Pandora, a PAthway and Network DiscOveRy Approach based on common biological evidence

GAIA: a gram-based interaction analysis tool – an approach for identifying interacting domains in yeast

(2009) Kelvin X Zhang et al.   BMC BIOINFORMATICS

Sub1 Functions in Osmoregulation and in Transcription by both RNA Polymerases II and III

(2009) E. Rosonina et al.   MOLECULAR AND CELLULAR BIOLOGY

Fault Tolerance in Protein Interaction Networks: Stable Bipartite Subgraphs and Redundant Pathways

(2009) Arthur Brady et al.   PLoS One

AmiGO: online access to ontology and annotation data

(2008) Seth Carbon et al.   BIOINFORMATICS

A structural approach for finding functional modules from large biological networks

(2008) Mutlu Mete et al.   BMC BIOINFORMATICS

A comprehensive synthetic genetic interaction network governing yeast histone acetylation and deacetylation

(2008) Y.-y. Lin et al.   GENES & DEVELOPMENT

Proteasome subunit Rpn13 is a novel ubiquitin receptor

(2008) Koraljka Husnjak et al.   NATURE

Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks

(2008) Jun Zhu et al.   NATURE GENETICS

Global investigation of protein–protein interactions in yeast Saccharomyces cerevisiae using re-occurring short polypeptide sequences

(2008) S. Pitre et al.   NUCLEIC ACIDS RESEARCH

Reactome knowledgebase of human biological pathways and processes

(2008) L. Matthews et al.   NUCLEIC ACIDS RESEARCH

Mapping Genetically Compensatory Pathways from Synthetic Lethal Interactions in Yeast

(2008) Xiaotu Ma et al.   PLoS One

SLEPR: A Sample-Level Enrichment-Based Pathway Ranking Method — Seeking Biological Themes through Pathway-Level Consistency

(2008) Ming Yi et al.   PLoS One

Unraveling Protein Networks with Power Graph Analysis

(2008) Loïc Royer et al.   PLoS Computational Biology

Getting Started in Biological Pathway Construction and Analysis

(2008) Ganesh A Viswanathan et al.   PLoS Computational Biology