Evaluating the consistency of gene sets used in the analysis of bacterial gene expression data

On the Use of Gene Ontology Annotations to Assess Functional Similarity among Orthologs and Paralogs: A Short Report

(2012) Paul D. Thomas et al.   PLoS Computational Biology

Finding disease similarity based on implicit semantic similarity

(2011) Sachin Mathur et al.   JOURNAL OF BIOMEDICAL INFORMATICS

SEAS: A System for SEED-Based Pathway Enrichment Analysis

(2011) Xizeng Mao et al.   PLoS One

A SATS algorithm for jointly identifying multiple differentially expressed gene sets

(2011) Tae Young Yang   STATISTICS IN MEDICINE

SICAGO: Semi-supervised cluster analysis using semantic distance between gene pairs in Gene Ontology

(2010) B.-Y. Kang et al.   BIOINFORMATICS

Functional integration of a metabolic network model and expression data without arbitrary thresholding

(2010) Paul A. Jensen et al.   BIOINFORMATICS

Integrative inference of gene-regulatory networks in Escherichia coli using information theoretic concepts and sequence analysis

(2010) Christoph Kaleta et al.   BMC Systems Biology

Probabilistic integrative modeling of genome-scale metabolic and regulatory networks inEscherichia coliandMycobacterium tuberculosis

(2010) Sriram Chandrasekaran et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CLEAN: CLustering Enrichment ANalysis

(2009) Johannes M Freudenberg et al.   BMC BIOINFORMATICS

Semantic Similarity in Biomedical Ontologies

(2009) Catia Pesquita et al.   PLoS Computational Biology

Gene set analyses for interpreting microarray experiments on prokaryotic organisms

(2008) Nathan L Tintle et al.   BMC BIOINFORMATICS

What is principal component analysis?

(2008) Markus Ringnér   NATURE BIOTECHNOLOGY

Context-Specific Metabolic Networks Are Consistent with Experiments

(2008) Scott A. Becker et al.   PLoS Computational Biology