Digital Commons Network^™

Non-Homologous End-Joining Genotype, Mrna Expression, And Dna Repair Capacity In Childhood Acute Lymphocytic Leukemia, Chao-Chun Chen, Wen-Shin Chang, Jen-Sheng Pei, Chien-Chung Kuo, Chung-Hsing Wang, Yun-Chi Wang, Pei-Chen Hsu, Jie-Long He, Jian Gu, Da-Tian Bau, Chia-Wen Tsai

Faculty, Staff and Student Publications

Background/aim: The capacity for non-homologous end-joining (NHEJ) repair plays a pivotal role in maintaining genome stability and in carcinogenesis. However, there is little literature on the involvement of NHEJ-related genes in childhood acute lymphocytic leukemia (ALL). Our study aimed to elucidate the impact of polymorphisms of X-ray repair cross-complementing group 4 (XRCC4) (rs6869366, rs2075685, rs2075686, rs28360071, rs3734091, rs28360317, rs1805377), XRCC5 (rs828907, rs11685387, rs9288518), XRCC6 (rs5751129, rs2267437, rs132770, rs132774), XRCC7 rs7003908, and DNA ligase IV (LIG4) rs1805388, on the odds of childhood ALL.

Materials and methods: Genotypes NHEJ-related genes of 266 cases and 266 controls were determined, and the genotype-phenotype correlation …

Single-Molecule Fret Analyses Of Nmda Receptors, Ryan J Durham, Vasanthi Jayaraman

Faculty, Staff and Student Publications

Single-molecule fluorescence resonance energy transfer (smFRET) enables the real-time observation of conformational changes in a single protein molecule of interest. These observations are achieved by attaching fluorophores to proteins of interest in a site-specific manner and investigating the FRET between the fluorophores. Here we describe the method wherein the FRET is studied by adhering the protein molecules to a slide using affinity-based interactions and measuring the fluorophores' fluorescence intensity from a single molecule over time. The resulting information can be used to derive distance values for a point-to-point measurement within a protein or to calculate kinetic transition rates between various …

Facilitating Clinical Information Extraction With Synthetic Data And Ontology Using Large Language Models, Yan Hu, Huan He, Qingyu Chen, Xiaoqian Jiang, Kirk Roberts, Hua Xu

Faculty, Staff and Student Publications

The rapid growth of unstructured clinical text in electronic health records necessitates robust information extraction systems, yet their development is hindered by the scarcity of high-quality annotated data. This study explores the potential of large language models to generate synthetic data for clinical named entity recognition and examines its impact on model performance. We propose a novel framework that integrates self-verified synthetic data generation with domain-specific semantic mapping using SNOMED-CT. By leveraging GPT-4o-mini for synthetic data creation and refining its quality through iterative verification and anomaly detection, we systematically evaluate the influence of synthetic data quality and quantity on fine-tuning …

Fgf5, Evelyn A Carrion, Malcolm M Moses, Richard R Behringer

Faculty, Staff and Student Publications

FGF5 functions as a negative regulator of the hair cycle in mammals. It is expressed in the outer root sheath of hair follicles during the late anagen phase of the hair cycle. It functions as a signaling molecule, mediating the transition of the anagen growth phase to catagen regression phase of the hair cycle. Spontaneous and engineered FGF5 mutations in mammalian animal models result in long hair phenotypes. In humans, inherited FGF5 mutations result in trichomegaly (long eyelashes). Knockdown of fgf5 in zebrafish embryos results in inner ear alterations. Alterations in FGF5 expression are also associated with various human pathologies.

A Reinforcement Learning (Rl)-Motivated Simulation Framework For Evaluating Vancomycin Dosing Strategies, Bingyu Mao, Ziqian Xie, Laila Rasmy, Masayuki Nigo, Degui Zhi

Faculty, Staff and Student Publications

Achieving and maintaining the therapeutic range in vancomycin treatment is important for optimal outcomes. While guidelines and best practices based on empirical studies exist, the theoretical best dosing strategies under various conditions remain illusive. We developed an RL-based simulation framework using a deep learning two-compartment pharmacokinetic model (PK-RNN-2CM) and introduced the area under the time-concentration curve (AUC) reward score, which translates clinical guidelines into an RL reward. Ground truth time-concentration curves were generated from patient-specific data, and simulated curves were produced under different dosing strategies with optional noise perturbations to mimic real-world settings. Evaluation metrics included 24-hour AUC assessments and …

An Image-Driven Micromechanical Approach To Characterize Multiscale Remodeling In Infarcted Myocardium, Emilio A Mendiola, Sunder Neelakantan, Qian Xiang, Shuda Xia, Jianyi Zhang, Vahid Serpooshan, Peter Vanderslice, Reza Avazmohammadi

Faculty, Staff and Student Publications

Myocardial infarction (MI) is accompanied by the formation of a fibrotic scar in the left ventricle (LV) and initiates significant alterations in the architecture and constituents of the LV free wall (LVFW). Previous studies have shown that LV adaptation is highly individual, indicating that the identification of remodeling mechanisms post-MI demands a fully subject-specific approach that can integrate a host of structural alterations at the fiber-level to changes in bulk biomechanical adaptation at the tissue-level. We present an image-driven micromechanical approach to characterize remodeling, assimilating new biaxial mechanical data, histological studies, and digital image correlation data within an in-silico framework …

Explainable Suicide Phenotyping From Initial Psychiatric Evaluation Notes Using Reasoning Large Language Models, Zehan Li, Wanjing Wang, Lokesh Shahani, Rodrigo M Vieira, Salih Selek, Jair Soares, Hongfang Liu, Ming Huang

Faculty, Staff and Student Publications

Clinical phenotyping is the process of extracting patient's observable symptoms and traits to better understand their disease condition. Suicide phenotyping focuses more on behavioral and cognitive characteristics, such as suicide ideation, attempt, and self-injury, to identify suicide risks and improve interventions. In this study, we leveraged the latest reasoning models, namely 4o, o1, and o3-mini, to perform note-level multi-label classification and reasoning generation tasks using previously annotated psychiatric evaluation notes from a safety-net psychiatric inpatient hospital in Harris County, Texas. Compared with the previously finetuned GPT-3.5 model, the out-of-box reasoning models prompted with in-context learning achieved comparable and better performance, …

