2019

Transcription factor regulatory modules provide the molecular mechanisms for functional redundancy observed among transcription factors in yeast

2014

Identifying and quantifying metabolites by scoring peaks of GC-MS data

A modular computational framework for automated peak extraction from ion mobility spectra

Improved packing of protein side chains with parallel ant colonies

Yeast pheromone pathway modeling using Petri nets

2013

VaccImm: simulating peptide vaccination in cancer therapy

2011

CASCADE_SCAN: mining signal transduction network from high-throughput data based on steepest descent method

A systems approach to identifying correlated gene targets for the loss of colour pigmentation in plants

The volatile compound BinBase mass spectral database

2010

TF-centered downstream gene set enrichment analysis: Inference of causal regulators by integrating TF-DNA interactions and protein post-translational modifications information

2008

Modularization of biochemical networks based on classification of Petri net t-invariants

2006

Application of Petri net based analysis techniques to signal transduction pathways

2005

Dynamic modeling of cis-regulatory circuits and gene expression prediction via cross-gene identification

The yeast kinome displays scale free topology with functional hub clusters