(Q33302080)

25 July 2017

title

Separate base usages of genes located on the leading and lagging strands in Chlamydia muridarum revealed by the Z curve method (English)

1 reference

25 July 2017

Chlamydia muridarum

1 reference

Feng-Biao Guo

1

0 references

author name string

Xiu-Juan Yu

series ordinal

2

1 reference

25 July 2017

language of work or name

English

0 references

publication date

10 October 2007

1 reference

25 July 2017

1 reference

25 July 2017

volume

8

1 reference

25 July 2017

page(s)

366

1 reference

ZCURVE_V: a new self-training system for recognizing protein-coding genes in viral and phage genomes.

25 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Prokaryote phylogeny without sequence alignment: from avoidance signature to composition distance

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

ZCURVE: a new system for recognizing protein-coding genes in bacterial and archaeal genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Use and misuse of correspondence analysis in codon usage studies

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Asymmetric directional mutation pressures in bacteria

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Single replication origin of the archaeon Methanosarcina mazei revealed by the Z curve method

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Is there a role for replication fork asymmetry in the distribution of genes in bacterial genomes?

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Genome trees and the tree of life

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Ongoing evolution of strand composition in bacterial genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Codon usage in Chlamydia trachomatis is the result of strand-specific mutational biases and a complex pattern of selective forces

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Genome sequences of Chlamydia trachomatis MoPn and Chlamydia pneumoniae AR39.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Asymmetric substitution patterns: a review of possible underlying mutational or selective mechanisms

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Proteome composition and codon usage in spirochaetes: species-specific and DNA strand-specific mutational biases

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Base composition skews, replication orientation, and gene orientation in 12 prokaryote genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Replicational and transcriptional selection on codon usage in Borrelia burgdorferi

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Complete Genome Sequence of Treponema pallidum, the Syphilis Spirochete

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Strand compositional asymmetry in bacterial and large viral genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

The complete genome sequence of Escherichia coli K-12

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

A symmetrical theory of DNA sequences and its applications

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Transcription-induced mutations: increase in C to T mutations in the nontranscribed strand during transcription in Escherichia coli

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Asymmetric substitution patterns in the two DNA strands of bacteria

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

A graphic approach to analyzing codon usage in 1562 Escherichia coli protein coding sequences

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Nomenclature for incompletely specified bases in nucleic acid sequences: recommendations 1984.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Translation framing code and frame-monitoring mechanism as suggested by the analysis of mRNA and 16 S rRNA nucleotide sequences.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

A sensitive genetic assay for the detection of cytosine deamination: determination of rate constants and the activation energy

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Prokaryotic DNA replication

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Gene recognition based on nucleotide distribution of ORFs in a hyper-thermophilic crenarchaeon, Aeropyrum pernix K1.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Analysis of nucleotide distribution in the genome of Streptomyces coelicolor A3(2) using the Z curve method.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Bacterial DNA strand compositional asymmetry.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Skewed oligomers and origins of replication.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2089121

Origin of replication of Mycoplasma genitalium

31 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17925038

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Universal replication biases in bacteria

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17925038

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The contributions of replication orientation, gene direction, and signal sequences to base-composition asymmetries in bacterial genomes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17925038

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2164-8-366

1 reference

Dimensions Publication ID

25 July 2017

0 references

1 reference

25 July 2017

1 reference