Efficient search, mapping, and optimization of multi-protein genetic systems in diverse bacteria (Q35192734)

24952589

7 August 2017

title

Efficient search, mapping, and optimization of multi-protein genetic systems in diverse bacteria (English)

1 reference

7 August 2017

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24952589%20AND%20SRC:MED&resulttype=core&format=json

9 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24952589%20AND%20SRC:MED&resulttype=core&format=json

9 June 2020

Iman Farasat

1 reference

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9 June 2020

Jason Collens

series ordinal

1 reference

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9 June 2020

Michael Easterbrook

series ordinal

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24952589%20AND%20SRC:MED&resulttype=core&format=json

9 June 2020

Matthew Guido

series ordinal

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24952589%20AND%20SRC:MED&resulttype=core&format=json

9 June 2020

language of work or name

1 reference

21 June 2014

1 reference

24952589

Molecular Systems Biology

7 August 2017

published in

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9 June 2020

volume

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9 June 2020

page(s)

731

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24952589%20AND%20SRC:MED&resulttype=core&format=json

One step DNA assembly for combinatorial metabolic engineering.

9 June 2020

cites work

1 reference

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13 July 2018

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13 July 2018

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Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites.

13 July 2018

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13 July 2018

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Genomically recoded organisms expand biological functions

13 July 2018

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Coordinated effects of sequence variation on DNA binding, chromatin structure, and transcription

13 July 2018

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Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction

13 July 2018

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Rapid construction of insulated genetic circuits via synthetic sequence-guided isothermal assembly

13 July 2018

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13 July 2018

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Expression-level optimization of a multi-enzyme pathway in the absence of a high-throughput assay

13 July 2018

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Double nicking by RNA-guided CRISPR Cas9 for enhanced genome editing specificity

13 July 2018

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Precise and heritable genome editing in evolutionarily diverse nematodes using TALENs and CRISPR/Cas9 to engineer insertions and deletions

13 July 2018

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Composability of regulatory sequences controlling transcription and translation in Escherichia coli

13 July 2018

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A new frontier in synthetic biology: automated design of small RNA devices in bacteria.

13 July 2018

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Molecular crowding shapes gene expression in synthetic cellular nanosystems

13 July 2018

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Rapid, modular and reliable construction of complex mammalian gene circuits

13 July 2018

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A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes

13 July 2018

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Highly efficient targeted mutagenesis of Drosophila with the CRISPR/Cas9 system.

13 July 2018

1 reference

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Characterization of 582 natural and synthetic terminators and quantification of their design constraints

13 July 2018

1 reference

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Optimality in evolution: new insights from synthetic biology.

13 July 2018

1 reference

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A solid-phase platform for combinatorial and scarless multipart gene assembly.

13 July 2018

1 reference

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Genome editing with RNA-guided Cas9 nuclease in zebrafish embryos

13 July 2018

1 reference

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Spanning high-dimensional expression space using ribosome-binding site combinatorics

13 July 2018

1 reference

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Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Genome-scale engineering for systems and synthetic biology

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

RNA-guided human genome engineering via Cas9

13 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Multiplex genome engineering using CRISPR/Cas systems

13 July 2018

1 reference

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Tuning promoter strength through RNA polymerase binding site design in Escherichia coli

13 July 2018

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Controlled biosynthesis of odd-chain fuels and chemicals via engineered modular metabolic pathways

13 July 2018

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Genetic programs constructed from layered logic gates in single cells

13 July 2018

1 reference

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Rational, combinatorial, and genomic approaches for engineering L-tyrosine production in Escherichia coli

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Sequence dependence of transcription factor-mediated DNA looping

13 July 2018

1 reference

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Customized optimization of metabolic pathways by combinatorial transcriptional engineering

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Strategy for directing combinatorial genome engineering in Escherichia coli.

