Genexpi: a toolset for identifying regulons and validating gene regulatory networks using time-course expression data

RGBM: regularized gradient boosting machines for identification of the transcriptional regulators of discrete glioma subtypes

(2018) Raghvendra Mall et al.   NUCLEIC ACIDS RESEARCH

Parameter inference of general nonlinear dynamical models of gene regulatory networks from small and noisy time series

(2016) Arturo Berrones et al.   NEUROCOMPUTING

Review on statistical methods for gene network reconstruction using expression data

(2014) Y.X. Rachel Wang et al.   JOURNAL OF THEORETICAL BIOLOGY

Inference of sigma factor controlled networks by using numerical modeling applied to microarray time series data of the germinating prokaryote

(2013) E. Strakova et al.   NUCLEIC ACIDS RESEARCH

SubtiWiki–a database for the model organismBacillus subtilisthat links pathway, interaction and expression information

(2013) Raphael H. Michna et al.   NUCLEIC ACIDS RESEARCH

Identifying targets of multiple co-regulating transcription factors from expression time-series by Bayesian model comparison

(2012) Michalis K Titsias et al.   BMC Systems Biology

Conservation of thiol-oxidative stress responses regulated by SigR orthologues in actinomycetes

(2012) Min-Sik Kim et al.   MOLECULAR MICROBIOLOGY

Construction of regulatory networks using expression time-series data of a genotyped population

(2011) K. Y. Yeung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide transcription factor binding: beyond direct target regulation

(2011) Kyle L. MacQuarrie et al.   TRENDS IN GENETICS

TimeDelay-ARACNE: Reverse engineering of gene networks from time-course data by an information theoretic approach

(2010) Pietro Zoppoli et al.   BMC BIOINFORMATICS

The  R regulon of Streptomyces coelicolor A3(2) reveals a key role in protein quality control during disulphide stress

(2010) D. Kallifidas et al.   MICROBIOLOGY-SGM