JAMIE: joint analysis of multiple ChIP-chip experiments

Hedgehog pathway-regulated gene networks in cerebellum development and tumorigenesis

(2010) E. Y. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Doubly stochastic continuous-time hidden Markov approach for analyzing genome tiling arrays

(2009) W. Evan Johnson et al.   Annals of Applied Statistics

TileProbe: modeling tiling array probe effects using publicly available data

(2009) Jennifer Toolan Judy et al.   BIOINFORMATICS

Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data

(2009) Hyungwon Choi et al.   BIOINFORMATICS

A genome-scale analysis of the cis-regulatory circuitry underlying sonic hedgehog-mediated patterning of the mammalian limb

(2008) S. A. Vokes et al.   GENES & DEVELOPMENT

Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets

(2008) D. S. Johnson et al.   GENOME RESEARCH

An integrated software system for analyzing ChIP-chip and ChIP-seq data

(2008) Hongkai Ji et al.   NATURE BIOTECHNOLOGY

NCBI GEO: archive for high-throughput functional genomic data

(2008) T. Barrett et al.   NUCLEIC ACIDS RESEARCH

A Flexible and Powerful Bayesian Hierarchical Model for ChIP-Chip Experiments

(2007) Raphael Gottardo et al.   BIOMETRICS