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1.

BioNetFit: a fitting tool compatible with BioNetGen, NFsim and distributed computing environments.

Thomas, Brandon R; Chylek, Lily A; Colvin, Joshua; Sirimulla, Suman; Clayton, Andrew H A; Hlavacek, William S; Posner, Richard G.

Bioinformatics ; 32(5): 798-800, 2016 03 01.

Artículo en Inglés | MEDLINE | ID: mdl-26556387

2.

Modeling for (physical) biologists: an introduction to the rule-based approach.

Chylek, Lily A; Harris, Leonard A; Faeder, James R; Hlavacek, William S.

Phys Biol ; 12(4): 045007, 2015 Jul 16.

Artículo en Inglés | MEDLINE | ID: mdl-26178138

3.

Modeling biomolecular site dynamics in immunoreceptor signaling systems.

Chylek, Lily A; Wilson, Bridget S; Hlavacek, William S.

Adv Exp Med Biol ; 844: 245-62, 2014.

Artículo en Inglés | MEDLINE | ID: mdl-25480645

4.

Multimodal surveillance of SARS-CoV-2 at a university enables development of a robust outbreak response framework.

Petros, Brittany A; Paull, Jillian S; Tomkins-Tinch, Christopher H; Loftness, Bryn C; DeRuff, Katherine C; Nair, Parvathy; Gionet, Gabrielle L; Benz, Aaron; Brock-Fisher, Taylor; Hughes, Michael; Yurkovetskiy, Leonid; Mulaudzi, Shandukani; Leenerman, Emma; Nyalile, Thomas; Moreno, Gage K; Specht, Ivan; Sani, Kian; Adams, Gordon; Babet, Simone V; Baron, Emily; Blank, Jesse T; Boehm, Chloe; Botti-Lodovico, Yolanda; Brown, Jeremy; Buisker, Adam R; Burcham, Timothy; Chylek, Lily; Cronan, Paul; Dauphin, Ann; Desreumaux, Valentine; Doss, Megan; Flynn, Belinda; Gladden-Young, Adrianne; Glennon, Olivia; Harmon, Hunter D; Hook, Thomas V; Kary, Anton; King, Clay; Loreth, Christine; Marrs, Libby; McQuade, Kyle J; Milton, Thorsen T; Mulford, Jada M; Oba, Kyle; Pearlman, Leah; Schifferli, Mark; Schmidt, Madelyn J; Tandus, Grace M; Tyler, Andy; Vodzak, Megan E.

Med ; 3(12): 883-900.e13, 2022 Dec 09.

Artículo en Inglés | MEDLINE | ID: mdl-36198312

5.

Time-resolved phosphoproteomics reveals scaffolding and catalysis-responsive patterns of SHP2-dependent signaling.

Vemulapalli, Vidyasiri; Chylek, Lily A; Erickson, Alison; Pfeiffer, Anamarija; Gabriel, Khal-Hentz; LaRochelle, Jonathan; Subramanian, Kartik; Cao, Ruili; Stegmaier, Kimberley; Mohseni, Morvarid; LaMarche, Matthew J; Acker, Michael G; Sorger, Peter K; Gygi, Steven P; Blacklow, Stephen C.

Elife ; 102021 03 23.

Artículo en Inglés | MEDLINE | ID: mdl-33755016

6.

Considerations for the Selection and Use of Disinfectants Against SARS-CoV-2 in a Health Care Setting.

Tyan, Kevin; Levin, Adriane; Avalos-Pacheco, Alejandra; Plana, Deborah; Rand, Eleanor A; Yang, Helen; Maliszewski, Laura E; Chylek, Lily A; Atta, Lyla; Tye, Mark A; Carmack, Mary M; Oglesby, N Synclaire; Burgin, Susan; Yu, Sherry H; LeBoeuf, Nicole R; Kemp, Jacqueline M.

Open Forum Infect Dis ; 7(9): ofaa396, 2020 Sep.

