De-Novo Learning of Genome-Scale Regulatory Networks in S. cerevisiae

Inferring gene regulatory networks by ANOVA

(2012) Robert Küffner et al.   BIOINFORMATICS

Wisdom of crowds for robust gene network inference

(2012) Daniel Marbach et al.   NATURE METHODS

Topological analysis and interactive visualization of biological networks and protein structures

(2012) Nadezhda T Doncheva et al.   Nature Protocols

Assessing quality and completeness of human transcriptional regulatory pathways on a genome-wide scale

(2011) Evgeny Shmelkov et al.   Biology Direct

The Specificity and Topology of Chromatin Interaction Pathways in Yeast

(2011) Tineke L. Lenstra et al.   MOLECULAR CELL

Saccharomyces Genome Database: the genomics resource of budding yeast

(2011) J. M. Cherry et al.   NUCLEIC ACIDS RESEARCH

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

Functional Overlap and Regulatory Links Shape Genetic Interactions between Signaling Pathways

(2010) Sake van Wageningen et al.   CELL

A comprehensive assessment of methods for de-novo reverse-engineering of genome-scale regulatory networks

(2010) Varun Narendra et al.   GENOMICS

Lessons from the DREAM2 Challenges

(2009) Gustavo Stolovitzky et al.   Annals of the New York Academy of Sciences

The impact of incomplete knowledge on evaluation: an experimental benchmark for protein function prediction

(2009) Curtis Huttenhower et al.   BIOINFORMATICS

Adaptable gene-specific dye bias correction for two-channel DNA microarrays

(2009) Thanasis Margaritis et al.   Molecular Systems Biology

ArrayExpress update--from an archive of functional genomics experiments to the atlas of gene expression

(2008) H. Parkinson et al.   NUCLEIC ACIDS RESEARCH

NCBI GEO: archive for high-throughput functional genomic data

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

Gene–Environment Interaction in Yeast Gene Expression

(2008) Erin N Smith et al.   PLOS BIOLOGY

Transcription Factors Bind Thousands of Active and Inactive Regions in the Drosophila Blastoderm

(2008) Xiao-yong Li et al.   PLOS BIOLOGY