Microstructural Organization Of Distributed White Matter Associated With Fine Motor Control In Us Service Members With Mild Traumatic Brain Injury, Benjamin S C Wade, David F Tate, Eamonn Kennedy, Erin D Bigler, Gerald E York, Brian A Taylor, Maya Troyanskaya, Elizabeth S Hovenden, Naomi Goodrich-Hunsaker, Mary R Newsome, Emily L Dennis, Tracy Abildskov, Mary Jo Pugh, William C Walker, Kimbra Kenney, Aaron Betts, Robert Shih, Robert C Welsh, Elisabeth A Wilde

Faculty, Staff and Student Publications

Mild traumatic brain injury (mTBI) is the most common form of brain injury. While most individuals recover from mTBI, roughly 20% experience persistent symptoms, potentially including reduced fine motor control. We investigate relationships between regional white matter organization and subcortical volumes associated with performance on the Grooved Pegboard (GPB) test in a large cohort of military Service Members and Veterans (SM&Vs) with and without a history of mTBI(s). Participants were enrolled in the Long-term Impact of Military-relevant Brain Injury Consortium-Chronic Effects of Neurotrauma Consortium. SM&Vs with a history of mTBI(s) (n = 847) and without mTBI (n = …

Canadian Spine Society: 24th Annual Scientific Conference, Wednesday, February 28 - Saturday, March 2, Fairmont Chateau Whistler, Whistler, Bc, Canada, Antoine Dionne, Majeed Al-Zakri, Hubert Labelle, Julie Joncas, Stefan Parent, Jean-Marc Mac-Thiong, Firoz Miyanji, Baron Lonner, Ali Eren, Patrick Cahill, Peter Newton, Jennifer A Dermott, Liisa Jaakkimainen, Teresa To, Maryse Bouchard, Andrew Howard, David E Lebel, Sarah Hardy, Armaan K Malhotra, Jennifer Dermott, Dilani Thevarajah, Karen D A Mathias, Samuel Yoon, Rajendra Sakhrekar, Dorothy J Kim, Ayesha Hadi, Andrea Doria, Aya Mitani, David Lebel, Karen Mathias, Tracey Bastrom, Amer Samdani, Marjolaine Roy-Beaudry, Marie Beauséjour, Rachelle Imbeault, Justin Dufresne, Jessica Romeo, Holly Livock, Kevin Smit, James Jarvis, Andrew Tice, Vivien K Chan, Robert Cho, Selina Poon, David L Skaggs, Geoffrey K Shumilak, Brett Rocos, Juan P Sardi, Anastasios Charalampidis, Jeff Gum, Stephen J Lewis, Peter S Tretiakov, Oluwatobi Onafowokan, Jamshaid Mir, Ankita Das, Tyler Williamson, Pooja Dave, Bailey Imbo, Jordan Lebovic, Pawel Jankowski, Peter G Passias, Stephen Lewis, Yousef Aljamaan, Lawrence G Lenke, Justin Smith, Vishal P Varshney, Ramesh Sahjpaul, Scott Paquette, Jill Osborn, Rémi Pelletier-Roy, Michael Asmussen, Manjot Birk, Taryn Ludwig, Fred Nicholls, Ariel Zohar, Janneke Loomans, Ferran Pellise, Justin S Smith, So Kato, Zeeshan Sardar, Lawrence Lenke, Aazad Abbas, Jay Toor, Gurjovan Sahi, Dusan Kovacevic, Johnathan Lex, Raja Rampersaud, Anthony V Perruccio, Nizar Mahomed, Mayilee Canizares, Maroun Rizkallah, Michel Alexandre Lebreton, Ghassan Boubez, Jesse Shen, Fidaa Alshakfa, Yousef Kamel, Galil Osman, Zhi Wang, Nikolaus Koegl, Brandon Herrington, Renan R Fernandes, Jennifer C Urquhart, Yoga R Rampersaud, Chris S Bailey, Ramtin Hakimjavadi, Tinghua Zhang, Zachary Devries, Eugene K Wai, Stephen P Kingwell, Alexandra Stratton, Eve Tsai, Philippe Phan, Noah Fine, Laura Stone, Mohit Kapoor, Alexandre Chênevert, Sonia Bédard, Greg Mcintosh, Julien Goulet, Jérome Couture, Csorn Investigators, Bernard Larue, Brent Rosenstein, Meaghan Rye, Alexa Roussac, Neda Naghdi, Luciana G Macedo, James Elliott, Richard Demont, Michael H Weber, Véronique Pepin, Geoffrey Dover, Maryse Fortin, Edisond Florial, Aditya Raj, Prarthan Amin, Yoga Raja Rampersaud, Abdullah A S M Alduwaisan, Kim Phan, Stephen Kingwell, Eugene Wai, Jeffrey Hebert, Sarah Nowell, Niels Wedderkopp, Amanda Vandewint, Neil Manson, Edward Abraham, Christopher Small, Najmedden Attabib, Erin Bigney, Michael Craig, Abdul Al-Shawwa, Kalum Ost, Saswati Tripathy, Nathan Evaniew, Bradley Jacobs, David Cadotte, Nicolas Dea, Jefferson R Wilson, Christopher S Bailey, Y Raja Rampersaud, W Bradley Jacobs, Philippe Phan Phan, Andrew Nataraj, David W Cadotte, Kenneth C Thomas, Jerome Paquet, Sean D Christie, Hamilton Hall, Charles G Fisher, Eva Y Liu, Amit R L Persad, Nathan Baron, Daryl Fourney, Husain Shakil, Jingyi Huang, Nader Fallah, Charlotte Dandurand, Csorn Investigators, Thamer Alfawaz, Tinghua Zhang, Alexandra Stratton, Eve Tsai, Eugene Wai, Stephen Kingwell, Zhi Wang, Philippe Phan, Csorn Investigators, Julien Francisco Zaldivar-Jolissaint, Raphaële Charest-Morin, Greg Mcintosh, Michael G Fehlings, Karlo M Pedro, Mohammed Ali Alvi, Jessica C W Wang, Raphaële Charest-Morin, Nicolas Dea, Charles Fisher, Marcel Dvorak, Brian Kwon, Tamir Ailon, Scott Paquette, John Street, Charlotte Dandurand, Rohail Mumtaz, Khaled Skaik, Eugene K Wai, Stephen Kingwell, Alexandra Stratton, Eve Tsai, Philippe Tran Nhut Phan, Zhi Wang, Csorn Investigators, Ragavan Manoharan, Greg Mcintosh, Yoga R Rampersaud, Jenna Smith-Forrester, Joanne E Douglas, Evan Nemeth, Jacob Alant, Sean Barry, Andrew Glennie, William Oxner, Lutz Weise, Sean Christie, Eva Y Liu, Amit R L Persad, Sabahat Saeed, Patrick Toyota, Jack Su, Braeden Newton, Nicole Coote, Daryl Fourney, Maria S Rachevits, Helen Razmjou, Susan Robarts, Albert Yee, Joel Finkelstein, Alysa Almojuela, Frederick Zeiler, Sarvesh Logsetty, Perry Dhaliwal, Mark Abdelnour, Yuxin Zhang, Eugene Wai, Stephen P Kingwell, Alexandra Stratton, Eve Tsai, Philippe T Phan, Csorn Investigators, Taylor A Smith, Christopher Small, Erin Bigney, Eden Richardson, Jillian Kearney, Neil Manson, Edward Abraham, Najmedden Attabib, Michael Bond, Stephan Dombrowski, Gwyneth Price, Jose Manuel García-Moreno, Jeffrey