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Balanced biosynthesis and trigger threshold resulting in a double adder mechanism of cell size control 期刊论文
COMMUNICATIONS IN THEORETICAL PHYSICS, 2021, 卷号: 73, 期号: 8, 页码: 85601
Authors:  Li, Leilei
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ESCHERICHIA-COLI  CHROMOSOME-REPLICATION  PROTEIN-DEGRADATION  GROWTH  HOMEOSTASIS  DIVISION  INITIATION  CYCLE  ADAPTATION  BACTERIA  
A Decrease in Transcription Capacity Limits Growth Rate upon Translation Inhibition 期刊论文
MSYSTEMS, 2020, 卷号: 5, 期号: 5, 页码: e00575-20
Authors:  Zhang, Qing;  Brambilla, Elisa;  Li, Rui;  Shi, Hualin;  Lagomarsino, Marco Cosentino;  Sclavi, Bianca
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RNA-POLYMERASE AVAILABILITY  ESCHERICHIA-COLI  RIBOSOMAL-RNA  GENE-EXPRESSION  PPGPP  EFFICIENCY  PROMOTERS  SUBUNITS  (P)PPGPP  REVEALS  
Cell Size Is Coordinated with Cell Cycle by Regulating Initiator Protein DnaA in E. coli 期刊论文
BIOPHYSICAL JOURNAL, 2020, 卷号: 119, 期号: 12, 页码: 2537-2557
Authors:  Zhang, Qing;  Zhang, Zhichao;  Shi, Hualin
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RATE-DEPENDENT CONTROL  GROWTH-RATE CONTROL  ESCHERICHIA-COLI  REPLICATION INITIATION  CHROMOSOME-REPLICATION  STRINGENT RESPONSE  BACILLUS-SUBTILIS  GENE-EXPRESSION  ATP HYDROLYSIS  DIVISION CYCLE  
Quantitative Connection between Cell Size and Growth Rate by Phospholipid Metabolism 期刊论文
CELLS, 2020, 卷号: 9, 期号: 2, 页码: 391
Authors:  Zhang, Zhichao;  Zhang, Qing;  Guan, Shaohua;  Shi, Hualin
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HAEMOPHILUS-INFLUENZAE RD  GRAM-NEGATIVE BACTERIA  ESCHERICHIA-COLI  OUTER-MEMBRANE  FATTY-ACID  GUANOSINE TETRAPHOSPHATE  CARDIOLIPIN SYNTHASE  ADAPTIVE EVOLUTION  ENVELOPE  MODEL  
Optimal Allocation of Bacterial Protein Resources under Nonlethal Protein Maturation Stress 期刊论文
BIOPHYSICAL JOURNAL, 2018, 卷号: 115, 期号: 5, 页码: 896-910
Authors:  Zhang, Q;  Li, R;  Li, JB;  Shi, HL
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ESCHERICHIA-COLI PROTEOME  SIGMA-FACTOR COMPETITION  GENE-EXPRESSION  RNA-POLYMERASE  OXIDATIVE STRESS  GROWTH-INHIBITION  CELL-GROWTH  TRANSLATION  RATES  OVERPRODUCTION  
The equation of motion for the trajectory of a circling particle with an overdamped circle center 期刊论文
PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, 2012, 卷号: 391, 期号: 11, 页码: 3054-3060
Authors:  Si, TY;  Si, TY (reprint author), Chinese Acad Sci, Inst Theoret Phys, Beijing 100190, Peoples R China.
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Escherichia-coli  Sperm Cells  Chemotaxis  Bacteria  Motility  
Quantifying the sequence-function relation in gene silencing by bacterial small RNAs 期刊论文
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2011, 卷号: 108, 期号: 30, 页码: 12473-12478
Authors:  Hao, Y;  Zhang, ZJ;  Erickson, DW;  Huang, M;  Huang, YW;  Li, JB;  Hwa, T;  Shi, HL;  Shi, HL (reprint author), Univ Calif San Diego, Div Biol Sci, Mol Biol Sect, La Jolla, CA 92093 USA.
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Small Regulatory Rnas  Small Noncoding Rnas  Messenger-rna  Escherichia-coli  Binding-sites  Soluble-rna  Translational Initiation  Vibrio-cholerae  Outer-membrane  Hfq-binding  
Theoretical Analysis of Catalytic-sRNA-Mediated Gene Silencing 期刊论文
JOURNAL OF MOLECULAR BIOLOGY, 2011, 卷号: 406, 期号: 1, 页码: 195-204
Authors:  Hao, Y;  Xu, LF;  Shi, HL;  Shi, HL (reprint author), Chinese Acad Sci, Inst Theoret Phys, Beijing 100190, Peoples R China.
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Transcriptional Regulation  Escherichia-coli  Regulatory Rnas  Bacteria  Expression  Noise  Consequences  Numbers  Stress  System  
Computational Cellular Dynamics Based on the Chemical Master Equation: A Challenge for Understanding Complexity 期刊论文
JOURNAL OF COMPUTER SCIENCE AND TECHNOLOGY, 2010, 卷号: 25, 期号: 1, 页码: 154-168
Authors:  Liang, Jie;  Qian, Hong;  Liang, J , Univ Illinois, Dept Bioengn, Chicago, IL 60607 USA
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Monte-carlo Method  Escherichia-coli  Folding Kinetics  Reaction Systems  Lattice Model  Steady-state  Protein  Fluctuations  Thermodynamics  Simulation  
Systematic Kinetics Study of FoF1-ATPase: Analytic Results and Comparison with Experiments 期刊论文
JOURNAL OF PHYSICAL CHEMISTRY B, 2008, 卷号: 112, 期号: 42, 页码: 13453-13459
Authors:  Shu, Yao-Gen;  Lai, Pik-Yin;  Shu, YG , Natl Cent Univ, Grad Inst Biophys, Dept Phys, Chungli 320, Taiwan
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3 Catalytic Sites  Bovine Heart-mitochondria  Atp Synthase Catalysis  Escherichia-coli  Substrate-binding  Molecular Motors  Proton-transport  Oxidative-phosphorylation  Energy Transduction  F1f0-atp Synthase