Detecting genomic islands using bioinformatics approaches (Q28279840)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20395967%20AND%20SRC:MED&resulttype=core&format=json

31 January 2020

review article

1 reference

title

Detecting genomic islands using bioinformatics approaches (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20395967%20AND%20SRC:MED&resulttype=core&format=json

31 January 2020

0 references

1

1 reference

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31 January 2020

Fiona Brinkman

series ordinal

3

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31 January 2020

author name string

William W L Hsiao

series ordinal

2

1 reference

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31 January 2020

language of work or name

English

0 references

publication date

1 May 2010

1 reference

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Nature Reviews Microbiology

31 January 2020

published in

1 reference

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31 January 2020

volume

8

1 reference

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31 January 2020

issue

5

1 reference

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31 January 2020

page(s)

373-382

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Distribution and structural variation of the she pathogenicity island in enteric bacterial pathogens

31 January 2020

cites work

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Deletions of chromosomal regions coding for fimbriae and hemolysins occur in vitro and in vivo in various extraintestinal Escherichia coli isolates

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Pathogenicity islands of virulent bacteria: structure, function and impact on microbial evolution

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Pathogenicity islands and the evolution of microbes

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Genomic islands are dynamic, ancient integrative elements in bacterial evolution.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Pathogenicity islands: a molecular toolbox for bacterial virulence

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Genomic islands in pathogenic and environmental microorganisms

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Newly introduced genomic prophage islands are critical determinants of in vivo competitiveness in the Liverpool Epidemic Strain of Pseudomonas aeruginosa

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

The association of virulence factors with genomic islands

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Common themes in the genome strategies of pathogens

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Pathogenicity island integrase cross-talk: a potential new tool for virulence modulation

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Precise excision of the large pathogenicity island, SPI7, in Salmonella enterica serovar Typhi

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Instability of pathogenicity islands in uropathogenic Escherichia coli 536.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Phase variation and microevolution at homopolymeric tracts in Bordetella pertussis

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Molecular analysis of antibiotic resistance gene clusters in vibrio cholerae O139 and O1 SXT constins.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Mauve: multiple alignment of conserved genomic sequence with rearrangements

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Codon usages in different gene classes of the Escherichia coli genome

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Detecting anomalous gene clusters and pathogenicity islands in diverse bacterial genomes

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Capturing whole-genome characteristics in short sequences using a naïve Bayesian classifier

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

A new computational method for the detection of horizontal gene transfer events

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Amelioration of bacterial genomes: rates of change and exchange

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Integration sites for genetic elements in prokaryotic tRNA and tmRNA genes: sublocation preference of integrase subfamilies

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Transfer RNA genes frequently serve as integration sites for prokaryotic genetic elements.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

IslandViewer: an integrated interface for computational identification and visualization of genomic islands

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Phage_Finder: automated identification and classification of prophage regions in complete bacterial genome sequences

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Evidence of a large novel gene pool associated with prokaryotic genomic islands

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Resolving the structural features of genomic islands: a machine learning approach

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Biased biological functions of horizontally transferred genes in prokaryotic genomes

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Evaluation of genomic island predictors using a comparative genomics approach

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

SIGI: score-based identification of genomic islands

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Codon usage tabulated from the international DNA sequence databases; its status 1999

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

What is a hidden Markov model?

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

The Pfam protein families database

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Detecting pathogenicity islands and anomalous gene clusters by iterative discriminant analysis

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Identification of compositionally distinct regions in genomes using the centroid method

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Fast algorithms for large-scale genome alignment and comparison

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

MobilomeFINDER: web-based tools for in silico and experimental discovery of bacterial genomic islands

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

A novel strategy for the identification of genomic islands by comparative analysis of the contents and contexts of tRNA sites in closely related bacteria

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Artemis: sequence visualization and annotation

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

IslandPath: aiding detection of genomic islands in prokaryotes

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Systematic determination of the mosaic structure of bacterial genomes: species backbone versus strain-specific loops

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Islander: a database of integrative islands in prokaryotic genomes, the associated integrases and their DNA site specificities

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

BRUCE: a program for the detection of transfer-messenger RNA genes in nucleotide sequences

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Towards pathogenomics: a web-based resource for pathogenicity islands

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

VFDB 2008 release: an enhanced web-based resource for comparative pathogenomics

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Use of suppression subtractive hybridization to examine the accessory genome of the Liverpool cystic fibrosis epidemic strain of Pseudomonas aeruginosa

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Fluctuations in phenotypes and genotypes within populations of Pseudomonas aeruginosa in the cystic fibrosis lung during pulmonary exacerbations.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

ACT: the Artemis Comparison Tool

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Glocal alignment: finding rearrangements during alignment

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

VISTA: computational tools for comparative genomics

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

The integrated microbial genomes (IMG) system

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Detecting laterally transferred genes: use of entropic clustering methods and genome position

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Detection of genomic islands via segmental genome heterogeneity

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Phage-mediated intergeneric transfer of toxin genes

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

The impact of prophages on bacterial chromosomes

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Prophages and bacterial genomics: what have we learned so far?

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Bacteriophages and pathogenicity: more than just providing a toxin?

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

The sigA gene which is borne on the she pathogenicity island of Shigella flexneri 2a encodes an exported cytopathic protease involved in intestinal fluid accumulation.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Genetic organization of the she pathogenicity island in Shigella flexneri 2a.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

REPuter: fast computation of maximal repeats in complete genomes

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

A Genomic Perspective on Protein Families

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNRMICRO2350

Common themes in microbial pathogenicity revisited

31 March 2020

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20395967

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Use of a novel approach, termed island probing, identifies the Shigella flexneri she pathogenicity island which encodes a homolog of the immunoglobulin A protease-like family of proteins

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20395967

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

PredictBias: a server for the identification of genomic and pathogenicity islands in prokaryotes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/20395967

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NRMICRO2350

2 references

Consolidated OpenCitations Corpus – April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20395967%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

31 January 2020

1015810960

0 references

1 reference

Consolidated OpenCitations Corpus – April 2017

2 references

Consolidated OpenCitations Corpus – April 2017