Rudiyanto Gunawan

24 papers Journal 20Unranked 3
YearRankTypeTitle / Venue / Authors
2022 J jnl
GlycoEnzOnto: a GlycoEnzyme pathway and molecular function ontology.
Bioinform.
Theodore Groth, Alexander D. Diehl, Rudiyanto Gunawan, Sriram Neelamegham
2022 — conf
Integrating image analysis with single cell RNA-seq data to study podocyte-specific changes in diabetic kidney disease.
Digital and Computational Pathology
Darshana Govind, Saber Meamardoost, Rabi Yacoub, Rudiyanto Gunawan, John E. Tomaszewski, Pinaki Sarder
2021 J jnl
DeltaNeTS+: elucidating the mechanism of drugs and diseases using gene expression and transcriptional regulatory networks.
BMC Bioinform.
Heeju Noh, Ziyi Hua, Panagiotis Chrysinas, Jason E. Shoemaker, Rudiyanto Gunawan
2021 J jnl
ΔFBA - Predicting metabolic flux alterations using genome-scale metabolic models and differential transcriptomic data.
PLoS Comput. Biol.
Sudharshan Ravi, Rudiyanto Gunawan
2018 J jnl
SINCERITIES: inferring gene regulatory networks from time-stamped single cell transcriptional expression profiles.
Bioinform.
Nan Papili Gao, S. M. Minhaz Ud-Dean, Olivier Gandrillon, Rudiyanto Gunawan
2016 J jnl
Inferring gene targets of drugs and chemical compounds from gene expression profiles.
Bioinform.
Heeju Noh, Rudiyanto Gunawan
2016 J jnl
Optimal design of gene knockout experiments for gene regulatory network inference.
Bioinform.
S. M. Minhaz Ud-Dean, Rudiyanto Gunawan
2016 J jnl
TRaCE+: Ensemble inference of gene regulatory networks from transcriptional expression profiles of gene knock-out experiments.
BMC Bioinform.
S. M. Minhaz Ud-Dean, Sandra Heise, Steffen Klamt, Rudiyanto Gunawan
2015 J jnl
Context-Dependent Role of Mitochondrial Fusion-Fission in Clonal Expansion of mtDNA Mutations.
PLoS Comput. Biol.
Zhi Yang Tam, Jan Gruber, Barry Halliwell, Rudiyanto Gunawan
2015 J jnl
REDEMPTION: reduced dimension ensemble modeling and parameter estimation.
Bioinform.
Yang Liu, Erica Manesso, Rudiyanto Gunawan
2014 J jnl
Parameter estimation of dynamic biological network models using integrated fluxes.
BMC Syst. Biol.
Yang Liu, Rudiyanto Gunawan
2013 J jnl
Reduction of kinetic models using dynamic sensitivities.
Comput. Chem. Eng.
Thanneer Malai Perumal, Sashikant Madgula Krishna, Sai Sandeep Tallam, Rudiyanto Gunawan
2012 J jnl
Incremental parameter estimation of kinetic metabolic network models.
BMC Syst. Biol.
Gengjie Jia, Gregory Stephanopoulos, Rudiyanto Gunawan
2011 J jnl
Parameter estimation of kinetic models from metabolic profiles: two-phase dynamic decoupling method.
Bioinform.
Gengjie Jia, Gregory Stephanopoulos, Rudiyanto Gunawan
2011 J jnl
Understanding dynamics using sensitivity analysis: caveat and solution.
BMC Syst. Biol.
Thanneer M. Perumal, Rudiyanto Gunawan
2010 J jnl
Global parameter estimation methods for stochastic biochemical systems.
BMC Bioinform.
Suresh Kumar Poovathingal, Rudiyanto Gunawan
2009 — ch.
Automatic Control in Systems Biology.
Handbook of Automation
Henry Mirsky, Jörg Stelling, Rudiyanto Gunawan, Neda Bagheri, Stephanie R. Taylor, Eric Kwei, Jason E. Shoemaker, Francis J. Doyle III
2009 J jnl
Stochastic Drift in Mitochondrial DNA Point Mutations: A Novel Perspective
PLoS Comput. Biol.
Suresh Kumar Poovathingal, Jan Gruber, Barry Halliwell, Rudiyanto Gunawan
2008 J jnl
Sensitivity Measures for Oscillating Systems: Application to Mammalian Circadian Gene Network.
IEEE Trans. Autom. Control.
Stephanie R. Taylor, Rudiyanto Gunawan, Linda R. Petzold, Francis J. Doyle III
2006 J jnl
A multiscale systems approach to microelectronic processes.
Comput. Chem. Eng.
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
2006 J jnl
Circadian rhythm: A natural, robust, multi-scale control system.
Comput. Chem. Eng.
Francis J. Doyle III, Rudiyanto Gunawan, Neda Bagheri, Henry Mirsky, Tsz Leung To
2005 J jnl
Iterative approach to model identification of biological networks.
BMC Bioinform.
Kapil G. Gadkar, Rudiyanto Gunawan, Francis J. Doyle III
2005 — conf
Phase Sensitivity Analysis of a Circadian Rhythm Gene Network.
CDC/ECC
Rudiyanto Gunawan, Francis J. Doyle III
2001 — conf
Robustness analysis of multivariable systems with time delays.
ECC
Rudiyanto Gunawan, E. L. Russell, Richard D. Braatz