ReviewCurrent opinion in microbiology2018
Modeling the multi-scale mechanisms of macromolecular resource allocation.
Review in Current opinion in microbiology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
24 citing papers in PubMed.
- A mismatch between slow protein synthesis and fast environmental fluctuations determines tradeoffs in bacterial proteome allocation strategies.bioRxiv : the preprint server for biology · 2025Article
- Comprehensive evaluation of the capacities of microbial cell factories.Nature communications · 2025Article
- DeepEnzyme: a robust deep learning model for improved enzyme turnover number prediction by utilizing features of protein 3D-structures.Briefings in bioinformatics · 2024Article
- Flux balance analysis-based metabolic modeling of microbial secondary metabolism: Current status and outlook.PLoS computational biology · 2023Review
- Functional decomposition of metabolism allows a system-level quantification of fluxes and protein allocation towards specific metabolic functions.Nature communications · 2023Article
- Turnover number predictions for kinetically uncharacterized enzymes using machine and deep learning.Nature communications · 2023Article
- Toward mechanistic modeling and rational engineering of plant respiration.Plant physiology · 2023Article
- Growth-rate-dependent and nutrient-specific gene expression resource allocation in fission yeast.Life science alliance · 2022Article
- Genome-scale modeling of yeast metabolism: retrospectives and perspectives.FEMS yeast research · 2022Review
- Deficiency of GntR Family Regulator MSMEG_5174 PromotesFrontiers in microbiology · 2022Article
- Understanding and mathematical modelling of cellular resource allocation in microorganisms: a comparative synthesis.BMC bioinformatics · 2021Review
- Computation of condition-dependent proteome allocation reveals variability in the macro and micro nutrient requirements for growth.PLoS computational biology · 2021Article
- Genome Scale-Differential Flux Analysis reveals deregulation of lung cell metabolism on SARS-CoV-2 infection.PLoS computational biology · 2021Article
- Translational landscape and protein biogenesis demands of the early secretory pathway in Komagataella phaffii.Microbial cell factories · 2021Article
- Kinetic profiling of metabolic specialists demonstrates stability and consistency of in vivo enzyme turnover numbers.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Review
- Metabolic Modelling as a Framework for Metabolomics Data Integration and Analysis.Metabolites · 2020Review
- Computer-Aided Strategies for Determining the Amino Acid Composition of Medium for Chinese Hamster Ovary Cell-Based Biomanufacturing Platforms.International journal of molecular sciences · 2019Review
- A consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism.Nature communications · 2019Article
- Cellular responses to reactive oxygen species are predicted from molecular mechanisms.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
As microbes face changing environments, they dynamically allocate macromolecular resources to produce a particular phenotypic state. Broad 'omics' data sets have revealed several interesting phenomena regarding how the proteome is allocated under differing conditions, but the functional consequences of these states and how they are achieved remain open questions. Various types of multi-scale mathematical models have been used to elucidate the genetic basis for systems-level adaptations. In this review, we outline several different strategies by which microbes accomplish resource allocation and detail how mathematical models have aided in our understanding of these processes. Ultimately, such modeling efforts have helped elucidate the principles of proteome allocation and hold promise for further discovery.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.