Hebert, Steven Qiu, Vithushan Surendran, Victoria Shi Emily Cheung, Sophie Ngana, Muhammad A Qureshi, Sunjay V Sharma, Markian Pahuta, Daipayan Guha, Ahmad Essa, Husain Shakil, Armaan Malhotra, James Byrne, Jetan Badhiwala, Eva Yuan, Yingshi He, Andrew Jack, Francois Mathieu, Jefferson R Wilson, Christopher D Witiw, Husain Shakil, Armaan K Malhotra, Eva Yuan, Christopher W Smith, Erin M Harrington, Rachel H Jaffe, Alick P Wang, Karim Ladha, Avery B Nathens, Jefferson R Wilson, Christopher D Witiw, Ryan V Sandarage, Ahmad Galuta, Eve C Tsai, Naama Rotem-Kohavi, Marcel F Dvorak, Jijie Xu, Nader Fallah, Zeina Waheed, Melody Chen, Nicolas Dea, Nathan Evaniew, Vanessa Noonan, Brian Kwon, Brian K Kwon, Toluyemi Malomo, Raphaële Charest-Morin, Scott Paquette, Tamir Ailon, Charlotte Dandurand, John Street, Charles G Fisher, Nicolas Dea, Manraj Heran, Marcel Dvorak, Rachael Jaffe, Peter Coyte, Brian Chan, Armaan Malhotra, Rebecca Hancock-Howard, Jefferson Wilson, Christopher Witiw, Newton Cho, Jordan Squair, Viviana Aureli, Nicholas James, Lea Bole-Feysot, Inssia Dewany, Nicolas Hankov, Laetitia Baud, Anna Leonhartsberger, Kristina Sveistyte, Michael Skinnider, Matthieu Gautier, Katia Galan, Maged Goubran, Jimmy Ravier, Frederic Merlos, Laura Batti, Stéphane Pagès, Nadia Bérard, Nadine Intering, Camille Varescon, Stefano Carda, Kay Bartholdi, Thomas Hutson, Claudia Kathe, Michael Hodara, Mark Anderson, Bogdan Draganski, Robin Demesmaeker, Leonie Asboth, Quentin Barraud, Jocelyne Bloch, Grégoire Courtine, Sean D Christie, Ryan Greene, Mustafa Nadi, Jacob Alant, Sean Barry, Andrew Glennie, Bill Oxner, Lutz Weise, Lisa Julien, Clara Lownie, Marcel F Dvorak, Cumhur F C Öner, Charlotte Dandurand, Alexander Joeris, Klaus Schnake, Mark Phillips, Alexander R Vaccaro, Richard Bransford, Eugen Cezar Popescu, Mohammed El-Sharkawi, Shanmuganathan Rajasekaran, Lorin M Benneker, Greg D Schroeder, Jin W Tee, John France, Jérôme Paquet, Richard Allen, William F Lavelle, Emiliano Vialle, Nicolas Dea, Antoine Dionne, David Magnuson, Andréane Richard-Denis, Yvan Petit, Francis Bernard, Dorothy Barthélémy, Jean-Marc Mac-Thiong, Lukas Grassner, Daniel Garcia-Ovejero, Evelyn Beyerer, Orpheus Mach, Iris Leister, Doris Maier, Ludwig Aigner, Angel Arevalo-Martin, Mark Alexander Maclean, Antoinette Charles, Miltiadis Georgiopoulos, Raphaële Charest-Morin, Rory Goodwin, Michael Weber, Emile Brouillard, Andréane Richard-Denis, Antoine Dionne, Ismail Laassassy, Paul Khoueir, Étienne Bourassa-Moreau, Gilles Maurais, Jean-Marc Mac-Thiong, Julien Francisco Zaldivar-Jolissaint, Nicolas Dea, Aysha Allard Brown, Kitty So, Neda Manouchehri, Megan Webster, Jay Ethridge, Audrey Warner, Avril Billingsley, Rochelle Newsome, Kirsten Bale, Andrew Yung, Mehara Seneviratne, Jimmy Cheng, Jing Wang, Shenani Basnayake, Femke Streijger, Manraj Heran, Piotr Kozlowski, Brian K Kwon, Jeff D Golan, Lior M Elkaim, Qais Alrashidi, Miltiadis Georgiopoulos, Oliver J Lasry, Drew A Bednar, Alyson Love, Soroush Nedaie, Pranjan Gandhi, Prarthan C Amin, Aditya Raj, Greg Mcintosh, Christopher J Neilsen, Ganesh Swamy, Raja Rampersaud, Amanda Vandewint, Y Raja Rampersaud, Jeffrey Hebert, Erin Bigney, Neil Manson, Najmedden Attabib, Chris Small, Eden Richardson, Jill Kearney, Edward Abraham, Raja Rampersaud, Aditya Raj, Nanadan Marathe, Greg Mcintosh, Manmeet Dhiman, Taylor J Bader, David Hart, Ganesh Swamy, Neil Duncan, Manmeet Dhiman, Taylor J Bader, Dragana Ponjevic, John R Matyas, David Hart, Ganesh Swamy, Neil Duncan, Connor P O'Brien, Jeffrey Hebert, Erin Bigney, Jillian Kearney, Eden Richardson, Edward Abraham, Neil Manson, Najmedden Attabib, Christopher Small, Luke Larochelle, Gabriella Rivas, James Lawrence, Robert Ravinsky, Dorothy Kim, Jennifer Dermott, Aya Mitani, Andrea Doria, Andrew Howard, David Lebel, Jennifer A Dermott, Lily S Switzer, Dorothy J Kim, David E Lebel, Chanelle Montpetit, Nicolas Vaillancourt, Brent Rosenstein, Maryse Fortin, Emma Nadler, Jennifer Dermott, Dorothy Kim, David E Lebel, Daniel Wolfe, Brent Rosenstein, Maryse Fortin, Daniel Wolfe, Geoffrey Dover, Mathieu Boily, Maryse Fortin, Husain Shakil, Armaan K Malhotra, Jetan H Badhiwala, Vishu Karthikeyan, Yingshi He, Michael G Fehlings, Arjun Sahgal, Nicolas Dea, Alex Kiss, Christopher D Witiw, Donald R Redelmeier, Jefferson R Wilson, Marco Pérez Caceres, Véronique Freire, Jesse Shen, Fidaa Al-Shakfa, Omer Ahmed, Zhi Wang, William Chu Kwan, Scott L Zuckerman, Charles G Fisher, Ilya Laufer, Dean Chou, John E O'Toole, Markus Schultheiss, Michael H Weber, Daniel M Sciubba, Markian Pahuta, John H Shin, Michael G Fehlings, Anne Versteeg, Matthew L Goodwin, Stefano Boriani, Chetan Bettegowda, Aron Lazary, Alessandro Gasbarrini, Jeremy J Reynolds, Jorrit-Jan Verlaan, Arjun Sahgal, Ziya L Gokaslan, Laurence D Rhines, Nicolas Dea, Van Tri Truong, The Khanh Dang, Galil Osman, Fidaa Al-Shakfa, Danielle Boule, Jesse Shen, Zhi Wang, Maroun Rizkallah, Ghassan Boubez, Jesse Shen, Philippe Phan, Fidaa Alshakfa, Danielle Boule, Celine Belguendouz, Rayane Kafi, Sung-Joo Yuh, Daniel Shedid, Zhi Wang, Zhi Wang, Jesse Shen, Ghassan Boubez, Fidaa Alshakfa, Daniele Boulé, Celine Belguendouz, Rayane Kafi, Philippe Phan, Daniel Shedid, Sung-Joo Yuh, Maroun Rizkallah, Yan Gabriel Morais David Silva, Luis Weber, Felipe Leão, Ahmad Essa, Armaan K Malhotra, Husain Shakil, James Byrne, Jetan Badhiwala, Avery B Nathens, Tej D Azad, Eva Yuan, Yingshi He, Andrew S Jack, Francois Mathieu, Jefferson R Wilson, Christopher D Witiw, Michael Craig, Nick Guenther, Jan Valosek, Maxime Bouthillier, Naga