Characterizing the Impact of Communication on Cellular and Collective Behavior Using a Three-Dimensional Multiscale Cellular Model

por Echlin, Moriah, Aguilar, Boris, Shmulevich, Ilya
Publicado 2023

H++ 3.0: automating pK prediction and the preparation of biomolecular structures for atomistic molecular modeling and simulations

por Anandakrishnan, Ramu, Aguilar, Boris, Onufriev, Alexey V.
Publicado 2012

Computational capabilities of a multicellular reservoir computing system

por Nikolić, Vladimir, Echlin, Moriah, Aguilar, Boris, Shmulevich, Ilya
Publicado 2023

Steady state analysis of Boolean molecular network models via model reduction and computational algebra

por Veliz-Cuba, Alan, Aguilar, Boris, Hinkelmann, Franziska, Laubenbacher, Reinhard
Publicado 2014

Identification of control targets in Boolean molecular network models via computational algebra

por Murrugarra, David, Veliz-Cuba, Alan, Aguilar, Boris, Laubenbacher, Reinhard
Publicado 2016

Introducing Charge Hydration Asymmetry into the Generalized Born Model

por Mukhopadhyay, Abhishek, Aguilar, Boris H., Tolokh, Igor S., Onufriev, Alexey V.
Publicado 2014

Modeling stochasticity and variability in gene regulatory networks

por Murrugarra, David, Veliz-Cuba, Alan, Aguilar, Boris, Arat, Seda, Laubenbacher, Reinhard
Publicado 2012

Flexibility of Boolean Network Reservoir Computers in Approximating Arbitrary Recursive and Non-Recursive Binary Filters

por Echlin, Moriah, Aguilar, Boris, Notarangelo, Max, Gibbs, David L., Shmulevich, Ilya
Publicado 2018

Probabilistic boolean networks predict transcription factor targets to induce transdifferentiation

por Tercan, Bahar, Aguilar, Boris, Huang, Sui, Dougherty, Edward R., Shmulevich, Ilya
Publicado 2022

Patient-Specific Cell Communication Networks Associate With Disease Progression in Cancer

por Gibbs, David L., Aguilar, Boris, Thorsson, Vésteinn, Ratushny, Alexander V., Shmulevich, Ilya
Publicado 2021

Cell death as a trigger for morphogenesis

por Aguilar, Boris, Ghaffarizadeh, Ahmadreza, Johnson, Christopher D., Podgorski, Gregory J., Shmulevich, Ilya, Flann, Nicholas S.
Publicado 2018

SL-Cloud: A Cloud-based resource to support synthetic lethal interaction discovery

por Tercan, Bahar, Qin, Guangrong, Kim, Taek-Kyun, Aguilar, Boris, Phan, John, Longabaugh, William, Pot, David, Kemp, Christopher J., Chambwe, Nyasha, Shmulevich, Ilya
Publicado 2022

Intricate Genetic Programs Controlling Dormancy in Mycobacterium tuberculosis

por Peterson, Eliza J.R., Abidi, Abrar A., Arrieta-Ortiz, Mario L., Aguilar, Boris, Yurkovich, James T., Kaur, Amardeep, Pan, Min, Srinivas, Vivek, Shmulevich, Ilya, Baliga, Nitin S.
Publicado 2020

Intricate Genetic Programs Controlling Dormancy in Mycobacterium tuberculosis

por Peterson, Eliza J.R., Abidi, Abrar A., Arrieta-Ortiz, Mario L., Aguilar, Boris, Yurkovich, James T., Kaur, Amardeep, Pan, Min, Srinivas, Vivek, Shmulevich, Ilya, Baliga, Nitin S.
Publicado 2021

A generalizable data-driven multicellular model of pancreatic ductal adenocarcinoma

por Aguilar, Boris, Gibbs, David L, Reiss, David J, McConnell, Mark, Danziger, Samuel A, Dervan, Andrew, Trotter, Matthew, Bassett, Douglas, Hershberg, Robert, Ratushny, Alexander V, Shmulevich, Ilya
Publicado 2020

Exploring approaches for predictive cancer patient digital twins: Opportunities for collaboration and innovation

por Stahlberg, Eric A., Abdel-Rahman, Mohamed, Aguilar, Boris, Asadpoure, Alireza, Beckman, Robert A., Borkon, Lynn L., Bryan, Jeffrey N., Cebulla, Colleen M., Chang, Young Hwan, Chatterjee, Ansu, Deng, Jun, Dolatshahi, Sepideh, Gevaert, Olivier, Greenspan, Emily J., Hao, Wenrui, Hernandez-Boussard, Tina, Jackson, Pamela R., Kuijjer, Marieke, Lee, Adrian, Macklin, Paul, Madhavan, Subha, McCoy, Matthew D., Mohammad Mirzaei, Navid, Razzaghi, Talayeh, Rocha, Heber L., Shahriyari, Leili, Shmulevich, Ilya, Stover, Daniel G., Sun, Yi, Syeda-Mahmood, Tanveer, Wang, Jinhua, Wang, Qi, Zervantonakis, Ioannis
Publicado 2022