Justin T Reese (Justin Reese)

Publication Activity (10 Years)

Years Active: 2021-2024
Publications (10 Years): 28

Top Topics

Respiratory Syndrome Coronavirus

Convolutional Neural Network

Top Venues

medRxiv : the preprint server for health sciences

Translational psychiatry

bioRxiv : the preprint server for biology

This page only lists publications with an associated author ORCID identifier.

Publications

Justin T Reese, Leonardo Chimirri, Daniel Danis, J Harry Caufield, Kyran Wissink, Elena Casiraghi, Giorgio Valentini, Melissa A Haendel, Christopher John Mungall, Peter Nick Robinson
Evaluation of the Diagnostic Accuracy of GPT-4 in Five Thousand Rare Disease Cases. medRxiv : the preprint server for health sciences (2024)
Enock Niyonkuru, Mauricio Soto Gomez, Elena Casiraghi, Stephan Antogiovanni, Hannah Blau, Justin T Reese, Giorgio Valentini, Peter Nick Robinson
Replacing non-biomedical concepts improves embedding of biomedical concepts. bioRxiv : the preprint server for biology (2024)
Justin T Reese, Leonardo Chimirri, Daniel Danis, J Harry Caufield, Kyran Wissink, Elena Casiraghi, Giorgio Valentini, Melissa A Haendel, Christopher John Mungall, Peter Nick Robinson
Evaluation of the Diagnostic Accuracy of GPT-4 in Five Thousand Rare Disease Cases. medRxiv : the preprint server for health sciences (2024)
Ben Coleman, Elena Casiraghi, Tiffany J Callahan, Hannah Blau, Lauren E Chan, Bryan Laraway, Kevin B Clark, Yochai Re'em, Ken R Gersing, Kenneth J Wilkins, Nomi L Harris, Giorgio Valentini, Melissa A Haendel, Justin T Reese, Peter Nick Robinson
Association of post-COVID phenotypic manifestations with new-onset psychiatric disease. Translational psychiatry 14 (1) (2024)
J Harry Caufield, Harshad Hegde, Vincent Emonet, Nomi L Harris, Marcin P Joachimiak, Nicolas A Matentzoglu, HyeongSik Kim, Sierra A T Moxon, Justin T Reese, Melissa A Haendel, Peter Nick Robinson, Christopher John Mungall
Structured Prompt Interrogation and Recursive Extraction of Semantics (SPIRES): a method for populating knowledge bases using zero-shot learning. Bioinformatics (Oxford, England) 40 (3) (2024)
Ben Coleman, Elena Casiraghi, Tiffany J Callahan, Hannah Blau, Lauren E Chan, Bryan Laraway, Kevin B Clark, Yochai Re'em, Ken R Gersing, Kenneth J Wilkins, Nomi L Harris, Giorgio Valentini, Melissa A Haendel, Justin T Reese, Peter Nick Robinson
Association of post-COVID phenotypic manifestations with new-onset psychiatric disease. Translational psychiatry 14 (1) (2024)
Luca Cappelletti, Lauren Rekerle, Tommaso Fontana, Peter Hansen, Elena Casiraghi, Vida Ravanmehr, Christopher John Mungall, Jeremy J Yang, Leonard Spranger, Guy Karlebach, J Harry Caufield, Leigh C Carmody, Ben Coleman, Tudor I Oprea, Justin T Reese, Giorgio Valentini, Peter Nick Robinson
Node-degree aware edge sampling mitigates inflated classification performance in biomedical random walk-based graph representation learning. Bioinformatics advances 4 (1) (2024)
Luca Cappelletti, Lauren Rekerle, Tommaso Fontana, Peter Hansen, Elena Casiraghi, Vida Ravanmehr, Christopher John Mungall, Jeremy J Yang, Leonard Spranger, Guy Karlebach, J Harry Caufield, Leigh C Carmody, Ben Coleman, Tudor I Oprea, Justin T Reese, Giorgio Valentini, Peter Nick Robinson