Karthik Enamundram, Naama Rotem-Kohavi, Suzanne Humphreys, Sean Christie, Michael Fehlings, Brian Kwon, Jean-Marc Mac-Thiong, Philippe Phan, Jerome Paquet, Mathieu Guay-Paquet, Julien Cohen-Adad, David Cadotte, Antoine Dionne, Jean-Marc Mac-Thiong, Heather Hong, Dilnur Kurban, Jijie Xu, Dorothy Barthélémy, Sean Christie, Daryl Fourney, Gary Linassi, Adalberto Loyola Sanchez, Jérôme Paquet, Vidya Sreenivasan, Andrea Townson, Eve C Tsai, Andréane Richard-Denis, William Chu Kwan, Pedram Laghaei, Harsh Kahlon, Tamir Ailon, Raphael Charest-Morin, Charlotte Dandurand, Scott Paquette, Nicholas Dea, John Street, Charles G Fisher, Marcel F Dvorak, Brian K Kwon, Jérémie Thibault, Antoine Dionne, Mohamed Al-Sofyani, Rémi Pelletier-Roy, Andréane Richard-Denis, Étienne Bourassa-Moreau, Jean-Marc Mac-Thiong, Maxime Bouthillier, Jan Valošek, Naga Karthik Enamundram, Mathieu Guay-Paquet, Nick Guenther, Naama Rotem-Kohavi, Suzanne Humphreys, Sean Christie, Michael Fehlings, Brian K Kwon, Jean Marc Mac-Thiong, Philippe Phan, David Cadotte, Julien Cohen-Adad, Luke Reda, Colton Kennedy, Stephanie Stefaniuk, Parvin Eftekhar, Larry Robinson, Cathy Craven, Jana Dengler, Colton Kennedy, Luke Reda, Stephanie Stefaniuk, Parvin Eftekhar, Larry Robinson, Cathy Craven, Jana Dengler, Maryam Rezaeezadeh Roukerd, Maitreya Patel, Eve Tsai, Ahmad Galuta, Sasi Jagadeesan, Ryan Vimukthie Sandarage, Philippe Phan, Wojtek Michalowski, William Van Woensel, Khushdeep Vig, Jillian Kazley, Abdul Arain, Gabriella Rivas, Robert Ravinsky, James Lawrence, Shaurya Gupta, Jibrahn Patel, Isaac Turkstra, Kirill Pustovetov, Victor Yang, W Bradley Jacobs, Gonzalo Mariscal, Christopher D Witiw, James S Harrop, Ahmed Essa, Christopher D Witiw, Gonzalo Mariscal, W Bradley Jacobs, James S Harrop, Ahmed Essa, Jin Tong Du, Ahmed Cherry, Rajesh Kumar, Nadia Jaber, Michael Fehlings, Albert Yee, Siril Teja Dukkipati, Mark Driscoll, Elizabeth Byers, Justin L Brown, Michelle Gallagher, James Sugar, Shannon Rockall, James Hektner, Scott Donia, John Chernesky, Vanessa K Noonan, Aaron A Varga, Flo Slomp, Emily Thiessen, Nataliya Lastivnyak, Linda Slater Maclean, Vanessa Ritchie, Aaron Hockley, Lutz M Weise, Christine Potvin, Peggy Flynn, Sean Christie, Isaac Turkstra, Bruno Oppermann, Marcelo Oppermann, Shaurya Gupta, Jibrahn Patel, Kirill Pustovetov, Kenneth Lee, Chaoliang Chen, Mohammadmahdi Rastgarjazi, Victor Yang, Sarah Hardy, Samuel Strantzas, Alison Anthony, Jennifer Dermott, Mike Vandenberk, Samer Hassan, David Lebel, Yan Gabriel Morais David Silva, Bernard Larue, Jerome Couture, Newton Pimenta, Jocelyn Blanchard, Alexandre Chenevert, Julien Goulet, Ryan Greene, Sean D Christie, Amanda Hall, Holly Etchegary, Alwalaa Althagafi, Jae Han, Ryan Greene, Sean Christie, Gwynedd Pickett, Christopher Witiw, James Harrop, W Bradley Jacobs, Gonzalo Mariscal, Ahmed Essa, W Bradley Jacobs, Gonzalo Mariscal, Christopher Witiw, James S Harrop, Ahmed Essa, Timothy Lasswell, Parham Rasoulinejad, Richard Hu, Chris Bailey, Fawaz Siddiqi, Abdulrahman Hamdoon, Mohamed Amin Soliman, Juhi Maraj, Deven Jhawar, Balraj Jhawar, Kirsten A Schuler, Lindsay D Orosz, Tarek Yamout, Brandon J Allen, Wondwossen T Lerebo, Rita T Roy, Thomas C Schuler, Christopher R Good, Colin M Haines, Ehsan Jazini, Kalum J Ost, Abdul Al-Shawwa, David Anderson, Nathan Evaniew, Bradley W Jacobs, Peter Lewkonia, Fred Nicholls, Paul T Salo, Kenneth C Thomas, Michael Yang, David Cadotte, Mohamed Sarraj, Nathasha Rajapaksege, Nicolas Dea, Nathan Evaniew, Greg Mcintosh, Markian Pahuta, Hani Nouran Alharbi, Khaled Skaik, Eugene K Wai, Stephen Kingwell, Alexandra Stratton, Eve Tsai, Philippe Tran Nhut Phan, Zhi Wang, Csorn Investigators, Julien Francisco Zaldivar-Jolissaint, Sara Gustafson, Ian Polyzois, Trevor Gascoyne, Michael Goytan, Drew Alexander Bednar, Mohamed Sarra, Brett Rocos, Juan P Sardi, Anastasios Charalampidis, Jeff Gum, Stephen J Lewis, Ravi Ghag, Samuel Kirk, Otis Shirley, Jeffrey Bone, Andrew Morrison, Firoz Miyanji, Amit Parekh, Ethan Sanders, Manjot Birk, Fred Nicholls, Kevin Smit, Holly Livock, Jessica Romeo, James Jarvis, Andrew Tice, Sofía Frank, Hubert Labelle, Stephan Parent, Soraya Barchi, Julie Joncas, Jean-Marc Mac-Thiong, Jérémie Thibault, Julie Joncas, Soraya Barchi, Stefan Parent, Marie Beausejour, Jean-Marc Mac-Thiong, Antoine Dionne, Jean-Marc Mac-Thiong, Stefan Parent, Jesse Shen, Julie Joncas, Soraya Barchi, Hubert Labelle, Manjot S Birk, Fred Nicholls, Rémi Pelletier-Roy, Ethan Sanders, Stephen Lewis, Yousef Aljamaan, Lawrence G Lenke, Justin Smith, Zeeshan Sardar, Elen Mullaj, David Lebel, Jennifer Dermott, Natasha Bath, Karen Mathias, Deepa Kattail, Ariel Zohar, Janneke Loomans, Ferran Pellise, Justin S Smith, So Kato, Zeeshan Sardar, Lawrence Lenke, Stephen J Lewis, Taylor J Bader, Manmeet Dhiman, David Hart, Neil Duncan, Paul Salo, Ganesh Swamy, Stephen Joel Lewis, Peyton Lloyd Lawrence, Justin Smith, Ferran Pellise, Zeeshan Sardar, Peyton Lloyd Lawrence, Stephen Joel Lewis, Justin Smith, Ferran Pellise, Zeeshan Sardar, Jordan J Levett, Abdulrhman Alnasser, Uri Barak, Lior M Elkaim, Thien Sa Hoang, Naif M Alotaibi, Daipayan Guha, Isaac L Moss, Alexander G Weil, Michael H Weber, Phillip De Muelenaere, Kashif Parvez, John Sun, Olivia C Iorio, Brent Rosenstein, Neda Naghdi, Maryse Fortin, Felicia Manocchio, Ran Ankory, Lisa Stallwood, Henry Ahn, Hamza Mahdi, Abdul Naeem, Deven Jhawar, Milad Moradi, Balraj Jhawar, Steven Qiu, Vithushan Surendran, Victoria Shi, Emily Cheung, Sophie Ngana, Muhammad A Qureshi, Sunjay V Sharma, Markian Pahuta, Daipayan Guha

