(Q33261409)

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CGAT: a comparative genome analysis tool for visualizing alignments in the analysis of complex evolutionary changes between closely related genomes

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scholarly article

1 reference

Europe PubMed Central

24 July 2017

1 reference

Europe PubMed Central

CGAT: a comparative genome analysis tool for visualizing alignments in the analysis of complex evolutionary changes between closely related genomes (English)

1 reference

Europe PubMed Central

24 July 2017

1 reference

based on heuristic

inferred from title

evolutionary change

1 reference

based on heuristic

inferred from title

1

object named as

Ikuo Uchiyama

1 reference

Europe PubMed Central

24 July 2017

author name string

Toshio Higuchi

2

1 reference

Europe PubMed Central

24 July 2017

Ichizo Kobayashi

3

1 reference

Europe PubMed Central

24 July 2017

publication date

24 October 2006

1 reference

Europe PubMed Central

24 July 2017

BMC Bioinformatics

1 reference

Europe PubMed Central

24 July 2017

7

1 reference

Europe PubMed Central

24 July 2017

472

1 reference

Europe PubMed Central

24 July 2017

copyright license

Creative Commons Attribution 2.0 Generic

24 October 2006

1 reference

April 2022 Public Data File from Crossref

copyright status

1 reference

April 2022 Public Data File from Crossref

describes a project that uses

object named as

MUMmer

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

https://scigraph.springernature.com/pub.10.1186/1471-2105-7-472

0 references

ISfinder: the reference centre for bacterial insertion sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Discovery of a novel restriction endonuclease by genome comparison and application of a wheat-germ-based cell-free translation assay: PabI (5'-GTA/C) from the hyperthermophilic archaeon Pyrococcus abyssi

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

ACT: the Artemis Comparison Tool

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

GATA: a graphic alignment tool for comparative sequence analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Thermoadaptation trait revealed by the genome sequence of thermophilic Geobacillus kaustophilus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

VISTA: computational tools for comparative genomics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Genomic islands in pathogenic and environmental microorganisms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Benchmarking tools for the alignment of functional noncoding DNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Fast and sensitive multiple alignment of large genomic sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Tracing the evolution of gene loss in obligate bacterial symbionts

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Glocal alignment: finding rearrangements during alignment

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Human-mouse alignments with BLASTZ

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

AVID: A global alignment program

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

MBGD: microbial genome database for comparative analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Fast algorithms for large-scale genome alignment and comparison

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

PatternHunter: faster and more sensitive homology search

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

BLAT—The BLAST-Like Alignment Tool

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

SSAHA: a fast search method for large DNA databases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Long-range comparison of human and mouse SCL loci: localized regions of sensitivity to restriction endonucleases correspond precisely with peaks of conserved noncoding sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Alfresco--a workbench for comparative genomic sequence analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Switching of flagellar motility in Helicobacter pylori by reversible length variation of a short homopolymeric sequence repeat in fliP, a gene encoding a basal body protein

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

A greedy algorithm for aligning DNA sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

PipMaker--a web server for aligning two genomic DNA sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Improved microbial gene identification with GLIMMER

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Comparative analysis of noncoding regions of 77 orthologous mouse and human gene pairs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Alignment of whole genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Genomic-sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Short-sequence DNA repeats in prokaryotic genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Simple sequence repeats in the Helicobacter pylori genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Gene amplification and genomic plasticity in prokaryotes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

The complete genome sequence of the gram-positive bacterium Bacillus subtilis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

The complete genome sequence of Escherichia coli K-12

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

The complete genome sequence of the gastric pathogen Helicobacter pylori

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

A general method applicable to the search for similarities in the amino acid sequence of two proteins

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Slipped-strand mispairing: a major mechanism for DNA sequence evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Improved tools for biological sequence comparison

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

Palindromic units are part of a new bacterial interspersed mosaic element (BIME).

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

An efficient algorithm for identifying matches with errors in multiple long molecular sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

21 June 2018

How genomes rearrange: genome comparison within bacteria Neisseria suggests roles for mobile elements in formation of complex genome polymorphisms.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

31 October 2018

Accurate anchoring alignment of divergent sequences.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

31 October 2018

GAME: a simple and efficient whole genome alignment method using maximal exact match filtering.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

31 October 2018

Conservation, regulation, synteny, and introns in a large-scale C. briggsae-C. elegans genomic alignment

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

31 October 2018

Codon usages in different gene classes of the Escherichia coli genome.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1643837

31 October 2018

GenomeComp: a visualization tool for microbial genome comparison

1 reference

https://pubmed.ncbi.nlm.nih.gov/17062155

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evolution of paralogous genes: Reconstruction of genome rearrangements through comparison of multiple genomes within Staphylococcus aureus

1 reference

https://pubmed.ncbi.nlm.nih.gov/17062155

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Genome comparison in silico in Neisseria suggests integration of filamentous bacteriophages by their own transposase

1 reference

https://pubmed.ncbi.nlm.nih.gov/17062155

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Comparison between Pyrococcus horikoshii and Pyrococcus abyssi genome sequences reveals linkage of restriction-modification genes with large genome polymorphisms

1 reference

https://pubmed.ncbi.nlm.nih.gov/17062155

12 December 2020

based on heuristic

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Insertion with long target duplication: a mechanism for gene mobility suggested from comparison of two related bacterial genomes

1 reference

https://pubmed.ncbi.nlm.nih.gov/17062155

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1186/1471-2105-7-472

1 reference

Europe PubMed Central

24 July 2017

DBLP publication ID

journals/bmcbi/UchiyamaHK06

1 reference

DBLP Dataset 2021-01-02

28 January 2021

Dimensions Publication ID

0 references

1 reference

Europe PubMed Central

24 July 2017

1 reference

Europe PubMed Central

24 July 2017

ResearchGate publication ID

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