3Omics: a web-based systems biology tool for analysis, integration and visualization of human transcriptomic, proteomic and metabolomic data

Metscape 2 bioinformatics tool for the analysis and visualization of metabolomics and gene expression data

(2011) Alla Karnovsky et al.   BIOINFORMATICS

MetPA: a web-based metabolomics tool for pathway analysis and visualization

(2010) J. Xia et al.   BIOINFORMATICS

Paintomics: a web based tool for the joint visualization of transcriptomics and metabolomics data

(2010) F. Garcia-Alcalde et al.   BIOINFORMATICS

Visualization of omics data for systems biology

(2010) Nils Gehlenborg et al.   NATURE METHODS

Entrez Gene: gene-centered information at NCBI

(2010) D. Maglott et al.   NUCLEIC ACIDS RESEARCH

Combining tissue transcriptomics and urine metabolomics for breast cancer biomarker identification

(2009) Hojung Nam et al.   BIOINFORMATICS

Visualizing post genomics data-sets on customized pathway maps by ProMeTra – aeration-dependent gene expression and metabolism of Corynebacterium glutamicum as an example

(2009) Heiko Neuweger et al.   BMC Systems Biology

VisANT 3.5: multi-scale network visualization, analysis and inference based on the gene ontology

(2009) Zhenjun Hu et al.   NUCLEIC ACIDS RESEARCH

PubChem: a public information system for analyzing bioactivities of small molecules

(2009) Y. Wang et al.   NUCLEIC ACIDS RESEARCH

Arena3D: visualization of biological networks in 3D

(2008) Georgios A Pavlopoulos et al.   BMC Systems Biology

Integrated Pathway Analysis of Rat Urine Metabolic Profiles and Kidney Transcriptomic Profiles To Elucidate the Systems Toxicology of Model Nephrotoxicants

(2008) Ethan Yixun Xu et al.   CHEMICAL RESEARCH IN TOXICOLOGY

An algorithm for thorough background subtraction from high-resolution LC/MS data: application for detection of glutathione-trapped reactive metabolites

(2008) Haiying Zhang et al.   JOURNAL OF MASS SPECTROMETRY

Integrated Transcriptomics, Proteomics, and Metabolomics Analyses To Survey Ozone Responses in the Leaves of Rice Seedling

(2008) Kyoungwon Cho et al.   JOURNAL OF PROTEOME RESEARCH

Correlating the Transcriptome, Proteome, and Metabolome in the Environmental Adaptation of a Hyperthermophile

(2008) Sunia A. Trauger et al.   JOURNAL OF PROTEOME RESEARCH

Genetic Networks of Liver Metabolism Revealed by Integration of Metabolic and Transcriptional Profiling

(2008) Christine T. Ferrara et al.   PLoS Genetics