13 July 2018

1 reference

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The future of metabolic engineering and synthetic biology: towards a systematic practice

13 July 2018

1 reference

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Genome-scale promoter engineering by coselection MAGE

13 July 2018

1 reference

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Capturing the essence of folding and functions of biomolecules using coarse-grained models

13 July 2018

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Optimal regulatory strategies for metabolic pathways in Escherichia coli depending on protein costs.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Quantifying the sequence-function relation in gene silencing by bacterial small RNAs

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Metabolic engineering of Escherichia coli for direct production of 1,4-butanediol

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Informing Biological Design by Integration of Systems and Synthetic Biology

13 July 2018

1 reference

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Efficient modeling, simulation and coarse-graining of biological complexity with NFsim

13 July 2018

1 reference

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A TALE nuclease architecture for efficient genome editing

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Designing and engineering evolutionary robust genetic circuits.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Genome editing with engineered zinc finger nucleases

13 July 2018

1 reference

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Sequence dependence of DNA bending rigidity

13 July 2018

1 reference

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Sloppy models, parameter uncertainty, and the role of experimental design

13 July 2018

1 reference

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Tradeoff between enzyme and metabolite efficiency maintains metabolic homeostasis upon perturbations in enzyme capacity.

13 July 2018

1 reference

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Simplified models of biological networks

13 July 2018

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Predicting strength and function for promoters of the Escherichia coli alternative sigma factor, sigmaE.

13 July 2018

1 reference

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Automated design of synthetic ribosome binding sites to control protein expression

13 July 2018

1 reference

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Engineering the Salmonella type III secretion system to export spider silk monomers

13 July 2018

1 reference

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Programming cells by multiplex genome engineering and accelerated evolution

13 July 2018

1 reference

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Golden gate shuffling: a one-pot DNA shuffling method based on type IIs restriction enzymes

13 July 2018

1 reference

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Enzymatic assembly of DNA molecules up to several hundred kilobases

13 July 2018

1 reference

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Recombineering: a homologous recombination-based method of genetic engineering

13 July 2018

1 reference

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Ensemble modeling of metabolic networks

13 July 2018

1 reference

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Exact model reduction of combinatorial reaction networks

13 July 2018

1 reference

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13 July 2018

The Vienna RNA websuite

1 reference

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Engineering Pseudomonas fluorescens for biodegradation of 2,4-dinitrotoluene

13 July 2018

1 reference

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Encoded errors: mutations and rearrangements mediated by misalignment at repetitive DNA sequences

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

The poly(A) binding protein Hfq protects RNA from RNase E and exoribonucleolytic degradation

13 July 2018

1 reference

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Computational systems biology

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Translational coupling during expression of the tryptophan operon of Escherichia coli

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Metabolic control analysis: a survey of its theoretical and experimental development

13 July 2018

1 reference

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Engineering dynamic pathway regulation using stress-response promoters.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Randomized BioBrick assembly: a novel DNA assembly method for randomizing and optimizing genetic circuits and metabolic pathways

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Combinational expression of sorbose/sorbosone dehydrogenases and cofactor pyrroloquinoline quinone increases 2-keto-L-gulonic acid production in Ketogulonigenium vulgare-Bacillus cereus consortium

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Engineering central metabolic modules of Escherichia coli for improving β-carotene production.

27 September 2018

1 reference

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Precise and reliable gene expression via standard transcription and translation initiation elements

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Modular optimization of multi-gene pathways for fatty acids production in E. coli.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Design of a dynamic sensor-regulator system for production of chemicals and fuels derived from fatty acids.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

The Ribosome Binding Site Calculator

27 September 2018

1 reference

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Parallel on-chip gene synthesis and application to optimization of protein expression

27 September 2018

1 reference

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Ensemble modeling for strain development of L-lysine-producing Escherichia coli

27 September 2018

1 reference

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Characterization of lycopene-overproducing E. coli strains in high cell density fermentations

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Ectopic RNase E sites promote bypass of 5'-end-dependent mRNA decay in Escherichia coli.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Maneuvering in the complex path from genotype to phenotype

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Genetic uncoupling of the dsRNA-binding and RNA cleavage activities of the Escherichia coli endoribonuclease RNase III--the effect of dsRNA binding on gene expression

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

From zero to hero—Design-based systems metabolic engineering of Corynebacterium glutamicum for l-lysine production

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4265053

Lessons from metabolic engineering for functional genomics and drug discovery

15 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24952589

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Metabolic channelling and control of the flux

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24952589

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Processing of mRNA by ribonuclease III regulates expression of gene 1.2 of bacteriophage T7

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24952589

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.15252/MSB.20134955

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24952589%20AND%20SRC:MED&resulttype=core&format=json

9 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24952589%20AND%20SRC:MED&resulttype=core&format=json

9 June 2020

24952589

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24952589%20AND%20SRC:MED&resulttype=core&format=json