(Q34892925)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

title

Transcriptional abundance is not the single force driving the evolution of bacterial proteins (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

0 references

1 reference

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

Zujun Yang

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

Feng-Biao Guo

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

author name string

Wen Wei

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

Dan Lin

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

publication date

2 August 2013

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

published in

BMC Evolutionary Biology

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

volume

13

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

page(s)

162

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

Flagellated algae protein evolution suggests the prevalence of lineage-specific rules governing evolutionary rates of eukaryotic proteins

6 March 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Differential requirements for mRNA folding partially explain why highly expressed proteins evolve slowly

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

NCBI GEO: archive for functional genomics data sets--update

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Rapid evolution of the sequences and gene repertoires of secreted proteins in bacteria

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

DoriC 5.0: an updated database of oriC regions in both bacterial and archaeal genomes.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Protein misinteraction avoidance causes highly expressed proteins to evolve slowly

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Transcription as a source of genome instability

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Strong association between mRNA folding strength and protein abundance in S. cerevisiae

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

8 July 2018

ViennaRNA Package 2.0

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Synonymous but not the same: the causes and consequences of codon bias

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

What happens when replication and transcription complexes collide?

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

The systemic imprint of growth and its uses in ecological (meta)genomics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

General rules for optimal codon choice

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Coding-sequence determinants of gene expression in Escherichia coli

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

DEG 5.0, a database of essential genes in both prokaryotes and eukaryotes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Comparable contributions of structural-functional constraints and expression level to the rate of protein sequence evolution.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Constraints imposed by non-functional protein-protein interactions on gene expression and proteome size

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

PAML 4: phylogenetic analysis by maximum likelihood

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

DarkHorse: a method for genome-wide prediction of horizontal gene transfer

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Gene expression and protein length influence codon usage and rates of sequence evolution in Populus tremula

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Evolutionary rates and expression level in Chlamydomonas

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Functional genomic analysis of the rates of protein evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Mechanisms of transcription-replication collisions in bacteria

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Gene expression intensity shapes evolutionary rates of the proteins encoded by the vertebrate genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Analyzing and enhancing mRNA translational efficiency in an Escherichia coli in vitro expression system

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

HGT-DB: a database of putative horizontally transferred genes in prokaryotic complete genomes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Essential genes are more evolutionarily conserved than are nonessential genes in bacteria

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Evolutionary rate in the protein interaction network

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

8 July 2018

Biochemical evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Protein dispensability and rate of evolution

8 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-162

Rate of protein evolution versus fitness effect of gene deletion

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-162

Impact of extracellularity on the evolutionary rate of mammalian proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-162

Evolution of proteins and gene expression levels are coupled in Drosophila and are independently associated with mRNA abundance, protein length, and number of protein-protein interactions.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-162

Significant impact of protein dispensability on the instantaneous rate of protein evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-162

Impacts of gene essentiality, expression pattern, and gene compactness on the evolutionary rate of mammalian proteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-13-162

A single determinant dominates the rate of yeast protein evolution

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

An analysis of determinants of amino acids substitution rates in bacterial proteins

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Translational selection shapes codon usage in the GC-rich genome of Chlamydomonas reinhardtii.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Highly expressed genes in yeast evolve slowly.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Absence of translationally selected synonymous codon usage bias in Helicobacter pylori.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Genomic function (communication arising): Rate of evolution and gene dispensability

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Essential Genes Are More Evolutionarily Conserved Than Are Nonessential Genes in Bacteria

9 December 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3734234

Comparative genomics of centrality and essentiality in three eukaryotic protein-interaction networks

9 December 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23914835

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Complex Principal Component and Correlation Structure of 16 Yeast Genomic Variables

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23914835

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Assessing the determinants of evolutionary rates in the presence of noise

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23914835

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2148-13-162

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

6 March 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json

6 March 2020

PubMed publication ID

23914835

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23914835%20AND%20SRC:MED&resulttype=core&format=json