Artículo en Inglés | MEDLINE | ID: mdl-32989420

7.

Receptor-Driven ERK Pulses Reconfigure MAPK Signaling and Enable Persistence of Drug-Adapted BRAF-Mutant Melanoma Cells.

Gerosa, Luca; Chidley, Christopher; Fröhlich, Fabian; Sanchez, Gabriela; Lim, Sang Kyun; Muhlich, Jeremy; Chen, Jia-Yun; Vallabhaneni, Sreeram; Baker, Gregory J; Schapiro, Denis; Atanasova, Mariya I; Chylek, Lily A; Shi, Tujin; Yi, Lian; Nicora, Carrie D; Claas, Allison; Ng, Thomas S C; Kohler, Rainer H; Lauffenburger, Douglas A; Weissleder, Ralph; Miller, Miles A; Qian, Wei-Jun; Wiley, H Steven; Sorger, Peter K.

Cell Syst ; 11(5): 478-494.e9, 2020 11 18.

Artículo en Inglés | MEDLINE | ID: mdl-33113355

8.

Using Mechanistic Models for Analysis of Proteomic Data.

Chylek, Lily A.

Methods Mol Biol ; 1945: 265-270, 2019.

Artículo en Inglés | MEDLINE | ID: mdl-30945251

9.

Using Equation-Free Computation to Accelerate Network-Free Stochastic Simulation of Chemical Kinetics.

Lin, Yen Ting; Chylek, Lily A; Lemons, Nathan W; Hlavacek, William S.

J Phys Chem B ; 122(24): 6351-6356, 2018 06 21.

Artículo en Inglés | MEDLINE | ID: mdl-29851484

10.

Timescale Separation of Positive and Negative Signaling Creates History-Dependent Responses to IgE Receptor Stimulation.

Harmon, Brooke; Chylek, Lily A; Liu, Yanli; Mitra, Eshan D; Mahajan, Avanika; Saada, Edwin A; Schudel, Benjamin R; Holowka, David A; Baird, Barbara A; Wilson, Bridget S; Hlavacek, William S; Singh, Anup K.

Sci Rep ; 7(1): 15586, 2017 Nov 14.

Artículo en Inglés | MEDLINE | ID: mdl-29138425

11.

An Interaction Library for the FcÎµRI Signaling Network.

Chylek, Lily A; Holowka, David A; Baird, Barbara A; Hlavacek, William S.

Front Immunol ; 5: 172, 2014.

Artículo en Inglés | MEDLINE | ID: mdl-24782869

12.

Phosphorylation site dynamics of early T-cell receptor signaling.

Chylek, Lily A; Akimov, Vyacheslav; Dengjel, Jörn; Rigbolt, Kristoffer T G; Hu, Bin; Hlavacek, William S; Blagoev, Blagoy.

PLoS One ; 9(8): e104240, 2014.

Artículo en Inglés | MEDLINE | ID: mdl-25147952

13.

Rule-based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems.

Chylek, Lily A; Harris, Leonard A; Tung, Chang-Shung; Faeder, James R; Lopez, Carlos F; Hlavacek, William S.

Wiley Interdiscip Rev Syst Biol Med ; 6(1): 13-36, 2014.

Artículo en Inglés | MEDLINE | ID: mdl-24123887

14.

Decoding the language of phosphorylation site dynamics.

Chylek, Lily A.

Sci Signal ; 6(274): jc2, 2013 May 07.

Artículo en Inglés | MEDLINE | ID: mdl-23652201

15.

Guidelines for visualizing and annotating rule-based models.

Chylek, Lily A; Hu, Bin; Blinov, Michael L; Emonet, Thierry; Faeder, James R; Goldstein, Byron; Gutenkunst, Ryan N; Haugh, Jason M; Lipniacki, Tomasz; Posner, Richard G; Yang, Jin; Hlavacek, William S.

Mol Biosyst ; 7(10): 2779-95, 2011 Oct.

Artículo en Inglés | MEDLINE | ID: mdl-21647530

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