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GeneOrder: comparing the order of genes in small genomes
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| Zeitschriftentitel: | Bioinformatics |
|---|---|
| Personen und Körperschaften: | , , |
| In: | Bioinformatics, 17, 2001, 2, S. 162-166 |
| Format: | E-Article |
| Sprache: | Englisch |
| veröffentlicht: |
Oxford University Press (OUP)
|
| Schlagwörter: |
| author_facet |
Mazumder, Raja Kolaskar, Ashok Seto, Donald Mazumder, Raja Kolaskar, Ashok Seto, Donald |
|---|---|
| author |
Mazumder, Raja Kolaskar, Ashok Seto, Donald |
| spellingShingle |
Mazumder, Raja Kolaskar, Ashok Seto, Donald Bioinformatics GeneOrder: comparing the order of genes in small genomes Computational Mathematics Computational Theory and Mathematics Computer Science Applications Molecular Biology Biochemistry Statistics and Probability |
| author_sort |
mazumder, raja |
| spelling |
Mazumder, Raja Kolaskar, Ashok Seto, Donald 1367-4811 1367-4803 Oxford University Press (OUP) Computational Mathematics Computational Theory and Mathematics Computer Science Applications Molecular Biology Biochemistry Statistics and Probability http://dx.doi.org/10.1093/bioinformatics/17.2.162 <jats:title>Abstract</jats:title> <jats:p>Motivation: The recent rapid rise in the availability of whole genome DNA sequence data has led to bottlenecks in their complete analysis. Specifically, there is a need for software tools that will allow mining of gene and putative gene data at a whole genome level. These new tools will complement the current set already in use for studying specific aspects of individual genes and putative genes in detail. A key software challenge is to make them user-friendly, without losing their flexibility and capability for use in research.</jats:p> <jats:p>Results: The creation of GeneOrder—a web-based interactive, computational tool—allows researchers to compare the order of genes in two genomes. It has been tested on full genome sequence data for viruses, mitochondria and chloroplasts that were obtained from the NCBI GenBank database. It is accessible at http://www.bif.atcc.org/GENEOrder/index.html. GeneOrder prepares the comparison in table form, listing the order of similar genes. Hyperlinks are provided from this output; these lead to the ‘Protein Coding Regions’ in the NCBI database.</jats:p> <jats:p>* To whom correspondence should be addressed.</jats:p> GeneOrder: comparing the order of genes in small genomes Bioinformatics |
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10.1093/bioinformatics/17.2.162 |
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| title |
GeneOrder: comparing the order of genes in small genomes |
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GeneOrder: comparing the order of genes in small genomes |
| title_full |
GeneOrder: comparing the order of genes in small genomes |
| title_fullStr |
GeneOrder: comparing the order of genes in small genomes |
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GeneOrder: comparing the order of genes in small genomes |
| title_short |
GeneOrder: comparing the order of genes in small genomes |
| title_sort |
geneorder: comparing the order of genes in small genomes |
| topic |
Computational Mathematics Computational Theory and Mathematics Computer Science Applications Molecular Biology Biochemistry Statistics and Probability |
| url |
http://dx.doi.org/10.1093/bioinformatics/17.2.162 |
| publishDate |
2001 |
| physical |
162-166 |
| description |
<jats:title>Abstract</jats:title>
<jats:p>Motivation: The recent rapid rise in the availability of whole genome DNA sequence data has led to bottlenecks in their complete analysis. Specifically, there is a need for software tools that will allow mining of gene and putative gene data at a whole genome level. These new tools will complement the current set already in use for studying specific aspects of individual genes and putative genes in detail. A key software challenge is to make them user-friendly, without losing their flexibility and capability for use in research.</jats:p>
<jats:p>Results: The creation of GeneOrder—a web-based interactive, computational tool—allows researchers to compare the order of genes in two genomes. It has been tested on full genome sequence data for viruses, mitochondria and chloroplasts that were obtained from the NCBI GenBank database. It is accessible at http://www.bif.atcc.org/GENEOrder/index.html. GeneOrder prepares the comparison in table form, listing the order of similar genes. Hyperlinks are provided from this output; these lead to the ‘Protein Coding Regions’ in the NCBI database.</jats:p>