Node-degree aware edge sampling mitigates inflated classification performance in biomedical random walk-based graph representation learning. Bioinformatics advances 4 (1) (2024)
Enock Niyonkuru, Mauricio Soto Gomez, Elena Casiraghi, Stephan Antogiovanni, Hannah Blau, Justin T Reese, Giorgio Valentini, Peter Nick Robinson
Replacing non-biomedical concepts improves embedding of biomedical concepts. bioRxiv : the preprint server for biology (2024)
Enock Niyonkuru, Mauricio Soto Gomez, Elena Casiraghi, Stephan Antogiovanni, Hannah Blau, Justin T Reese, Giorgio Valentini, Peter Nick Robinson
Replacing non-biomedical concepts improves embedding of biomedical concepts. bioRxiv : the preprint server for biology (2024)
J Harry Caufield, Harshad Hegde, Vincent Emonet, Nomi L Harris, Marcin P Joachimiak, Nicolas A Matentzoglu, HyeongSik Kim, Sierra A T Moxon, Justin T Reese, Melissa A Haendel, Peter Nick Robinson, Christopher John Mungall
Structured Prompt Interrogation and Recursive Extraction of Semantics (SPIRES): a method for populating knowledge bases using zero-shot learning. Bioinformatics (Oxford, England) 40 (3) (2024)
Daniel Danis, Michael J Bamshad, Yasemin Bridges, Pilar Cacheiro, Leigh C Carmody, Jessica Xiao-Ling Chong, Ben Coleman, Raymond Dalgleish, Peter J Freeman, Adam S L Graefe, Tudor Groza, Julius O B Jacobsen, Adam Klocperk, Maaike A A Kusters, Markus S Ladewig, Anthony J Marcello, Teresa Mattina, Christopher John Mungall, Monica C Munoz-Torres, Justin T Reese, Filip Rehburg, Bárbara C S Reis, Catharina Schuetz, Damian Smedley, Timmy Strauß, Jagadish Chandrabose Sundaramurthi, Sylvia Thun, Kyran Wissink, John F Wagstaff, David Zocche, Melissa A Haendel, Peter Nick Robinson
A corpus of GA4GH Phenopackets: case-level phenotyping for genomic diagnostics and discovery. medRxiv : the preprint server for health sciences (2024)
Daniel Danis, Michael J Bamshad, Yasemin Bridges, Pilar Cacheiro, Leigh C Carmody, Jessica Xiao-Ling Chong, Ben Coleman, Raymond Dalgleish, Peter J Freeman, Adam S L Graefe, Tudor Groza, Julius O B Jacobsen, Adam Klocperk, Maaike A A Kusters, Markus S Ladewig, Anthony J Marcello, Teresa Mattina, Christopher John Mungall, Monica C Munoz-Torres, Justin T Reese, Filip Rehburg, Bárbara C S Reis, Catharina Schuetz, Damian Smedley, Timmy Strauß, Jagadish Chandrabose Sundaramurthi, Sylvia Thun, Kyran Wissink, John F Wagstaff, David Zocche, Melissa A Haendel, Peter Nick Robinson
A corpus of GA4GH Phenopackets: case-level phenotyping for genomic diagnostics and discovery. medRxiv : the preprint server for health sciences (2024)
J Harry Caufield, Harshad Hegde, Vincent Emonet, Nomi L Harris, Marcin P Joachimiak, Nicolas A Matentzoglu, HyeongSik Kim, Sierra A T Moxon, Justin T Reese, Melissa A Haendel, Peter Nick Robinson, Christopher John Mungall
Structured Prompt Interrogation and Recursive Extraction of Semantics (SPIRES): a method for populating knowledge bases using zero-shot learning. Bioinformatics (Oxford, England) 40 (3) (2024)
