Rudiyanto Gunawan

Publication Activity (10 Years)

Years Active: 2001-2022
Publications (10 Years): 9

Top Topics

Expression Profiles

Structure Learning

Saccharomyces Cerevisiae

Regulatory Networks

Top Venues

PLoS Comput. Biol.

BMC Syst. Biol.

Publications

Theodore Groth, Alexander D. Diehl, Rudiyanto Gunawan, Sriram Neelamegham
GlycoEnzOnto: a GlycoEnzyme pathway and molecular function ontology. Bioinform. 38 (24) (2022)
Heeju Noh, Ziyi Hua, Panagiotis Chrysinas, Jason E. Shoemaker, Rudiyanto Gunawan
DeltaNeTS+: elucidating the mechanism of drugs and diseases using gene expression and transcriptional regulatory networks. BMC Bioinform. 22 (1) (2021)
Sudharshan Ravi, Rudiyanto Gunawan
ΔFBA - Predicting metabolic flux alterations using genome-scale metabolic models and differential transcriptomic data. PLoS Comput. Biol. 17 (11) (2021)
Nan Papili Gao, S. M. Minhaz Ud-Dean, Olivier Gandrillon, Rudiyanto Gunawan
SINCERITIES: inferring gene regulatory networks from time-stamped single cell transcriptional expression profiles. Bioinform. 34 (2) (2018)
S. M. Minhaz Ud-Dean, Sandra Heise, Steffen Klamt, Rudiyanto Gunawan
TRaCE+: Ensemble inference of gene regulatory networks from transcriptional expression profiles of gene knock-out experiments. BMC Bioinform. 17 (2016)
Heeju Noh, Rudiyanto Gunawan
Inferring gene targets of drugs and chemical compounds from gene expression profiles. Bioinform. 32 (14) (2016)
S. M. Minhaz Ud-Dean, Rudiyanto Gunawan
Optimal design of gene knockout experiments for gene regulatory network inference. Bioinform. 32 (6) (2016)
Yang Liu, Erica Manesso, Rudiyanto Gunawan
REDEMPTION: reduced dimension ensemble modeling and parameter estimation. Bioinform. 31 (20) (2015)
Zhi Yang Tam, Jan Gruber, Barry Halliwell, Rudiyanto Gunawan
Context-Dependent Role of Mitochondrial Fusion-Fission in Clonal Expansion of mtDNA Mutations. PLoS Comput. Biol. 11 (5) (2015)
Yang Liu, Rudiyanto Gunawan
Parameter estimation of dynamic biological network models using integrated fluxes. BMC Syst. Biol. 8 (2014)
Thanneer Malai Perumal, Sashikant Madgula Krishna, Sai Sandeep Tallam, Rudiyanto Gunawan
Reduction of kinetic models using dynamic sensitivities. Comput. Chem. Eng. 56 (2013)
Gengjie Jia, Gregory Stephanopoulos, Rudiyanto Gunawan
Incremental parameter estimation of kinetic metabolic network models. BMC Syst. Biol. 6 (2012)
Gengjie Jia, Gregory Stephanopoulos, Rudiyanto Gunawan
Parameter estimation of kinetic models from metabolic profiles: two-phase dynamic decoupling method. Bioinform. 27 (14) (2011)
Thanneer M. Perumal, Rudiyanto Gunawan
Understanding dynamics using sensitivity analysis: caveat and solution. BMC Syst. Biol. 5 (2011)
Suresh Kumar Poovathingal, Rudiyanto Gunawan
Global parameter estimation methods for stochastic biochemical systems. BMC Bioinform. 11 (2010)
Suresh Kumar Poovathingal, Jan Gruber, Barry Halliwell, Rudiyanto Gunawan
. PLoS Comput. Biol. 5 (11) (2009)
Stephanie R. Taylor, Rudiyanto Gunawan, Linda R. Petzold, Francis J. Doyle III
Sensitivity Measures for Oscillating Systems: Application to Mammalian Circadian Gene Network. IEEE Trans. Autom. Control. 53 (2008)
Richard D. Braatz, Richard C. Alkire, Edmund G. Seebauer, Timothy O. Drews, Effendi Rusli, Mohan Karulkar, Feng Xue, Yan Qin, Michael Y. L. Jung, Rudiyanto Gunawan
A multiscale systems approach to microelectronic processes. Comput. Chem. Eng. 30 (10-12) (2006)
Francis J. Doyle III, Rudiyanto Gunawan, Neda Bagheri, Henry Mirsky, Tsz Leung To
Circadian rhythm: A natural, robust, multi-scale control system. Comput. Chem. Eng. 30 (10-12) (2006)
Kapil G. Gadkar, Rudiyanto Gunawan, Francis J. Doyle III
Iterative approach to model identification of biological networks. BMC Bioinform. 6 (2005)
Rudiyanto Gunawan, Francis J. Doyle III
Phase Sensitivity Analysis of a Circadian Rhythm Gene Network. CDC/ECC (2005)
Rudiyanto Gunawan, E. L. Russell, Richard D. Braatz
Robustness analysis of multivariable systems with time delays. ECC (2001)