Crowd-sourced machine learning prediction of long COVID using data from the National COVID Cohort CollaborativeResearch in context

Autor: Timothy Bergquist, Johanna Loomba, Emily Pfaff, Fangfang Xia, Zixuan Zhao, Yitan Zhu, Elliot Mitchell, Biplab Bhattacharya, Gaurav Shetty, Tamanna Munia, Grant Delong, Adbul Tariq, Zachary Butzin-Dozier, Yunwen Ji, Haodong Li, Jeremy Coyle, Seraphina Shi, Rachael V. Philips, Andrew Mertens, Romain Pirracchio, Mark van der Laan, John M. Colford, Jr., Alan Hubbard, Jifan Gao, Guanhua Chen, Neelay Velingker, Ziyang Li, Yinjun Wu, Adam Stein, Jiani Huang, Zongyu Dai, Qi Long, Mayur Naik, John Holmes, Danielle Mowery, Eric Wong, Ravi Parekh, Emily Getzen, Jake Hightower, Jennifer Blase, Ataes Aggarwal, Joseph Agor, Amera Al-Amery, Oluwatobiloba Aminu, Adit Anand, Corneliu Antonescu, Mehak Arora, Sayed Asaduzzaman, Tanner Asmussen, Mahdi Baghbanzadeh, Frazier Baker, Bridget Bangert, Laila Bekhet, Jenny Blase, Brian Caffo, Hao Chang, Zeyuan Chen, Jiandong Chen, Jeffrey Chiang, Peter Cho, Robert Cockrell, Parker Combs, Ciara Crosby, Ran Dai, Anseh Danesharasteh, Elif Yildirim, Ryan Demilt, Kaiwen Deng, Sanjoy Dey, Rohan Dhamdhere, Andrew Dickson, Phoebe Dijour, Dong Dinh, Richard Dixon, Albi Domi, Souradeep Dutta, Mirna Elizondo, Zeynep Ertem, Solomon Feuerwerker, Danica Fliss, Jennifer Fowler, Sunyang Fu, Kelly Gardner, Neil Getty, Mohamed Ghalwash, Logan Gloster, Phil Greer, Yuanfang Guan, Colby Ham, Samer Hanoudi, Jeremy Harper, Nathaniel Hendrix, Leeor Hershkovich, Junjie Hu, Yu Huang, Tongtong Huang, Junguk Hur, Monica Isgut, Hamid Ismail, Grant Izmirlian, Kuk Jang, Christianah Jemiyo, Hayoung Jeong, Xiayan Ji, Ming Jiang, Sihang Jiang, Xiaoqian Jiang, Yuye Jiang, Akin Johnson, Zach Analyst, Saarthak Kapse, Uri Kartoun, Dukka KC, Zahra Fard, Tim Kosfeld, Spencer Krichevsky, Mike Kuo, Dale Larie, Lauren Lederer, Shan Leng, Hongyang Li, Jianfu Li, Tiantian Li, Xinwen Liang, Hengyue Liang, Feifan Liu, Daniel Liu, Gang Luo, Ravi Madduri, Vithal Madhira, Shivali Mani, Farzaneh Mansourifard, Robert Matson, Vangelis Metsis, Pablo Meyer, Catherine Mikhailova, Dante Miller, Christopher Milo, Gourav Modanwal, Ronald Moore, David Morgenthaler, Rasim Musal, Vinit Nalawade, Rohan Narain, Saideep Narendrula, Alena Obiri, Satoshi Okawa, Chima Okechukwu, Toluwanimi Olorunnisola, Tim Ossowski, Harsh Parekh, Jean Park, Saaya Patel, Jason Patterson, Chetan Paul, Le Peng, Diana Perkins, Suresh Pokharel, Dmytro Poplavskiy, Zach Pryor, Sarah Pungitore, Hong Qin, Salahaldeen Rababa, Mahbubur Rahman, Elior Rahmani, Gholamali Rahnavard, Md Raihan, Suraj Rajendran, Sarangan Ravichandran, Chandan Reddy, Abel Reyes, Ali Roghanizad, Sean Rouffa, Xiaoyang Ruan, Arpita Saha, Sahil Sawant, Melody Schiaffino, Diego Seira, Saurav Sengupta, Ruslan Shalaev, Linh Shinguyen, Karnika Singh, Soumya Sinha, Damien Socia, Halen Stalians, Charalambos Stavropoulos, Jan Strube, Devika Subramanian, Jiehuan Sun, Ju Sun, Chengkun Sun, Prathic Sundararajan, Salmonn Talebi, Edward Tawiah, Jelena Tesic, Mikaela Thiess, Raymond Tian, Luke Torre-Healy; Ming-Tse Tsai, David Tyus, Madhurima Vardhan, Benjamin Walzer, Jacob Walzer, Junda Wang, Lu Wang, Will Wang, Jonathan Wang, Yisen Wang, Chad Weatherly, Fanyou Wu, Yifeng Wu, Hao Yan, Zhichao Yang, Biao Ye, Rui Yin, Changyu Yin, Yun Yoo, Albert You, June Yu, Martin Zanaj, Zachary Zaiman, Kai Zhang, Xiaoyi Zhang, Tianmai Zhang, Degui Zhi, Yishan Zhong, Huixue Zhou, Andrea Zhou, Yuanda Zhu, Sophie Zhu, Meredith Adams, Caleb Alexander, Benjamin Amor, Alfred Anzalone, Benjamin Bates, Will Beasley, Tellen Bennett, Mark Bissell, Eilis Boudreau, Samuel Bozzette, Katie Bradwell, Carolyn Bramante, Don Brown, Penny Burgoon, John Buse, Tiffany Callahan, Kenrick Cato, Scott Chapman, Christopher Chute, Jaylyn Clark, Marshall Clark, Will Cooper, Lesley Cottrell, Karen Crowley, Mariam Deacy, Christopher Dillon, David Eichmann, Mary Emmett, Rebecca Erwin-Cohen, Patricia Francis, Evan French, Rafael Fuentes, Davera Gabriel, Joel Gagnier, Nicole Garbarini, Jin Ge, Kenneth Gersing, Andrew Girvin, Valery Gordon, Alexis Graves, Justin Guinney, Melissa Haendel, J.W. Hayanga, Brian Hendricks, Wenndy Hernandez, Elaine Hill, William Hillegass, Stephanie Hong, Dan Housman, Robert Hurley, Jessica Islam, Randeep Jawa, Steve Johnson, Rishi Kamaleswaran, Warren Kibbe, Farrukh Koraishy, Kristin Kostka, Michael Kurilla, Adam Lee, Harold Lehmann, Hongfang Liu, Charisse Madlock-Brown; Sandeep Mallipattu, Amin Manna, Federico Mariona, Emily Marti, Greg Martin, Jomol Mathew, Diego Mazzotti, Julie McMurry, Hemalkumar Mehta, Sam Michael, Robert Miller, Leonie Misquitta, Richard Moffitt, Michele Morris, Kimberly Murray, Lavance Northington, Shawn O’Neil, Amy Olex, Matvey Palchuk, Brijesh Patel, Rena Patel, Philip Payne, Jami Pincavitch, Lili Portilla, Fred Prior, Saiju Pyarajan, Lee Pyles, Nabeel Qureshi, Peter Robinson, Joni Rutter, Ofer Sadan, Nasia Safdar, Amit Saha, Joel Saltz, Mary Saltz, Clare Schmitt, Soko Setoguchi, Noha Sharafeldin, Anjali Sharathkumar, Usman Sheikh, Hythem Sidky, George Sokos, Andrew Southerland, Heidi Spratt, Justin Starren, Vignesh Subbian, Christine Suver, Cliff Takemoto, Meredith Temple-O'Connor, Umit Topaloglu, Satyanarayana Vedula, Anita Walden, Kellie Walters, Cavin Ward-Caviness, Adam Wilcox, Ken Wilkins, Andrew Williams, Chunlei Wu, Elizabeth Zampino, Xiaohan Zhang, Richard Zhu

