| Wisdom of crowds for robust gene network inference D Marbach, JC Costello, R Küffner, NM Vega, RJ Prill, DM Camacho, ... Nature Methods, 2012 | 1854 | 2012 |
| TIGRESS: trustful inference of gene regulation using stability selection AC Haury, F Mordelet, P Vera-Licona, JP Vert BMC systems biology 6, 1-17, 2012 | 489 | 2012 |
| Identification of a nerve-associated, lung-resident interstitial macrophage subset with distinct localization and immunoregulatory properties BB Ural, ST Yeung, P Damani-Yokota, JC Devlin, M de Vries, ... Science immunology 5 (45), eaax8756, 2020 | 225 | 2020 |
| Discretization of time series data ES Dimitrova, MPV Licona, J McGee, R Laubenbacher Journal of Computational Biology 17 (6), 853-868, 2010 | 110 | 2010 |
| The minimal hitting set generation problem: algorithms and computation A Gainer-Dewar, P Vera-Licona SIAM Journal on Discrete Mathematics 31 (1), 63-100, 2017 | 94 | 2017 |
| CD169+ macrophages orchestrate innate immune responses by regulating bacterial localization in the spleen OA Perez, ST Yeung, P Vera-Licona, PA Romagnoli, T Samji, BB Ural, ... Science immunology 2 (16), eaah5520, 2017 | 84 | 2017 |
| Comparison of Reverse‐Engineering Methods Using an in Silico Network D Camacho, P VERA LICONA, P Mendes, R Laubenbacher Annals of the New York Academy of Sciences 1115 (1), 73-89, 2007 | 58 | 2007 |
| Chromatin interaction networks revealed unique connectivity patterns of broad H3K4me3 domains and super enhancers in 3D chromatin A Thibodeau, EJ Márquez, DG Shin, P Vera-Licona, D Ucar Scientific Reports 7 (1), 14466, 2017 | 52 | 2017 |
| AlgoRun: a Docker-based packaging system for platform-agnostic implemented algorithms A Hosny, P Vera-Licona, R Laubenbacher, T Favre Bioinformatics 32 (15), 2396-2398, 2016 | 38 | 2016 |
| Parameter estimation for Boolean models of biological networks E Dimitrova, LD García-Puente, F Hinkelmann, AS Jarrah, ... Theoretical Computer Science 412 (26), 2816-2826, 2011 | 38 | 2011 |
| An Algebra-Based Method for Inferring Gene Regulatory Networks P Vera-Licona, A Jarrah, LD Garcia-Puente, J McGee, R Laubenbacher BMC Systems Biology 8 (37), 2014 | 34 | 2014 |
| OCSANA: Optimal Combinations of Interventions from Network Analysis P Vera-Licona, E Bonnet, E Barillot, A Zinovyev Bioinformatics 29 (12), 1571-1573, 2013 | 34 | 2013 |
| An efficient algorithm for the phase space structure of linear dynamical systems over finite fields A Jarrah, R Laubenbacher, P Vera-Licona | 18* | 2007 |
| Macrophage mediated recognition and clearance of Borrelia burgdorferi elicits MyD88-dependent and-independent phagosomal signals that contribute to phagocytosis and inflammation SJ Benjamin, KL Hawley, P Vera-Licona, CJ La Vake, JL Cervantes, ... BMC immunology 22 (1), 1-16, 2021 | 14 | 2021 |
| NETISCE: A Network-Based Tool for Cell Fate Reprogramming L Marazzi, M Shah, S Balakrishnan, A Patil, P Vera-Licona NPJ Systems Biology and Applications 8 (21), 2022 | 10 | 2022 |
| QuIN: a web server for querying and visualizing chromatin interaction networks A Thibodeau, EJ Márquez, O Luo, Y Ruan, F Menghi, DG Shin, ML Stitzel, ... PLoS computational biology 12 (6), e1004809, 2016 | 10 | 2016 |
| Benchmarking time-series data discretization on inference methods Y Li, T Jann, P Vera-Licona Bioinformatics 35 (17), 3102 - 3109, 2019 | 9 | 2019 |
| Reverse engineering of molecular networks from a common combinatorial approach B DasGupta, P Vera-Licona, E Sontag http://onlinelibrary.wiley.com/doi/10.1002/9780470892107.ch40/pdf, 2011 | 9 | 2011 |
| ‘Model your genes the mathematical way’—a mathematical biology workshop for secondary school teachers AM Martins, P Vera-Licona, R Laubenbacher Teaching Mathematics and Its Applications: International Journal of the IMA …, 2008 | 5 | 2008 |
| Inference of ecological interaction networks P Vera-Licona, R Laubenbacher Annales Zoologici Fennici 45 (5), 459-464, 2008 | 4 | 2008 |
James J CollinsMIT; Wyss Institute, Harvard; Broad Institute of MIT & HarvardVerified email at mit.edu