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BLASTatlas specifications

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Unique identifier OMICS_13422
Name BLASTatlas
Interface Application programming interface
Restrictions to use None
Input data A file containing the genome sequence, including all annotated coding sequences (comprising protein-start, -stop and -direction) for the reference genome.
Programming languages Perl
Computer skills Advanced
Stability No
Maintained No

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Publication for BLASTatlas

BLASTatlas citations

 (6)
library_books

Comparative Genomics of a Helicobacter pylori Isolate from a Chinese Yunnan Naxi Ethnic Aborigine Suggests High Genetic Divergence and Phage Insertion

2015
PLoS One
PMCID: 4370579
PMID: 25799515
DOI: 10.1371/journal.pone.0120659

[…] high diversity were quite consistent with our previous study, from which twelve variable genomic regions were identified based on a high density genome tiling microarray technology. In a picture from BLASTATLAS, four regions with the greatest genome diversity were labeled with a brown arc line. The gene clusters from these regions mainly encoded the type IV secretion system 4, the type IV secretio […]

library_books

Comparative genome analysis reveals the molecular basis of nicotine degradation and survival capacities of Arthrobacter

2015
Sci Rep
PMCID: 4342571
PMID: 25721465
DOI: 10.1038/srep08642

[…] ses, such as an overview of genomic conserved regions, orthologous group categorization, and orthologous relationship analysis, were performed in order to identify conserved and strain-specific CDSs. BLASTatlas tool was used to compare the genomes of the seven Arthrobacter strains and to provide a quick overview of the conserved genomic regions (). The genome of TC1 was used as a reference because […]

library_books

Comparative genomic analysis and phenazine production of Pseudomonas chlororaphis, a plant growth promoting rhizobacterium

2015
Genom Data
PMCID: 4535895
PMID: 26484173
DOI: 10.1016/j.gdata.2015.01.006

[…] s syringae. P. chlororaphis may share a more recent common ancestor with P. fluorescens than with P. syringae.Conserved and specific regions in the genome can be identified through global alignments. BLASTatlas gives an overview of the whole genome homology, and the reference genome can be compared at the gene and/or protein level against many genomes . In this study, the reference genome of HT66 […]

library_books

Comparative profiling of the transcriptional response to iron restriction in six serotypes of Actinobacillus pleuropneumoniae with different virulence potential

2010
BMC Genomics
PMCID: 3091793
PMID: 21143895
DOI: 10.1186/1471-2164-11-698

[…] The program BLASTatlas http://www.cbs.dtu.dk/ws/BLASTatlas, was used for mapping and visualizing whole genome homology of expressed genes []. Using the published genome of A. pleuropneumoniae serotype 3 str. JL03 […]

library_books

Genomic taxonomy of vibrios

2009
BMC Evol Biol
PMCID: 2777879
PMID: 19860885
DOI: 10.1186/1471-2148-9-258

[…] The BlastAtlas plots were constructed as described previously [,]. The pangenome plot, and proteome matrix were constructed as described []. For building the atlas, the genomes were automatically annotate […]

library_books

The genome of the versatile nitrogen fixer Azorhizobium caulinodans ORS571

2008
BMC Genomics
PMCID: 2443382
PMID: 18522759
DOI: 10.1186/1471-2164-9-271

[…] nce data. BR participated in the design and coordination of the study, in particular the original conception, the DNA sequencing, and subsequent DNA analysis. TTB and DWU constructed and analyzed the BLASTatlas of Azorhizobium. WD'H assisted in the preparation of the Azorhizobium genomic DNA and analysis of genetic data. JDH contributed to the MetaCyc analysis. DG carried out the evolutionary anal […]


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BLASTatlas institution(s)
Center for Biological Sequence Analysis, Department of Systems Biology, The Technical University of Denmark, Lyngby, Denmark
BLASTatlas funding source(s)
The work was supported by a grant from the European Union through the EMBRACE network of Excellence, contract number LSHG-CT-2004-512092 and a grant from the Danish Center for Scientific Computing.

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