{"doi":"10.1039/b912865d","title":"Genome-scale modeling and\n                    <i>in silico</i>\n                    analysis of mouse cell metabolic network","abstract":"<jats:title>Abstract</jats:title>\n                  <jats:p>Genome-scale metabolic modeling has been successfully applied to a multitude of microbial systems, thus improving our understanding of their cellular metabolisms. Nevertheless, only a handful of works have been done for describing mammalian cells, particularly mouse, which is one of the important model organisms, providing various opportunities for both biomedical research and biotechnological applications. Presented herein is a genome-scale mouse metabolic model that was systematically reconstructed by improving and expanding the previous generic model based on integrated biochemical and genomic data of Mus musculus. The key features of the updated model include additional information on gene–protein-reaction association, and improved network connectivity through lipid, amino acid, carbohydrate and nucleotide biosynthetic pathways. After examining the model predictability both quantitatively and qualitatively using constraints-based flux analysis, the structural and functional characteristics of the mouse metabolism were investigated by evaluating network statistics/centrality, gene/metabolite essentiality and their correlation. The results revealed that overall mouse metabolic network is topologically dominated by highly connected and bridging metabolites, and functionally by lipid metabolism that most of essential genes and metabolites are from. The current in silico mouse model can be exploited for understanding and characterizing the cellular physiology, identifying potential cell engineering targets for the enhanced production of recombinant proteins and developing diseased state models for drug targeting.</jats:p>\n                  <jats:p/>","journal":"Molecular BioSystems","year":2009,"id":637290,"datarank":0.6535063240034389,"base_score":4.356708826689592,"endowment":4.356708826689592,"self_citation_contribution":0.6535063240034389,"citation_network_contribution":0.0,"self_endowment_contribution":0.6535063240034389,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":77,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1654586,"name":"Iftekhar A Karimi","orcid":null,"position":1,"is_corresponding":false},{"id":1654588,"name":"Ghi-Hoon Ghim","orcid":null,"position":2,"is_corresponding":false},{"id":1654590,"name":"Dong-Yup Lee","orcid":null,"position":3,"is_corresponding":false},{"id":1654582,"name":"Suresh Selvarasu","orcid":null,"position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Genome-scale modeling and\n                    <i>in silico</i>\n                    analysis of mouse cell metabolic network","abstract":"<jats:title>Abstract</jats:title>\n                  <jats:p>Genome-scale metabolic modeling has been successfully applied to a multitude of microbial systems, thus improving our understanding of their cellular metabolisms. Nevertheless, only a handful of works have been done for describing mammalian cells, particularly mouse, which is one of the important model organisms, providing various opportunities for both biomedical research and biotechnological applications. Presented herein is a genome-scale mouse metabolic model that was systematically reconstructed by improving and expanding the previous generic model based on integrated biochemical and genomic data of Mus musculus. The key features of the updated model include additional information on gene–protein-reaction association, and improved network connectivity through lipid, amino acid, carbohydrate and nucleotide biosynthetic pathways. After examining the model predictability both quantitatively and qualitatively using constraints-based flux analysis, the structural and functional characteristics of the mouse metabolism were investigated by evaluating network statistics/centrality, gene/metabolite essentiality and their correlation. The results revealed that overall mouse metabolic network is topologically dominated by highly connected and bridging metabolites, and functionally by lipid metabolism that most of essential genes and metabolites are from. The current in silico mouse model can be exploited for understanding and characterizing the cellular physiology, identifying potential cell engineering targets for the enhanced production of recombinant proteins and developing diseased state models for drug targeting.</jats:p>\n                  <jats:p/>","is_dataset_classified":null,"base_score":4.356708826689592,"endowment":4.356708826689592,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"20024077","pmcid":null,"openalex_id":"https://openalex.org/W2171305205","authors":[],"funders":[],"total_grants":0,"fwci":2.7709,"citation_percentile":0.90960376,"influential_citations":0,"citation_trend":[{"year":2012,"count":8},{"year":2013,"count":7},{"year":2014,"count":10},{"year":2015,"count":9},{"year":2016,"count":5},{"year":2017,"count":7},{"year":2018,"count":4},{"year":2019,"count":2},{"year":2020,"count":5},{"year":2021,"count":4},{"year":2023,"count":1},{"year":2025,"count":1}],"oa_status":"closed","license":"https://academic.oup.com/pages/standard-publication-reuse-rights","oa_locations":[{"url":"https://academic.oup.com/molecular-omics/article-pdf/6/1/152/66167778/b912865d.pdf","host_type":"publisher"},{"url":"https://doi.org/10.1039/b912865d","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/20024077","host_type":"repository"},{"url":"http://scholarbank.nus.edu.sg/handle/10635/63975","host_type":"repository"}],"fields_of_study":["Microbial Metabolic Engineering and Bioproduction","Bioinformatics and Genomic Networks","Gene Regulatory Network Analysis","Animals","Computational Biology","Genome","Glycosylation","Lipid Metabolism","Metabolic Networks and Pathways","Mice","Models, Biological"],"mesh_terms":["Animals","Glycosylation","Models, Biological","Genome","Computational Biology","Lipid Metabolism","Mice","Metabolic Networks and Pathways"],"keywords":["Flux balance analysis","In silico","Computational biology","Metabolic network","Biology","Systems biology","Model organism","Genome","Metabolic engineering","Cell metabolism","Gene","Metabolomics","Cellular metabolism","Gene regulatory network","Bioinformatics","Genetics","Metabolism","Cell","Biochemistry","Gene expression"],"sdg_mappings":[{"sdg_number":0,"sdg_label":"Industry, innovation and infrastructure"}],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[],"source":"live","citation_network_status":"fetched"},"created_at":"2026-08-06T18:40:50.761611Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}