Global reconstruction of the human metabolic network based on genomic and bibliomic data

Duarte NC, Becker SA, Jamshidi N, Thiele I, Mo ML, Vo TD, Srivas R, Palsson B

Diego Halab Robles Programa de Doctorado en Ciencias Mdicas Unversidad Austral de Chile

Backround
Genome Bibliome

Bottom-up reconstruction
BiGG structure Microorganism, mouses

Homo sapiens Recon 1

In silico model

Enables the identification of gaps understanding of human metabolism

in

our

Facilitates the computational interrogation of the overall properties of the human metabolic network Provides context for analysis of -omics data sets.

Reconstruction of H. sapiens Recon 1

Kyoto Encyclopedia of Genes and Genomes

EntrezGene

H-Invitational Database

Enzyme Commission numbers Gene Ontologies 1,865 human metabolic genes KEGGs LIGAND 3,623 metabolic enzymes 3,673 reactions

Validation of H. sapiens Recon 1 simulating 288 known metabolic functions in silico

Quantitative characterization of the Human Metabolic Bibliome reveals an uneven knowledge landscape

Coupled reaction sets suggest potential alternatives to known drug targets

Integrated analysis of gene expression data reveals the effects of gastric bypass surgery on skeletal muscle metabolism