Inferring gene functions through dissection of relevance networks: interleaving the intra- and inter-species views

Complexity of automated gene annotation

(2011) Zoran Nikoloski et al.   BIOSYSTEMS

Unraveling gene regulatory networks from time-resolved gene expression data -- a measures comparison study

(2011) Sabrina Hempel et al.   BMC BIOINFORMATICS

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

(2011) Philippe Lamesch et al.   NUCLEIC ACIDS RESEARCH

Global Landscape of a Co-Expressed Gene Network in Barley and its Application to Gene Discovery in Triticeae Crops

(2011) Keiichi Mochida et al.   PLANT AND CELL PHYSIOLOGY

ATTED-II Updates: Condition-Specific Gene Coexpression to Extend Coexpression Analyses and Applications to a Broad Range of Flowering Plants

(2011) T. Obayashi et al.   PLANT AND CELL PHYSIOLOGY

PlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven Species

(2011) M. Mutwil et al.   PLANT CELL

A general co-expression network-based approach to gene expression analysis: comparison and applications

(2010) Jianhua Ruan et al.   BMC Systems Biology

Biological Cluster Evaluation for Gene Function Prediction

(2010) Sebastian Klie et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

The Association of Multiple Interacting Genes with Specific Phenotypes in Rice Using Gene Coexpression Networks

(2010) Stephen P. Ficklin et al.   PLANT PHYSIOLOGY

Rank of Correlation Coefficient as a Comparable Measure for Biological Significance of Gene Coexpression

(2009) T. Obayashi et al.   DNA RESEARCH

Co-expression tools for plant biology: opportunities for hypothesis generation and caveats

(2009) BJ��RN USADEL et al.   PLANT CELL AND ENVIRONMENT

Assembly of an Interactive Correlation Network for the Arabidopsis Genome Using a Novel Heuristic Clustering Algorithm

(2009) M. Mutwil et al.   PLANT PHYSIOLOGY

Unraveling Transcriptional Control in Arabidopsis Using cis-Regulatory Elements and Coexpression Networks

(2009) K. Vandepoele et al.   PLANT PHYSIOLOGY

Functional annotations for the Saccharomyces cerevisiae genome: the knowns and the known unknowns

(2009) Karen R. Christie et al.   TRENDS IN MICROBIOLOGY

Functional coherence in domain interaction networks

(2008) J. Pandey et al.   BIOINFORMATICS

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

On Modularity Clustering

(2008) U. Brandes et al.   IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

GeneCAT—novel webtools that combine BLAST and co-expression analyses

(2008) Marek Mutwil et al.   NUCLEIC ACIDS RESEARCH

ATTED-II provides coexpressed gene networks for Arabidopsis

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

CressExpress: A Tool For Large-Scale Mining of Expression Data from Arabidopsis

(2008) V. Srinivasasainagendra et al.   PLANT PHYSIOLOGY