Estimating the activity of transcription factors by the effect on their target genes

Regulation of transcription factor activity by interconnected post-translational modifications

(2014) Theresa M. Filtz et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

hARACNe: improving the accuracy of regulatory model reverse engineering via higher-order data processing inequality tests

(2013) I. S. Jang et al.   Interface Focus

CellMiner: A Web-Based Suite of Genomic and Pharmacologic Tools to Explore Transcript and Drug Patterns in the NCI-60 Cell Line Set

(2012) W. C. Reinhold et al.   CANCER RESEARCH

Understanding transcriptional regulation by integrative analysis of transcription factor binding data

(2012) C. Cheng et al.   GENOME RESEARCH

Inferring transcriptional and microRNA-mediated regulatory programs in glioblastoma

(2012) Manu Setty et al.   Molecular Systems Biology

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Modeling gene expression using chromatin features in various cellular contexts

(2012) Xianjun Dong et al.   GENOME BIOLOGY

Evolution of Promoter Affinity for Transcription Factors in the Human Lineage

(2011) I. Molineris et al.   MOLECULAR BIOLOGY AND EVOLUTION

Enhancers regulate progression of development in mammalian cells

(2011) Anna-Lena Kranz et al.   NUCLEIC ACIDS RESEARCH

Network Quantitative Trait Loci Mapping of Circadian Clock Outputs Identifies Metabolic Pathway-to-Clock Linkages inArabidopsis

(2011) Rachel E. Kerwin et al.   PLANT CELL

Network Inference Algorithms Elucidate Nrf2 Regulation of Mouse Lung Oxidative Stress

(2011) Ronald C. Taylor et al.   PLoS Computational Biology

PathWave: discovering patterns of differentially regulated enzymes in metabolic pathways

(2010) Gunnar Schramm et al.   BIOINFORMATICS

ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments

(2010) Alexander Lachmann et al.   BIOINFORMATICS

Protein interaction network topology uncovers melanogenesis regulatory network components within functional genomics datasets

(2010) Hsiang Ho et al.   BMC Systems Biology

mRNA and microRNA Expression Profiles of the NCI-60 Integrated with Drug Activities

(2010) H. Liu et al.   MOLECULAR CANCER THERAPEUTICS

Sox proteins in melanocyte development and melanoma

(2010) Melissa L. Harris et al.   Pigment Cell & Melanoma Research

A systems-level approach to mapping the telomere length maintenance gene circuitry

(2008) Rafi Shachar et al.   Molecular Systems Biology

Predicting expression patterns from regulatory sequence in Drosophila segmentation

(2008) Eran Segal et al.   NATURE

POU domain transcription factors: BRN2 as a regulator of melanocytic growth and tumourigenesis

(2008) Anthony L. Cook et al.   Pigment Cell & Melanoma Research

Oncogenic BRAF Regulates Melanoma Proliferation through the Lineage Specific Factor MITF

(2008) Claudia Wellbrock et al.   PLoS One