How to deal with large models? by William S Hlavacek

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Modeling the effect of APC truncation on destruction complex function in colorectal cancer cells. by Dipak Barua, William S Hlavacek

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Differential contagiousness of respiratory disease across the United States by Abhishek Mallela, Yen Ting Lin, William S. Hlavacek

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An interaction library for the FcϵRI signaling network by Lily A Chylek, Lily A Chylek, Lily A Chylek, David A Holowka, Barbara A Baird, William S Hlavacek, William S Hlavacek

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Using both qualitative and quantitative data in parameter identification for systems biology models by Eshan D. Mitra, Raquel Dias, Richard G. Posner, William S. Hlavacek

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Using sequence-specific chemical and structural properties of DNA to predict transcription factor binding sites. by Amy L Bauer, William S Hlavacek, Pat J Unkefer, Fangping Mu

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Computational analysis of an autophagy/translation switch based on mutual inhibition of MTORC1 and ULK1. by Paulina Szymańska, Katie R Martin, Jeffrey P MacKeigan, William S Hlavacek, Tomasz Lipniacki

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q‐bio 2007: a watershed moment in modern biology by Jeremy S Edwards, James R Faeder, William S Hlavacek, Yi Jiang, Ilya Nemenman, Michael E Wall

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Mitochondrial morphological features are associated with fission and fusion events. by Laura M Westrate, Jeffrey A Drocco, Katie R Martin, William S Hlavacek, Jeffrey P MacKeigan

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Single-cell measurements of IgE-mediated FcεRI signaling using an integrated microfluidic platform. by Yanli Liu, Dipak Barua, Peng Liu, Bridget S Wilson, Janet M Oliver, William S Hlavacek, Anup K Singh

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Phosphorylation site dynamics of early T-cell receptor signaling. by Lily A Chylek, Vyacheslav Akimov, Jörn Dengjel, Kristoffer T G Rigbolt, Bin Hu, William S Hlavacek, Blagoy Blagoev

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Quantification of early nonpharmaceutical interventions aimed at slowing transmission of Coronavirus Disease 2019 in the Navajo Nation and surrounding states (Arizona, Colorado, Ne... by Ely F. Miller, Jacob Neumann, Ye Chen, Abhishek Mallela, Yen Ting Lin, William S. Hlavacek, Richard G. Posner

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Quantification of early nonpharmaceutical interventions aimed at slowing transmission of Coronavirus Disease 2019 in the Navajo Nation and surrounding states (Arizona, Colorado, Ne... by Ely F Miller, Jacob Neumann, Ye Chen, Abhishek Mallela, Yen Ting Lin, William S Hlavacek, Richard G Posner

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Bayesian Inference of State-Level COVID-19 Basic Reproduction Numbers across the United States by Abhishek Mallela, Jacob Neumann, Ely F. Miller, Ye Chen, Richard G. Posner, Yen Ting Lin, William S. Hlavacek

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PyBioNetFit and the Biological Property Specification Language by Eshan D. Mitra, Ryan Suderman, Joshua Colvin, Alexander Ionkov, Andrew Hu, Herbert M. Sauro, Richard G. Posner, William S. Hlavacek

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Daily Forecasting of Regional Epidemics of Coronavirus Disease with Bayesian Uncertainty Quantification, United States by Yen Ting Lin, Jacob Neumann, Ely F. Miller, Richard G. Posner, Abhishek Mallela, Cosmin Safta, Jaideep Ray, Gautam Thakur, Supriya Chinthavali, William S. Hlavacek

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Binding of nucleoid-associated protein fis to DNA is regulated by DNA breathing dynamics. by Kristy Nowak-Lovato, Ludmil B Alexandrov, Afsheen Banisadr, Amy L Bauer, Alan R Bishop, Anny Usheva, Fangping Mu, Elizabeth Hong-Geller, Kim Ø Rasmussen, William S Hlavacek, Boian S Alexandrov

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Modeling cell line-specific recruitment of signaling proteins to the insulin-like growth factor 1 receptor. by Keesha E Erickson, Oleksii S Rukhlenko, Md Shahinuzzaman, Kalina P Slavkova, Yen Ting Lin, Ryan Suderman, Edward C Stites, Marian Anghel, Richard G Posner, Dipak Barua, Boris N Kholodenko, William S Hlavacek

