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RDMAS: a web server for RNA deleterious mutation analysis.

Shu W, Bo X, Liu R, Zhao D, Zheng Z, Wang S - BMC Bioinformatics (2006)

Bottom Line: RNA deleterious mutations have attracted wide attentions because some of them in cells result in serious disease, and some others in microbes influence their fitness.With a user-friendly interface, the web application is easy to use.Intuitive illustrations are provided along with the original computational results to facilitate quick analysis.

View Article: PubMed Central - HTML - PubMed

Affiliation: Beijing Institute of Radiation Medicine, Beijing 100850, China. shuwj@bmi.ac.cn

ABSTRACT

Background: The diverse functions of ncRNAs critically depend on their structures. Mutations in ncRNAs disrupting the structures of functional sites are expected to be deleterious. RNA deleterious mutations have attracted wide attentions because some of them in cells result in serious disease, and some others in microbes influence their fitness.

Results: The RDMAS web server we describe here is an online tool for evaluating structural deleteriousness of single nucleotide mutation in RNA genes. Several structure comparison methods have been integrated; sub-optimal structures predicted can be optionally involved to mitigate the uncertainty of secondary structure prediction. With a user-friendly interface, the web application is easy to use. Intuitive illustrations are provided along with the original computational results to facilitate quick analysis.

Conclusion: RDMAS can be used to explore the structure alterations which cause mutations pathogenic, and to predict deleterious mutations which may help to determine the functionally critical regions. RDMAS is freely accessed via http://biosrv1.bmi.ac.cn/rdmas.

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Related in: MedlinePlus

The CPU time of 10 groups of tests.
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Figure 3: The CPU time of 10 groups of tests.

Mentions: To test the computational efficiency of RDMAS, 500 random sequences (listed in Additional files) with 10 different lengths were submitted. All types of structure distance measurement are used in these tests. The CUP time of these 500 tests is illustrated in Figure 3.


RDMAS: a web server for RNA deleterious mutation analysis.

Shu W, Bo X, Liu R, Zhao D, Zheng Z, Wang S - BMC Bioinformatics (2006)

The CPU time of 10 groups of tests.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC1574353&req=5

Figure 3: The CPU time of 10 groups of tests.
Mentions: To test the computational efficiency of RDMAS, 500 random sequences (listed in Additional files) with 10 different lengths were submitted. All types of structure distance measurement are used in these tests. The CUP time of these 500 tests is illustrated in Figure 3.

Bottom Line: RNA deleterious mutations have attracted wide attentions because some of them in cells result in serious disease, and some others in microbes influence their fitness.With a user-friendly interface, the web application is easy to use.Intuitive illustrations are provided along with the original computational results to facilitate quick analysis.

View Article: PubMed Central - HTML - PubMed

Affiliation: Beijing Institute of Radiation Medicine, Beijing 100850, China. shuwj@bmi.ac.cn

ABSTRACT

Background: The diverse functions of ncRNAs critically depend on their structures. Mutations in ncRNAs disrupting the structures of functional sites are expected to be deleterious. RNA deleterious mutations have attracted wide attentions because some of them in cells result in serious disease, and some others in microbes influence their fitness.

Results: The RDMAS web server we describe here is an online tool for evaluating structural deleteriousness of single nucleotide mutation in RNA genes. Several structure comparison methods have been integrated; sub-optimal structures predicted can be optionally involved to mitigate the uncertainty of secondary structure prediction. With a user-friendly interface, the web application is easy to use. Intuitive illustrations are provided along with the original computational results to facilitate quick analysis.

Conclusion: RDMAS can be used to explore the structure alterations which cause mutations pathogenic, and to predict deleterious mutations which may help to determine the functionally critical regions. RDMAS is freely accessed via http://biosrv1.bmi.ac.cn/rdmas.

Show MeSH
Related in: MedlinePlus