Enock Niyonkuru, J Harry Caufield, Leigh C Carmody, Michael Gargano, Sabrina Toro, Patricia L Whetzel, Hannah Blau, Mauricio Soto Gomez, Elena Casiraghi, Leonardo Chimirri, Justin T Reese, Giorgio Valentini, Melissa A Haendel, Christopher John Mungall, Peter Nick Robinson
Leveraging Generative AI to Accelerate Biocuration of Medical Actions for Rare Disease. medRxiv : the preprint server for health sciences (2024)
Ben Coleman, Elena Casiraghi, Tiffany J Callahan, Hannah Blau, Lauren E Chan, Bryan Laraway, Kevin B Clark, Yochai Re'em, Ken R Gersing, Kenneth J Wilkins, Nomi L Harris, Giorgio Valentini, Melissa A Haendel, Justin T Reese, Peter Nick Robinson
Association of post-COVID phenotypic manifestations with new-onset psychiatric disease. Translational psychiatry 14 (1) (2024)
Justin T Reese, Leonardo Chimirri, Daniel Danis, J Harry Caufield, Kyran Wissink, Elena Casiraghi, Giorgio Valentini, Melissa A Haendel, Christopher John Mungall, Peter Nick Robinson
Evaluation of the Diagnostic Accuracy of GPT-4 in Five Thousand Rare Disease Cases. medRxiv : the preprint server for health sciences (2024)
Justin T Reese, Daniel Danis, J Harry Caufield, Elena Casiraghi, Giorgio Valentini, Christopher John Mungall, Peter Nick Robinson
On the limitations of large language models in clinical diagnosis. medRxiv : the preprint server for health sciences (2023)
Timothy Putman, Kevin Schaper, Nicolas A Matentzoglu, Vincent P Rubinetti, Faisal S Alquaddoomi, Corey Cox, J Harry Caufield, Glass Elsarboukh, Sarah Gehrke, Harshad Hegde, Justin T Reese, Ian Braun, Richard M Bruskiewich, Luca Cappelletti, Seth J Carbon, Anita R Caron, Lauren E Chan, Christopher G Chute, Katherina G Cortes, Vinícius De Souza, Tommaso Fontana, Nomi L Harris, Emily L Hartley, Eric Hurwitz, Julius O B Jacobsen, Madan Krishnamurthy, Bryan J Laraway, James Alastair McLaughlin, Julie A McMurry, Sierra A T Moxon, Kathleen R Mullen, Shawn T O'Neil, Kent A Shefchek, Ray Stefancsik, Sabrina Toro, Nicole A Vasilevsky, Ramona L Walls, Patricia L Whetzel, David Osumi-Sutherland, Damian Smedley, Peter Nick Robinson, Christopher John Mungall, Melissa A Haendel, Monica C Munoz-Torres
The Monarch Initiative in 2024: an analytic platform integrating phenotypes, genes and diseases across species. Nucleic acids research (2023)
Daniel Danis, Julius O B Jacobsen, Alex H Wagner, Tudor Groza, Martha A Beckwith, Lauren Rekerle, Leigh C Carmody, Justin T Reese, Harshad Hegde, Markus S Ladewig, Berthold Seitz, Monica Munoz-Torres, Nomi L Harris, Jordi Rambla, Michael Baudis, Christopher J Mungall, Melissa A Haendel, Peter Nick Robinson
Phenopacket-tools: Building and validating GA4GH Phenopackets. PloS one 18 (5) (2023)
Daniel Danis, Julius O B Jacobsen, Alex H Wagner, Tudor Groza, Martha A Beckwith, Lauren Rekerle, Leigh C Carmody, Justin T Reese, Harshad Hegde, Markus S Ladewig, Berthold Seitz, Monica Munoz-Torres, Nomi L Harris, Jordi Rambla, Michael Baudis, Christopher J Mungall, Melissa A Haendel, Peter Nick Robinson
Phenopacket-tools: Building and validating GA4GH Phenopackets. PloS one 18 (5) (2023)