Faculty, Staff and Student Publications

No abstract provided.

Failure To Mate Enhances Investment In Behaviors That May Promote Mating Reward And Impairs The Ability To Cope With Stressors Via A Subpopulation Of Neuropeptide F Receptor Neurons, Julia Ryvkin, Liora Omesi, Yong-Kyu Kim, Mali Levi, Hadar Pozeilov, Lital Barak-Buchris, Bella Agranovich, Ifat Abramovich, Eyal Gottlieb, Avi Jacob, Dick R Nässel, Ulrike Heberlein, Galit Shohat-Ophir

Faculty, Staff and Student Publications

Living in dynamic environments such as the social domain, where interaction with others determines the reproductive success of individuals, requires the ability to recognize opportunities to obtain natural rewards and cope with challenges that are associated with achieving them. As such, actions that promote survival and reproduction are reinforced by the brain reward system, whereas coping with the challenges associated with obtaining these rewards is mediated by stress-response pathways, the activation of which can impair health and shorten lifespan. While much research has been devoted to understanding mechanisms underlying the way by which natural rewards are processed by the reward …

Incorporating Variable Rbe In Impt Optimization For Ependymoma, Hadis Moazami Goudarzi, Gino Lim, David Grosshans, Radhe Mohan, Wenhua Cao

Faculty, Staff and Student Publications

PURPOSE: To study the dosimetric impact of incorporating variable relative biological effectiveness (RBE) of protons in optimizing intensity-modulated proton therapy (IMPT) treatment plans and to compare it with conventional constant RBE optimization and linear energy transfer (LET)-based optimization.