<jats:p>* To whom correspondence should be addressed.</jats:p> |
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| author | Mazumder, Raja, Kolaskar, Ashok, Seto, Donald |
| author_facet | Mazumder, Raja, Kolaskar, Ashok, Seto, Donald, Mazumder, Raja, Kolaskar, Ashok, Seto, Donald |
| author_sort | mazumder, raja |
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| description | <jats:title>Abstract</jats:title> <jats:p>Motivation: The recent rapid rise in the availability of whole genome DNA sequence data has led to bottlenecks in their complete analysis. Specifically, there is a need for software tools that will allow mining of gene and putative gene data at a whole genome level. These new tools will complement the current set already in use for studying specific aspects of individual genes and putative genes in detail. A key software challenge is to make them user-friendly, without losing their flexibility and capability for use in research.</jats:p> <jats:p>Results: The creation of GeneOrder—a web-based interactive, computational tool—allows researchers to compare the order of genes in two genomes. It has been tested on full genome sequence data for viruses, mitochondria and chloroplasts that were obtained from the NCBI GenBank database. It is accessible at http://www.bif.atcc.org/GENEOrder/index.html. GeneOrder prepares the comparison in table form, listing the order of similar genes. Hyperlinks are provided from this output; these lead to the ‘Protein Coding Regions’ in the NCBI database.</jats:p> <jats:p>* To whom correspondence should be addressed.</jats:p> |
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| spelling | Mazumder, Raja Kolaskar, Ashok Seto, Donald 1367-4811 1367-4803 Oxford University Press (OUP) Computational Mathematics Computational Theory and Mathematics Computer Science Applications Molecular Biology Biochemistry Statistics and Probability http://dx.doi.org/10.1093/bioinformatics/17.2.162 <jats:title>Abstract</jats:title> <jats:p>Motivation: The recent rapid rise in the availability of whole genome DNA sequence data has led to bottlenecks in their complete analysis. Specifically, there is a need for software tools that will allow mining of gene and putative gene data at a whole genome level. These new tools will complement the current set already in use for studying specific aspects of individual genes and putative genes in detail. A key software challenge is to make them user-friendly, without losing their flexibility and capability for use in research.</jats:p> <jats:p>Results: The creation of GeneOrder—a web-based interactive, computational tool—allows researchers to compare the order of genes in two genomes. It has been tested on full genome sequence data for viruses, mitochondria and chloroplasts that were obtained from the NCBI GenBank database. It is accessible at http://www.bif.atcc.org/GENEOrder/index.html. GeneOrder prepares the comparison in table form, listing the order of similar genes. Hyperlinks are provided from this output; these lead to the ‘Protein Coding Regions’ in the NCBI database.</jats:p> <jats:p>* To whom correspondence should be addressed.</jats:p> GeneOrder: comparing the order of genes in small genomes Bioinformatics |
| spellingShingle | Mazumder, Raja, Kolaskar, Ashok, Seto, Donald, Bioinformatics, GeneOrder: comparing the order of genes in small genomes, Computational Mathematics, Computational Theory and Mathematics, Computer Science Applications, Molecular Biology, Biochemistry, Statistics and Probability |
| title | GeneOrder: comparing the order of genes in small genomes |
| title_full | GeneOrder: comparing the order of genes in small genomes |
| title_fullStr | GeneOrder: comparing the order of genes in small genomes |
| title_full_unstemmed | GeneOrder: comparing the order of genes in small genomes |
| title_short | GeneOrder: comparing the order of genes in small genomes |
| title_sort | geneorder: comparing the order of genes in small genomes |
| title_unstemmed | GeneOrder: comparing the order of genes in small genomes |
| topic | Computational Mathematics, Computational Theory and Mathematics, Computer Science Applications, Molecular Biology, Biochemistry, Statistics and Probability |
| url | http://dx.doi.org/10.1093/bioinformatics/17.2.162 |