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

JAMIE: joint analysis of multiple ChIP-chip experiments

(2010) Hao Wu et al.   BIOINFORMATICS

Protein Dynamics in Drug Combinations: a Linear Superposition of Individual-Drug Responses

(2010) Naama Geva-Zatorsky et al.   CELL

Protein Kinase Target Discovery From Genome-Wide Messenger RNA Expression Profiling

(2010) Avi Ma'ayan et al.   MOUNT SINAI JOURNAL OF MEDICINE

KEA: kinase enrichment analysis

(2009) A. Lachmann et al.   BIOINFORMATICS

Uncovering Early Response of Gene Regulatory Networks in ESCs by Systematic Induction of Transcription Factors

(2009) Akira Nishiyama et al.   Cell Stem Cell

A probabilistic generative model for GO enrichment analysis

(2008) Yong Lu et al.   NUCLEIC ACIDS RESEARCH

Design Logic of a Cannabinoid Receptor Signaling Network That Triggers Neurite Outgrowth

(2008) K. D. Bromberg et al.   SCIENCE