METHODS: This study included 10 pediatric ependymoma patients with challenging anatomical features for treatment planning. Four plans were generated for each patient according to different optimization strategies: (1) constant RBE optimization (ConstRBEopt) considering standard-of-care dose requirements; (2) LET optimization (LETopt) using a composite cost function simultaneously optimizing dose-averaged LET (LET

RESULTS: We found that the LETopt plans consistently achieved increased LET in …

Investigation Of Autosegmentation Techniques On T2-Weighted Mri For Off-Line Dose Reconstruction In Mr-Linac Workflow For Head And Neck Cancers, Brigid A Mcdonald, Carlos E Cardenas, Nicolette O'Connell, Sara Ahmed, Mohamed A Naser, Kareem A Wahid, Jiaofeng Xu, Dan Thill, Raed J Zuhour, Shane Mesko, Alexander Augustyn, Samantha M Buszek, Stephen Grant, Bhavana V Chapman, Alexander F Bagley, Renjie He, Abdallah S R Mohamed, John Christodouleas, Kristy K Brock, Clifton D Fuller

Faculty, Staff and Student Publications

Background: In order to accurately accumulate delivered dose for head and neck cancer patients treated with the Adapt to Position workflow on the 1.5T magnetic resonance imaging (MRI)-linear accelerator (MR-linac), the low-resolution T2-weighted MRIs used for daily setup must be segmented to enable reconstruction of the delivered dose at each fraction.

Purpose: In this pilot study, we evaluate various autosegmentation methods for head and neck organs at risk (OARs) on on-board setup MRIs from the MR-linac for off-line reconstruction of delivered dose.

Methods: Seven OARs (parotid glands, submandibular glands, mandible, spinal cord, and brainstem) were contoured on 43 images by …

Pathologic Processing Of Lung Cancer Resection Specimens After Neoadjuvant Therapy, Annikka Weissferdt, Cheuk H Leung, Heather Lin, Boris Sepesi, William N William, Stephen G Swisher, Tina Cascone, J Jack Lee, Abujiang Pataer

Faculty, Staff and Student Publications

Neoadjuvant treatment of non-small cell lung cancer challenges the traditional processing of pathology specimens. Induction therapy before resection allows evaluation of the efficacy of neoadjuvant agents at the time of surgery. Many clinical trials use pathologic tumor response, measured as major pathologic response (MPR, ≤10% residual viable tumor [RVT]) or complete pathologic response (CPR, 0% RVT) as a surrogate of clinical efficacy. Consequently, accurate pathologic evaluation of RVT is crucial. However, pathologic assessment has not been uniform, which is particularly true for sampling of the primary tumor, which instead of the traditional processing, requires different tissue submission because the focus …

Predicting Suicidality In Late-Life Depression By 3d Convolutional Neural Network And Cross-Sample Entropy Analysis Of Resting-State Fmri, Chemin Lin, Chih-Mao Huang, Wei Chang, You-Xun Chang, Ho-Ling Liu, Shu-Hang Ng, Huang-Li Lin, Tatia Mei-Chun Lee, Shwu-Hua Lee, Shun-Chi Wu

Faculty, Staff and Student Publications

BACKGROUND: Predicting suicide is a pressing issue among older adults; however, predicting its risk is difficult. Capitalizing on the recent development of machine learning, considerable progress has been made in predicting complex behavior such as suicide. As depression remained the strongest risk for suicide, we aimed to apply deep learning algorithms to identify suicidality in a group with late-life depression (LLD).

METHODS: We enrolled 83 patients with LLD, 35 of which were non-suicidal and 48 were suicidal, including 26 with only suicidal ideation and 22 with past suicide attempts, for resting-state functional magnetic resonance imaging (MRI). Cross-sample entropy (CSE) analysis …

Jointtracker: Real-Time Inertial Kinematic Chain Tracking With Joint Position Estimation, Bertram Taetz, Michael Lorenz, Markus Miezal, Didier Stricker, Gabriele Bleser-Taetz

Faculty, Staff and Student Publications

In-field human motion capture (HMC) is drawing increasing attention due to the multitude of application areas. Plenty of research is currently invested in camera-based (markerless) HMC, with the advantage of no infrastructure being required on the body, and additional context information being available from the surroundings. However, the inherent drawbacks of camera-based approaches are the limited field of view and occlusions. In contrast, inertial HMC (IHMC) does not suffer from occlusions, thus being a promising approach for capturing human motion outside the laboratory. However, one major challenge of such methods is the necessity of spatial registration. Typically, during a predefined …

Insights Into The Assembly And Regulation Of The Bacterial Divisome, Todd A Cameron, William Margolin

Faculty, Staff and Student Publications

The ability to split one cell into two is fundamental to all life, and many bacteria can accomplish this feat several times per hour with high accuracy. Most bacteria call on an ancient homologue of tubulin, called FtsZ, to localize and organize the cell division machinery, the divisome, into a ring-like structure at the cell midpoint. The divisome includes numerous other proteins, often including an actin homologue (FtsA), that interact with each other at the cytoplasmic membrane. Once assembled, the protein complexes that comprise the dynamic divisome coordinate membrane constriction with synthesis of a division septum, but only after overcoming …

Probing Membrane-Associated Cytoskeletal Oligomers Of The Bacterial Divisome By Electron Microscopy And Tomography, Bo Hu, William Margolin

Faculty, Staff and Student Publications

The cell division machinery or "divisome" of many bacteria, including Escherichia coli, contains homologs of tubulin (FtsZ) and actin (FtsA) that interact with each other to promote the synthesis of septal peptidoglycan. FtsA oligomers have an essential role as a track for tethering dynamically treadmilling FtsZ protofilaments to the cytoplasmic membrane. Other bacterial cytoskeletal oligomers such as MreB also assemble on and move along the membrane. Structures of these oligomers on membranes in vitro may mimic their behavior in the cell. Here, we describe a protocol to visualize FtsA oligomeric structures on membranes and their interactions with FtsZ protofilaments using …

