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John Arul Prakash Sekar
John Arul Prakash Sekar
Chief Scientist, Astralinx Inc
Zweryfikowany adres z astralinx.com
Tytuł
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BioNetGen 2.2: advances in rule-based modeling
LA Harris, JS Hogg, JJ Tapia, JAP Sekar, S Gupta, I Korsunsky, A Arora, ...
Bioinformatics 32 (21), 3366-3368, 2016
2552016
A blueprint for human whole-cell modeling
B Szigeti, YD Roth, JAP Sekar, AP Goldberg, SC Pochiraju, JR Karr
Current opinion in systems biology 7, 8-15, 2018
812018
Emerging whole-cell modeling principles and methods
AP Goldberg, B Szigeti, YH Chew, JAP Sekar, YD Roth, JR Karr
Current opinion in biotechnology 51, 97-102, 2018
792018
Rule-based modeling of signal transduction: a primer
JAP Sekar, JR Faeder
Computational Modeling of Signaling Networks, 139-218, 2012
382012
Automated visualization of rule-based models
JAP Sekar, JJ Tapia, JR Faeder
PLoS computational biology 13 (11), e1005857, 2017
182017
BpForms and BcForms: a toolkit for concretely describing non-canonical polymers and complexes to facilitate global biochemical networks
PF Lang, Y Chebaro, X Zheng, JA P. Sekar, B Shaikh, DA Natale, JR Karr
Genome biology 21, 1-21, 2020
142020
Energy-based modeling in BioNetGen
JAP Sekar, JS Hogg, JR Faeder
2016 IEEE international conference on bioinformatics and biomedicine (BIBM …, 2016
122016
Exact parallelization of the stochastic simulation algorithm for scalable simulation of large biochemical networks
AP Goldberg, DR Jefferson, JAP Sekar, JR Karr
arXiv preprint arXiv:2005.05295, 2020
62020
Structured spreadsheets with objtables enable data reuse and integration
JR Karr, W Liebermeister, AP Goldberg, JA Sekar, B Shaikh
arXiv, 2020
52020
Visualizing regulation in rule-based models
JAP Sekar, JJ Tapia, JR Faeder
arXiv preprint arXiv:1509.00896, 2015
32015
ObjTables: structured spreadsheets that promote data quality, reuse, and integration
JR Karr, W Liebermeister, AP Goldberg, JAP Sekar, B Shaikh
arXiv preprint arXiv:2005.05227, 2020
22020
An introduction to rule-based modeling of immune receptor signaling
JAP Sekar, JR Faeder
Systems Immunology, 71-90, 2018
22018
Rule-based modeling of cell signaling: Advances in model construction, visualization and simulation
JAP Sekar
University of Pittsburgh, 2015
22015
A web portal for exploring kinase-substrate interactions
JAP Sekar, YC Li, A Schlessinger, G Pandey
NPJ Systems Biology and Applications 10 (1), 113, 2024
2024
KinAce: a web portal for exploring kinase-substrate interactions
JAP Sekar, YC Li, A Schlessinger, G Pandey
bioRxiv, 2023.12. 08.570875, 2023
2023
Modeling the Role of Antigen Stimulation in Treg vs. Teff Fate Selection (36.52)
J Sekar, N Miskov-Zivanov, M Turner, P Morel, J Faeder
The Journal of Immunology 184 (1_Supplement), 36.52-36.52, 2010
2010
Mechanistic analysis of reaction network models
JJ Tapia, JAP Sekar, JR Faeder
Visualizing Rule-based models
J Sekar, JR Faeder
Experimental Design in Rule-Based Models
JAP Sekar, JR Faeder
Modeling of Peripheral T Cell Differentiation
N Miskov-Zivanov, JAP Sekar, MS Turner, LP Kane, PA Morel, JR Faeder
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