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|Alternative name||GEnome-scale Models with PROtein structures|
|Restrictions to use||None|
|User data submission||Not allowed|
- Escherichia coli
- person_outline Bernhard Palsson
Publication for GEnome-scale Models with PROtein structures
Multi omic data integration enables discovery of hidden biological regularities
[…] Starting from the protein structures linked to metabolic genes in the GEM-PRO model, we annotated tertiary domains for each protein using the SCOP knowledgebase and FATCAT alignment tools. As a result of this analysis, the fraction of the protein aligning to an annotate […]
A Multi scale Computational Platform to Mechanistically Assess the Effect of Genetic Variation on Drug Responses in Human Erythrocyte Metabolism
[…] te version 4.4 was utilized for the construction of missing structures, and provides an especially useful method in modeling splice isoforms, which are specialized in the erythrocyte . In the final GEM-PRO data frame, we note where available homology models have been mapped to their respective genes. We also include additional information in the data frame that explains the type of computational […]
Analysis of Genetic Variation and Potential Applications in Genome Scale Metabolic Modeling
[…] er of studies that use GSMs to systematically explore the effects of genetic variants on phenotypes. Chang et al. () conducted a study where GSMs coupled with protein structures of metabolic enzymes (GEM-PRO) were used to interpret genetic variant data of Escherichia coli strains evolved to tolerate high temperatures (Chang et al., ). In this study, a GSM of E. coli was constrained using experimen […]
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