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Evaluation of GPT and BERT-based models on identifying protein-protein interactions in biomedical text

Autor: Rehana, Hasin, Çam, Nur Bengisu, Basmaci, Mert, Zheng, Jie, Jemiyo, Christianah, He, Yongqun, Özgür, Arzucan, Hur, Junguk

Detecting protein-protein interactions (PPIs) is crucial for understanding genetic mechanisms, disease pathogenesis, and drug design. However, with the fast-paced growth of biomedical literature, there is a growing need for automated and accurate ext

Externí odkaz: http://arxiv.org/abs/2303.17728

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Akademický článek

Crowd-sourced machine learning prediction of long COVID using data from the National COVID Cohort Collaborative

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

Publikováno v: In eBioMedicine October 2024 108

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Akademický článek

Transcriptomic profiling of sciatic nerves and dorsal root ganglia reveals site-specific effects of prediabetic neuropathy

Autor: Eid, Stéphanie A., Elzinga, Sarah E., Guo, Kai, Hinder, Lucy M., Hayes, John M., Pacut, Crystal M., Koubek, Emily J., Hur, Junguk, Feldman, Eva L.

Publikováno v: In Translational Research August 2024 270:24-41

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Ontology-based systematic classification and analysis of coronaviruses, hosts, and host-coronavirus interactions towards deep understanding of COVID-19

Given the existing COVID-19 pandemic worldwide, it is critical to systematically study the interactions between hosts and coronaviruses including SARS-Cov, MERS-Cov, and SARS-CoV-2 (cause of COVID-19). We first created four host-pathogen interaction

Externí odkaz: http://arxiv.org/abs/2006.00639

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Identification of Repurposable Drugs and Adverse Drug Reactions for Various Courses of COVID-19 Based on Single-Cell RNA Sequencing Data

Autor: Wang, Zhihan, Guo, Kai, Gao, Pan, Pu, Qinqin, Wu, Min, Li, Changlong, Hur, Junguk

Coronavirus disease 2019 (COVID-19) has impacted almost every part of human life worldwide, posing a massive threat to human health. There is no specific drug for COVID-19, highlighting the urgent need for the development of effective therapeutics. T

Externí odkaz: http://arxiv.org/abs/2005.07856

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