Daniel Danis, Julius O B Jacobsen, Alex H Wagner, Tudor Groza, Martha A Beckwith, Lauren Rekerle, Leigh C Carmody, Justin T Reese, Harshad Hegde, Markus S Ladewig, Berthold Seitz, Monica Munoz-Torres, Nomi L Harris, Jordi Rambla, Michael Baudis, Christopher J Mungall, Melissa A Haendel, Peter Nick Robinson
Phenopacket-tools: Building and validating GA4GH Phenopackets. PloS one 18 (5) (2023)
Lauren E Chan, Elena Casiraghi, Timothy Putman, Justin T Reese, Quaker E Harmon, Kevin Schaper, Harshad Hedge, Giorgio Valentini, Charles P Schmitt, Allison A Motsinger-Reif, Janet E Hall, Christopher John Mungall, Peter Nick Robinson, Melissa A Haendel
Predicting nutrition and environmental factors associated with female reproductive disorders using a knowledge graph and random forests. medRxiv : the preprint server for health sciences (2023)
Michael A Gargano, Nicolas A Matentzoglu, Ben Coleman, Eunice B Addo-Lartey, Anna V Anagnostopoulos, Joel Anderton, Paul Avillach, Anita M Bagley, Eduard Bakštein, James P Balhoff, Gareth Baynam, Susan M Bello, Michael Berk, Holli Bertram, Somer L Bishop, Hannah Blau, David F Bodenstein, Pablo Botas, Kaan Boztug, Jolana Čady, Tiffany J Callahan, Rhiannon Cameron, Seth J Carbon, Francisco Castellanos, J Harry Caufield, Lauren E Chan, Christopher G Chute, Jaime Cruz-Rojo, Noemi Dahan-Oliel, Jon Robert Davids, Maud De Dieuleveult, Vinicius de Souza, Bert B A de Vries, Esther de Vries, J Raymond DePaulo, Beata Derfalvi, Ferdinand Dhombres, Claudia Diaz-Byrd, Alexander J M Dingemans, Bruno Donadille, Michael Henri Duyzend, Reem Elfeky, Shahim Essaid, Carolina Fabrizzi, Giovanna Fico, Helen V Firth, Yun Freudenberg-Hua, Janice M Fullerton, Davera L Gabriel, Kimberley C Gilmour, Jessica L Giordano, Fernando S Goes, Rachel Gore Moses, Ian Green, Matthias Griese, Tudor Groza, Weihong Gu, Julia Pazmandi, Benjamin M Gyori, Ada Hamosh, Marc Hanauer, Kateřina Hanušová, Yongqun Oliver He, Harshad Hegde, Ingo Helbig, Kateřina Řehořová, Charles Tapley Hoyt, Shangzhi Huang, Eric Hurwitz, Julius O B Jacobsen, Xiaofeng Jiang, Lisa Joseph, Kamyar Keramatian, Bryan King, Katrin Knoflach, David A Koolen, Megan L Kraus, Carlo Kroll, Maaike A A Kusters, Markus S Ladewig, David Lagorce, Meng-Chuan Lai, Pablo Lapunzina, Bryan Laraway, David Lewis-Smith, Xiarong Li, Caterina Lucano, Marzieh Majd, Mary L Marazita, Victor Martínez-González, Toby H McHenry, Melvin G McInnis, Julie A McMurry, Michaela Zelinová, Caitlin E Millett, Philip B Mitchell, Veronika Moslerová, Kenji Narutomi, Shahrzad Nematollahi, Julián Nevado, Andrew A Nierenberg, Nikola Novák Čajbiková, Michael C Neale, Soichi Ogishima, Daniel Olson, Abigail Ortiz, Harry Pachajoa, Guiomar Perez de Nanclares, Amy T Peters, Timothy Putman, Christina K Rapp, Ana Rath, Justin T Reese, Lauren Rekerle, Angharad M Roberts, Suzy Roy, Stephan J Sanders, Catharina Schuetz, Eva C Schulte, Thomas G Schulze, Martin Schwarz, Katie Scott, Dominik Seelow, Berthold Seitz, Yiping Shen, Morgan N Similuk, Eric S Simon, Balwinder Singh, Damian Smedley, Cynthia L Smith, Jake T Smolinsky, Sarah H