Carbimazole-Associated Pancreatitis: Report From Western India, Vyankatesh Shivane, Nihar Mehta, Ajay Jhaveri, Saba Samad Memon

Faculty, Staff and Student Publications

Pancreatitis is a very rare complication of methimazole and carbimazole therapy. We describe a case of possible carbimazole-associated pancreatitis. A 41-year-old Asian man (with no comorbidities) reported to the hospital with atrial fibrillation and a fast ventricular rate. He was diagnosed with hyperthyroidism due to Graves disease. His rhythm was reverted with amiodarone, and carbimazole was initiated at 15 mg daily for the medical management of Graves disease. Fifteen days later, he presented with acute severe abdominal pain and vomiting with elevated serum amylase 387 U/L (reference range, 28-100 U/L) and lipase levels 206 U/L (reference range, 13-60 U/L). Magnetic …

Does An Early, Balanced Resuscitation Strategy Reduce The Incidence Of Hypofibrinogenemia In Hemorrhagic Shock?, David T Lubkin, Krislynn M Mueck, Gabrielle E Hatton, Jason B Brill, Mariela Sandoval, Jessica C Cardenas, Charles E Wade, Bryan A Cotton

Faculty, Staff and Student Publications

OBJECTIVES: Some centers have recommended including concentrated fibrinogen replacement in massive transfusion protocols (MTPs). Given our center's policy of aggressive early balanced resuscitation (1:1:1), beginning prehospital, we hypothesized that our rates of hypofibrinogenemia may be lower than those previously reported.

METHODS: In this retrospective cohort study, patients presenting to our trauma center November 2017 to April 2021 were reviewed. Patients were defined as hypofibrinogenemic (HYPOFIB) if admission fibrinogen

RESULTS: Of 29 782 patients, 6618 level 1 activations, and 1948 patients receiving emergency release blood,

CONCLUSIONS: Low rates of hypofibrinogenemia were found in our center which treats hemorrhage with early, balanced …

Benign Disorders Of The Mediastinum: A Narrative Review, Saad Farooq, Sabiha Armin, Daniel Ocazionez, Rosa M Estrada-Y-Martin, Sujith V Cherian

Faculty, Staff and Student Publications

Background and objective: There are several benign processes that affect the mediastinum with considerable morbidity that may range from reactive entities to neoplastic disorders. This review article will focus on non-neoplastic benign mediastinal diseases which include large vessel vasculitis such as Takayasu and giant cell arteritis, mediastinal granulomas, fibrosing mediastinitis and mediastinal infections. These diseases can cause significant morbidity and mortality; therefore, we aim to familiarize readers with the pathophysiology, epidemiology and diagnosis of these mediastinal diseases and provide an update on the treatment options available.

Methods: We searched various databases such as PubMed and Google Scholar from August 2023 …

Endoscopic Innovations In Diagnosis And Management Of Pancreatic Cancer: A Narrative Review And Future Directions, Prateek Suresh Harne, Vaishali Harne, Curtis Wray, Nirav Thosani

Faculty, Staff and Student Publications

Pancreatic cancer serves as the third leading cause of cancer-associated morbidity and mortality in the United States, with a 5-year survival rate of only 12% with an expected increase in incidence and mortality in the coming years. Pancreatic ductal adenocarcinomas constitute most pancreatic malignancies. Certain genetic syndromes, including Lynch syndrome, hereditary breast and ovarian cancer syndrome, hereditary pancreatitis, familial adenomatous polyposis, Peutz-Jeghers syndrome, familial pancreatic cancer mutation, and ataxia telangiectasia, confer a significantly higher risk. Screening for pancreatic malignancies currently targets patients with germline mutations or those with significant family history. Screening the general population is not currently viable owing …

Develop And Validate A Computable Phenotype For The Identification Of Alzheimer’S Disease Patients Using Electronic Health Record Data, Xing He, Ruoqi Wei, Yu Huang, Zhaoyi Chen, Tianchen Lyu, Sarah Bost, Jiayi Tong, Lu Li, Yujia Zhou, Zhao Li, Jingchuan Guo, Huilin Tang, Fei Wang, Steven Dekosky, Hua Xu, Yong Chen, Rui Zhang, Jie Xu, Yi Guo, Yonghui Wu, Jiang Bian

Faculty, Staff and Student Publications

Introduction: Alzheimer's disease (AD) is often misclassified in electronic health records (EHRs) when relying solely on diagnosis codes. This study aimed to develop a more accurate, computable phenotype (CP) for identifying AD patients using structured and unstructured EHR data.

Methods: We used EHRs from the University of Florida Health (UFHealth) system and created rule-based CPs iteratively through manual chart reviews. The CPs were then validated using data from the University of Texas Health Science Center at Houston (UTHealth) and the University of Minnesota (UMN).

Results: Our best-performing CP was "patient has at least 2 AD diagnoses and AD-related keywords …

Predictors Of Postpartum Hemorrhage And Associated Outcomes At A Midwest Academic Medical Center, Megan Mooberry, Natalie Voss, Linder Wendt, Kimberly A Kenne, J Brooks Jackson, Mary B Rysavy

Faculty, Staff and Student Publications

Background: Postpartum hemorrhage (PPH) remains a significant cause of maternal morbidity and mortality around the world, with rates increasing in the United States. The objective of this study was to determine predictors of, and outcomes associated with, PPH at a Midwest academic health center.

Methods: Demographic and clinical data were obtained from the electronic medical record on all consecutive delivering patients between May 1, 2020, and April 30, 2021. Associations between PPH and perinatal characteristics and outcomes were assessed using logistic regression models. A significance threshold of 0.05 was used for all comparisons.

Results: Of the 2497 delivering patients during …

Corrigendum: High-Definition Transcranial Direct Current Stimulation For Upper Extremity Rehabilitation In Moderate-To-Severe Ischemic Stroke: A Pilot Study, Jordan N Williamson, Shirley A James, Dorothy He, Sheng Li, Evgeny V Sidorov, Yuan Yang

Faculty, Staff and Student Publications

No abstract provided.

