinson, Peter N.; Haendel, Melissa A. Share Save
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