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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
Finding Long-COVID: temporal topic modeling of electronic health records from the N3C and RECOVER programs 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. 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
Risk factors associated with post-acute sequelae of SARS-CoV-2: an N3C and NIH RECOVER study 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. Share Save
Long COVID risk and pre-COVID vaccination in an EHR-based cohort study from the RECOVER program 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.; Stuermer, Til; Divers, Jasmin; Sturmer, Til; Loomba, Johanna J.; Koraishy, Farrukh M.; Thorpe, Lorna E.; Horwitz, Leora; Katz, Stuart Share Save
Risk of post-acute sequelae of SARS-CoV-2 infection associated with pre-coronavirus disease obstructive sleep apnea diagnoses: an electronic health record-based analysis from the RECOVER initiative Mandel, Hannah L.; Colleen, Gunnar; Abedian, Sajjad; Ammar, Nariman; Bailey, L. Charles; Bennett, Tellen D.; Brannock, M. Daniel; Brosnahan, Shari B.; Chen, Yu; Chute, Christopher G.; Divers, Jasmin; Evans, Michael D.; Haendel, Melissa; Hall, Margaret A.; Hirabayashi, Kathryn; Hornig, Mady; Katz, Stuart D.; Krieger, Ana C.; Loomba, Johanna; Lorman, Vitaly; Mazzotti, Diego R.; McMurry, Julie; Moffitt, Richard A.; Pajor, Nathan M.; Pfaff, Emily; Radwell, Jeff; Razzaghi, Hanieh; Redline, Susan; Seibert, Elle; Sekar, Anisha; Sharma, Suchetha; Thaweethai, Tanayott; Weiner, Mark G.; Yoo, Yun Jae; Zhou, Andrea; Thorpe, Lorna E. Share Save
Coding long COVID: characterizing a new disease through an ICD-10 lens 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 Share Save
Generalisable long COVID subtypes: Findings from the NIH N3C and RECOVER programmes Reese, Justin T.; Blau, Hannah; Casiraghi, Elena; Bergquist, Timothy; Loomba, Johanna J.; Callahan, Tiffany J.; Laraway, Bryan; Antonescu, Corneliu; Coleman, Ben; Gargano, Michael; Wilkins, Kenneth J.; Cappelletti, Luca; Fontana, Tommaso; Ammar, Nariman; Antony, Blessy; Murali, T. M.; Caufield, J. Harry; Karlebach, Guy; McMurry, Julie A.; Williams, Andrew; Moffitt, Richard; Banerjee, Jineta; Solomonides, Anthony E.; Davis, Hannah; Kostka, Kristin; Valentini, Giorgio; Sahner, David; Chute, Christopher G.; Madlock-Brown, Charisse; Haendel, Melissa A.; Robinson, Peter N. 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
Identifying who has long COVID in the USA: a machine learning approach using N3C data Pfaff, Emily R.; Girvin, Andrew T.; Bennett, Tellen D.; Bhatia, Abhishek; Brooks, Ian M.; Deer, Rachel R.; Dekermanjian, Jonathan P.; Jolley, Sarah Elizabeth; Kahn, Michael G.; Kostka, Kristin; McMurry, Julie A.; Moffitt, Richard; Walden, Anita; Chute, Christopher G.; Haendel, Melissa A. 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
NSAID use and clinical outcomes in COVID-19 patients: a 38-center retrospective cohort study Reese, Justin T.; Coleman, Ben; Chan, Lauren; Blau, Hannah; Callahan, Tiffany J.; Cappelletti, Luca; Fontana, Tommaso; Bradwell, Katie Rebecca; 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; Mungall, Christopher J.; Williams, Andrew E.; Robinson, Peter N. Share Save
Sleep and circadian informatics data harmonization: a workshop report from the Sleep Research Society and Sleep Research Network Mazzotti, Diego R.; Haendel, Melissa A.; McMurry, Julie A.; Smith, Connor J.; Buysse, Daniel J.; Roenneberg, Till; Penzel, Thomas; Purcell, Shaun; Redline, Susan; Zhang, Ying; Merikangas, Kathleen R.; Menetski, Joseph P.; Mullington, Janet; Boudreau, Eilis Share Save
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
Interpretable prioritization of splice variants in diagnostic next-generation sequencing (vol 108, pg 1564, 2021) Danis, Daniel; Jacobsen, Julius O. B.; Carmody, Leigh C.; Gargano, Michael A.; McMurry, Julie A.; Hegde, Ayushi; Haendel, Melissa A.; Valentini, Giorgio; Smedley, Damian; Robinson, Peter N. Share Save
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