Sperry, Elizabeth Stafford, Ray Stefancsik, Robin Steinhaus, Rebecca Strawbridge, Jagadish Chandrabose Sundaramurthi, Polina Talapova, Jair Antonio Tenorio Castaño, Pavel Tesner, Rhys Huw Thomas, Audrey Thurm, Marek Turnovec, Marielle E van Gijn, Nicole A Vasilevsky, Markéta Vlčková, Anita Walden, Kai Wang, Ronald J Wapner, James Simon Ware, Addo A Wiafe, Samuel A Wiafe, Lisa D Wiggins, Andrew E Williams, Chen Wu, Margot Julia Wyrwoll, Hui Xiong, Nefize Yalin, Yasunori Yamamoto, Lakshmi N Yatham, Anastasia K Yocum, Allan H Young, Zafer Yüksel, Peter P Zandi, Andreas Zankl, Ignacio Zarante, Miroslav Zvolský, Sabrina Toro, Leigh C Carmody, Nomi L Harris, Monica C Munoz-Torres, Daniel Danis, Christopher John Mungall, Sebastian Koehler, Melissa A Haendel, Peter Nick Robinson
The Human Phenotype Ontology in 2024: phenotypes around the world. Nucleic acids research (2023)
Justin T Reese, Hannah Blau, Timothy Bergquist, Johanna J Loomba, Tiffany J Callahan, Bryan Laraway, Corneliu Antonescu, Elena Casiraghi, Ben Coleman, Michael Gargano, Kenneth Wilkins, Luca Cappelletti, Tommaso Fontana, Nariman Ammar, Blessy Antony, T M Murali, Guy Karlebach, Julie A McMurry, Andrew Williams, Richard Moffitt, Jineta Banerjee, Anthony E Solomonides, Hannah Davis, Kristin Kostka, Giorgio Valentini, David Sahner, Christopher G Chute, Charisse Madlock-Brown, Melissa A Haendel, Peter Nick Robinson, null null
Generalizable Long COVID Subtypes: Findings from the NIH N3C and RECOVER Programs. medRxiv : the preprint server for health sciences (2022)
Ben Coleman, Elena Casiraghi, Tiffany J Callahan, Hannah Blau, Lauren Chan, Bryan Laraway, Kevin B Clark, Yochai Reâ Em, Ken R Gersing, Ken Wilkins, Nomi L Harris, Giorgio Valentini, Melissa A Haendel, Justin T Reese, Peter Nick Robinson, null null
Post-COVID Phenotypic Manifestations are Associated with New-Onset Psychiatric Disease: Findings from the NIH N3C and RECOVER Studies. medRxiv : the preprint server for health sciences (2022)
Justin T Reese, Ben Coleman, Lauren E Chan, Hannah Blau, Tiffany J Callahan, Luca Cappelletti, Tommaso Fontana, Katie Rebecca Bradwell, Nomi L Harris, Elena Casiraghi, Giorgio Valentini, Guy Karlebach, Rachel R Deer, Julie A McMurry, Melissa A Haendel, Christopher G Chute, Emily Rose Pfaff, Richard A Moffitt, Heidi M Spratt, Jasvinder A Singh, Christopher John Mungall, Andrew E Williams, Peter Nick Robinson
Cyclooxygenase inhibitor use is associated with increased COVID-19 severity. medRxiv : the preprint server for health sciences (2021)
Halie M Rando, Tellen D Bennett, James Brian Byrd, Carolyn T Bramante, Tiffany J Callahan, Christopher G Chute, Hannah E Davis, Rachel R Deer, Joel J Gagnier, Farrukh M Koraishy, Feifan Liu, Julie A McMurry, Richard A Moffitt, Emily Rose Pfaff, Justin T Reese, Rose Relevo, Peter Nick Robinson, Joseph Saltz, Anthony E Solomonides, Anupam Ashutosh Sule, Umit Topaloglu, Melissa A Haendel
Challenges in defining Long COVID: Striking differences across literature, Electronic Health Records, and patient-reported information. medRxiv : the preprint server for health sciences (2021)