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Evaluation of FluSight influenza forecasting in the 2021–22 and 2022–23 seasons with a new target laboratory-confirmed influenza hospitalizations by Sarabeth M. Mathis, Alexander E. Webber, Tomás M. León, Erin L. Murray, Monica Sun, Lauren A. White, Logan C. Brooks, Alden Green, Addison J. Hu, Roni Rosenfeld, Dmitry Shemetov, Ryan J. Tibshirani, Daniel J. McDonald, Sasikiran Kandula, Sen Pei, Rami Yaari, Teresa K. Yamana, Jeffrey Shaman, Pulak Agarwal, Srikar Balusu, Gautham Gururajan, Harshavardhan Kamarthi, B. Aditya Prakash, Rishi Raman, Zhiyuan Zhao, Alexander Rodríguez, Akilan Meiyappan, Shalina Omar, Prasith Baccam, Heidi L. Gurung, Brad T. Suchoski, Steve A. Stage, Marco Ajelli, Allisandra G. Kummer, Maria Litvinova, Paulo C. Ventura, Spencer Wadsworth, Jarad Niemi, Erica Carcelen, Alison L. Hill, Sara L. Loo, Clifton D. McKee, Koji Sato, Claire Smith, Shaun Truelove, Sung-mok Jung, Joseph C. Lemaitre, Justin Lessler, Thomas McAndrew, Wenxuan Ye, Nikos Bosse, William S. Hlavacek, Yen Ting Lin, Abhishek Mallela, Graham C. Gibson, Ye Chen, Shelby M. Lamm, Jaechoul Lee, Richard G. Posner, Amanda C. Perofsky, Cécile Viboud, Leonardo Clemente, Fred Lu, Austin G. Meyer, Mauricio Santillana, Matteo Chinazzi, Jessica T. Davis, Kunpeng Mu, Ana Pastore y Piontti, Alessandro Vespignani, Xinyue Xiong, Michal Ben-Nun, Pete Riley, James Turtle, Chis Hulme-Lowe, Shakeel Jessa, V. P. Nagraj, Stephen D. Turner, Desiree Williams, Avranil Basu, John M. Drake, Spencer J. Fox, Ehsan Suez, Monica G. Cojocaru, Edward W. Thommes, Estee Y. Cramer, Aaron Gerding, Ariane Stark, Evan L. Ray, Nicholas G. Reich, Li Shandross, Nutcha Wattanachit, Yijin Wang, Martha W. Zorn, Majd Al Aawar, Ajitesh Srivastava, Lauren A. Meyers, Aniruddha Adiga, Benjamin Hurt, Gursharn Kaur, Bryan L. Lewis, Madhav Marathe, Srinivasan Venkatramanan, Patrick Butler, Andrew Farabow, Naren Ramakrishnan, Nikhil Muralidhar, Carrie Reed, Matthew Biggerstaff, Rebecca K. Borchering

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SBML Level 3: an extensible format for the exchange and reuse of biological models by Sarah M Keating, Dagmar Waltemath, Matthias König, Fengkai Zhang, Andreas Dräger, Claudine Chaouiya, Frank T Bergmann, Andrew Finney, Colin S Gillespie, Tomáš Helikar, Stefan Hoops, Rahuman S Malik‐Sheriff, Stuart L Moodie, Ion I Moraru, Chris J Myers, Aurélien Naldi, Brett G Olivier, Sven Sahle, James C Schaff, Lucian P Smith, Maciej J Swat, Denis Thieffry, Leandro Watanabe, Darren J Wilkinson, Michael L Blinov, Kimberly Begley, James R Faeder, Harold F Gómez, Thomas M Hamm, Yuichiro Inagaki, Wolfram Liebermeister, Allyson L Lister, Daniel Lucio, Eric Mjolsness, Carole J Proctor, Karthik Raman, Nicolas Rodriguez, Clifford A Shaffer, Bruce E Shapiro, Joerg Stelling, Neil Swainston, Naoki Tanimura, John Wagner, Martin Meier‐Schellersheim, Herbert M Sauro, Bernhard Palsson, Hamid Bolouri, Hiroaki Kitano, Akira Funahashi, Henning Hermjakob, John C Doyle, Michael Hucka, SBML Level 3 Community members, Richard R Adams, Nicholas A Allen, Bastian R Angermann, Marco Antoniotti, Gary D Bader, Jan Červený, Mélanie Courtot, Chris D Cox, Piero Dalle Pezze, Emek Demir, William S Denney, Harish Dharuri, Julien Dorier, Dirk Drasdo, Ali Ebrahim, Johannes Eichner, Johan Elf, Lukas Endler, Chris T Evelo, Christoph Flamm, Ronan MT Fleming, Martina Fröhlich, Mihai Glont, Emanuel Gonçalves, Martin Golebiewski, Hovakim Grabski, Alex Gutteridge, Damon Hachmeister, Leonard A Harris, Benjamin D Heavner, Ron Henkel, William S Hlavacek, Bin Hu, Daniel R Hyduke, Hidde de Jong, Nick Juty, Peter D Karp, Jonathan R Karr, Douglas B Kell, Roland Keller, Ilya Kiselev, Steffen Klamt, Edda Klipp, Christian Knüpfer, Fedor Kolpakov, Falko Krause, Martina Kutmon, Camille Laibe, Conor Lawless, Lu Li, Leslie M Loew, Rainer Machne, Yukiko Matsuoka, Pedro Mendes, Huaiyu Mi, Florian Mittag, Pedro T Monteiro, Kedar Nath Natarajan, Poul MF Nielsen, Tramy Nguyen, Alida Palmisano, Jean‐Baptiste Pettit, Thomas Pfau, Robert D Phair, Tomas Radivoyevitch, Johann M Rohwer, Oliver A Ruebenacker, Julio Saez‐Rodriguez, Martin Scharm, Henning Schmidt, Falk Schreiber, Michael Schubert, Roman Schulte, Stuart C Sealfon, Kieran Smallbone, Sylvain Soliman, Melanie I Stefan, Devin P Sullivan, Koichi Takahashi, Bas Teusink, David Tolnay, Ibrahim Vazirabad, Axel von Kamp, Ulrike Wittig, Clemens Wrzodek, Finja Wrzodek, Ioannis Xenarios, Anna Zhukova, Jeremy Zucker

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