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References from Guided extraction of genome-scale metabolic models for the integration and analysis of omics data. Local targets link to admitted publications; unresolved targets remain external evidence.
Integration of lipidomics and metabolomics for in-depth understanding of cellular mechanism and disease progression
10.1016/j.jgg.2019.11.009 · 2020 · External reference
Multi-omics analysis of diabetic heart disease in the db/db model reveals potential targets for treatment by a longevity-associated gene
10.3390/cells9051283 · 2020 · External reference
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10.1111/all.13833 · External reference
Recombinant glargine insulin production process using escherichia coli
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A novel and more efficient biosynthesis approach for human insulin production in escherichia coli (e. coli)
10.1186/s13568-020-00969-w · 2020 · External reference
10.1016/j.drudis.2015.11.014
10.1016/j.drudis.2015.11.014 · External reference
Genome-scale metabolic reconstruction of actinomycetes for antibiotics production
10.1002/biot.201800377 · 2019 · External reference
Unresolved reference
External reference
10.3389/fgene.2019.00051
10.3389/fgene.2019.00051 · External reference
Modeling parkinson’s disease in drosophila: what have we learned for dominant traits?
10.3389/fneur.2018.00228 · 2018 · External reference
10.1242/dmm.023762
10.1242/dmm.023762 · External reference
10.1186/s13059-019-1730-3
10.1186/s13059-019-1730-3 · External reference
Common transcriptional program of liver fibrosis in mouse genetic models and humans
10.3390/ijms22020832 · 2021 · External reference
10.1016/j.cell.2020.12.006
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Integration of gene expression data identifies key genes and pathways in colorectal cancer
10.1007/s12032-020-01448-9 · 2021 · External reference
10.1016/j.cels.2017.01.010
10.1016/j.cels.2017.01.010 · External reference
10.1371/journal.pcbi.1007185
10.1371/journal.pcbi.1007185 · External reference
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10.1371/journal.pcbi.1006867 · External reference
10.1038/nrmicro1949
10.1038/nrmicro1949 · External reference
Discovering missing reactions of metabolic networks by using gene co-expression data
2017 · External reference
10.1093/bioinformatics/btu321
10.1093/bioinformatics/btu321 · External reference
Gap detection for genome-scale constraint-based models
2012 · External reference
Reconstruction and validation of a genome-scale metabolic model of streptococcus oralis (iCJ415), a human commensal and opportunistic pathogen
10.3389/fgene.2020.00116 · 2020 · External reference
In silico co-factor balance estimation using constraint-based modelling informs metabolic engineering in escherichia coli
10.1371/journal.pcbi.1008125 · 2020 · External reference
Unresolved reference
External reference
10.1038/nbt.1614
10.1038/nbt.1614 · External reference
10.3390/metabo10080303
10.3390/metabo10080303 · External reference
Improving the accuracy of flux balance analysis through the implementation of carbon availability constraints for intracellular reactions
10.1002/bit.27025 · 2019 · External reference
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10.1371/journal.pcbi.1006971 · External reference
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10.1371/journal.pone.0171744 · External reference
10.1007/s10479-018-2865-4
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10.1038/msb.2010.47
10.1038/msb.2010.47 · External reference
Computationally efficient flux variability analysis
10.1186/1471-2105-11-489 · 2010 · External reference
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10.1038/nrmicro2737 · External reference
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Flux sampling is a powerful tool to study metabolism under changing environmental conditions
10.1038/s41540-019-0109-0 · 2019 · External reference
Generalized framework for context-specific metabolic model extraction methods
2014 · External reference
10.1371/journal.pcbi.1000082
10.1371/journal.pcbi.1000082 · External reference
10.1016/j.csbj.2014.08.009 · Admitted local publication
Drought stress responses in context-specific genome-scale metabolic models of arabidopsis thaliana
10.3390/metabo10040159 · 2020 · External reference
10.1093/bioinformatics/btq602
10.1093/bioinformatics/btq602 · External reference
Fast reconstruction of compact context-specific metabolic network models
10.1371/journal.pcbi.1003424 · 2014 · External reference
10.1371/journal.pcbi.1002518
10.1371/journal.pcbi.1002518 · External reference
10.1002/msb.145122
10.1002/msb.145122 · External reference
Lessons from hepatocyte-specific Cyp51 knockout mice: impaired cholesterol synthesis leads to oval cell-driven liver injury
2015 · External reference
imm1865: a new reconstruction of mouse genome-scale metabolic model
2020 · External reference
Jaccard/Tanimoto similarity test and estimation methods for biological presence-absence data
10.1186/s12859-019-3118-5 · 2019 · External reference
Visualizing data using t-SNE
2008 · External reference
A comparison of monte carlo sampling methods for metabolic network models
10.1371/journal.pone.0235393 · 2020 · External reference
10.1038/nprot.2007.99
10.1038/nprot.2007.99 · External reference
Creation and analysis of biochemical constraint-based models using the cobra toolbox v. 3.0
10.1038/s41596-018-0098-2 · 2019 · External reference
10.1371/journal.pcbi.1006541
10.1371/journal.pcbi.1006541 · External reference
Unresolved reference
External reference
Disrupting hepatocyte Cyp51 from cholesterol synthesis leads to progressive liver injury in the developing mouse and decreases rorc signalling
2017 · External reference
10.3390/cancers12113302
10.3390/cancers12113302 · External reference
10.1007/978-3-030-39684-8_1
10.1007/978-3-030-39684-8_1 · External reference
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10.1371/journal.pcbi.1004808 · External reference
Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE
10.1186/1752-0509-6-153 · 2012 · External reference
Computational reconstruction of tissue-specific metabolic models: application to human liver metabolism
10.1038/msb.2010.56 · 2010 · External reference
Improving lipid mapping in genome scale metabolic networks using ontologies
10.1007/s11306-020-01663-5 · 2020 · External reference