Identifying Missing Is-A Relations In Snomed Ct With Fine-Tuned Pre-Trained Language Models And Non-Lattice Subgraphs, Xubing Hao, Rashmie Abeysinghe, Jay Shi, Guo-Qiang Zhang, Licong Cui

Faculty, Staff and Student Publications

Ensuring the completeness of IS-A relations in SNOMED CT is crucial for maintaining its accuracy in clinical applications. In this study, we propose a hybrid approach leveraging non-lattice subgraphs and pre-trained language models (PLMs) to identify missing IS-A relations in SNOMED CT. We fine-tuned four BERT-based models: BERT, DistillBERT, DeBERTa, and BioClinicalBERT, and four generative large language models (LLMs): BioMistral, Llama3, Gemma2, and Phi-4. Missing IS-A relations were identified through consensus predictions by all eight models. De-BERTa achieved the best performance (precision: 0.96, recall: 0.97, F1-score: 0.965) for IS-A relation prediction. Our approach identified 678 potential missing IS-A relations in …

Diagnostic Value Of Soluble Interleukin-2 Receptor In Patients Suffering Neurosarcoidosis: A Systematic Review, Aditya Chanpura, Rajesh K Gupta, Shitiz K Sriwastava, Jan Rahmig

Faculty, Staff and Student Publications

Background: Neurosarcoidosis is an inflammatory granulomatous disease. Up to 25% of occult sarcoidosis affecting the nervous system are only detected by autopsy. In addition, in recent years the suspicion arose that the soluble Interleukin-2 Receptor (sIL-2R) might be useful in differentiating between neurosarcoidosis and neurosarcoidosis-like diseases such as neurotuberculosis, multiple sclerosis, or cerebral lymphoma.

Objectives: Therefore, we aimed to systematically review randomized controlled trials (RCT), observational studies, and case-control studies evaluating sIL-2R levels in neurosarcoidosis patients.

Design: For this systematic review, a comprehensive literature search of electronic databases including EMBASE, The Web Of Science, The Cochrane Library, MEDLINE, and Google …

Evolution Of Whole Blood Trauma Resuscitation In Childbearing Age Females: Practice Patterns And Trends, Alexandra Mp Brito, Mark H Yazer, Jason L Sperry, James F Luther, Stephen R Wisniewski, Frances Guyette, Ernest E Moore, Bryan A Cotton, Laura Vincent, Erin Fox, Jeremy W Cannon, Nicholas Namias, Joseph P Minei, Lee Anne Ammons, Skye Clayton, Martin Schreiber

Faculty, Staff and Student Publications

Background: The use of low titer group O whole blood (LTOWB) for resuscitation of patients with traumatic hemorrhage is becoming increasingly common. Practices regarding the administration of RhD-positive LTOWB to childbearing age females (CBAFs) vary between institutions due to concerns about RhD alloimmunization. This study examined practices related to LTOWB transfusion as they pertain to age and sex.

Methods: This was a secondary analysis of the Shock, Whole blood, and Assessment of TBI (traumatic brain injury) trial, a prospective, multicenter observational cohort study where outcomes following LTOWB transfusion were analyzed at seven level 1 trauma centers between 2018 and 2021, …

Measurement Of 8-Hydroxy-2′-Deoxyguanosine In Serum And Cerebrospinal Fluid Of Horses With Neuroaxonal Degeneration And Other Causes Of Proprioceptive Ataxia, Megan Palmisano, Jeaneen Kulp, Susan Bender, Darko Stefanovski, Mary Robinson, Amy Johnson

Faculty, Staff and Student Publications

BACKGROUND: Eight-hydroxy-2'-deoxyguanosine (8-OHdG), a biomarker of oxidative damage evaluated in human neurodegenerative disease, has potential to correlate with postmortem diagnosis of neuroaxonal dystrophy/degenerative myeloencephalopathy (NAD/DM) in horses.

HYPOTHESIS: We hypothesized that 8-OHdG will be higher in CSF and serum from NAD/DM horses compared with horses with other neurologic diseases (CVSM, EPM) and a control group of neurologically normal horses. We also hypothesized that 8-OHdG will be higher in CSF compared with serum from NAD/DM horses.

ANIMALS: Fifty client-owned horses with postmortem diagnoses: 20 NAD/DM, 10 CVSM, 10 EPM, and 10 control horses. Serum and CSF samples were obtained between November …

Measurement Of 8-Hydroxy-2′-Deoxyguanosine In Serum And Cerebrospinal Fluid Of Horses With Neuroaxonal Degeneration And Other Causes Of Proprioceptive Ataxia, Megan Palmisano, Jeaneen Kulp, Susan Bender, Darko Stefanovski, Mary Robinson, Amy Johnson

Faculty, Staff and Student Publications

BACKGROUND: Eight-hydroxy-2'-deoxyguanosine (8-OHdG), a biomarker of oxidative damage evaluated in human neurodegenerative disease, has potential to correlate with postmortem diagnosis of neuroaxonal dystrophy/degenerative myeloencephalopathy (NAD/DM) in horses.

HYPOTHESIS: We hypothesized that 8-OHdG will be higher in CSF and serum from NAD/DM horses compared with horses with other neurologic diseases (CVSM, EPM) and a control group of neurologically normal horses. We also hypothesized that 8-OHdG will be higher in CSF compared with serum from NAD/DM horses.

ANIMALS: Fifty client-owned horses with postmortem diagnoses: 20 NAD/DM, 10 CVSM, 10 EPM, and 10 control horses. Serum and CSF samples were obtained between November …

Prophylactic Mesh Reinforcement For Non-Midline Incisions: A Systematic Review, Rainna Coelho, Oluwatunmininu Anwoju, Ali Siddiqui, Andrew Youssef, Oscar A Olavarria, Naila H Dhanani, Karla Bernardi, Zuhair Ali, Mike K Liang

Faculty, Staff and Student Publications

Background: Many abdominal-pelvic surgeries utilize incisions not along the linea alba, such as transverse, laparoscopic, ostomy reversal, or ostomy formation incisions. The prevalence of ventral incisional hernias (VIH) at these sites and the efficacy of prophylactic mesh in preventing VIH remains unclear.

Methods: PubMed, Embase, Scopus, and Cochrane databases were systematically reviewed from inception to September 2022. We included published randomized controlled trials (RCTs) that compared prophylactic mesh reinforcement versus no mesh. The primary outcome was the incidence of VIH at postoperative follow-up equal to or greater than 24 months. Secondary outcomes included surgical site infection (SSI) and surgical site …