Publikováno v: EBioMedicine, Vol 108, Iss , Pp 105333- (2024)

Summary: Background: While many patients seem to recover from SARS-CoV-2 infections, many patients report experiencing SARS-CoV-2 symptoms for weeks or months after their acute COVID-19 ends, even developing new symptoms weeks after infection. These

Externí odkaz: https://doaj.org/article/fc8b927c62764ca1b7f11ebc4c7f5aba

LMSuccSite: Improving Protein Succinylation Sites Prediction Using Embeddings from Protein Language Model

Autor: Suresh Pokharel, Pawel Pratyush, Michael Heinzinger, Robert Newman, Dukka KC

Protein succinylation is an important post-translational modification (PTM) responsible for many vital metabolic activities in cells, including cellular respiration, regulation, and repair. Here, we present a novel approach that combines features fro

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::19f4a343cc97ae14d72b0d05b9546d6a
https://doi.org/10.21203/rs.3.rs-1953874/v1

Chlamy-EnPhosSite: A deep learning-based approach for Chlamydomonas reinhardtii-specific phosphorylation site prediction

Autor: Kaushik Roy, Dukka Kc, Anthony A. Iannetta, Meenal Chaudhari, Robert H. Newman, Leslie M. Hicks, Clarence White, Niraj Thapa

Protein phosphorylation is one of the most important post-translational modifications (PTMs) and involved in myriad cellular processes. Although many non-organism-specific computational phosphorylation site prediction tools and a few tools for organi

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::4b84d8ff2309e1dd53dec1af9a4ba7a5
https://doi.org/10.21203/rs.3.rs-286990/v1

Promoting Physical Activity Through Social Media Among Women In Midlife

Autor: Kassidy Hayes, Gregory A. Hand, Dukka Kc, Peter R. Giacobbi

Publikováno v: Medicine & Science in Sports & Exercise. 53:251-251

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::5d2473ec5c7954845d6afdbb375961f9
https://doi.org/10.1249/01.mss.0000761992.62680.20

Additional file 3: Figure S1. of CNN-BLPred: a Convolutional neural network based predictor for β-Lactamases (BL) and their classes

Autor: White, Clarence, Ismail, Hamid, Saigo, Hiroto, Dukka KC

Validation/Loss curve for Level 1. Figure S2. Validation/Loss curve for Class A. Figure S3. Validation/Loss curve for Class B (Group 3). Figure S4. Validation/Loss curve for Class C (Group 1). Figure S5. Validation/Loss curve for Class D. Figure S6.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::d0c641ffec8d782c79d9f65259b73214