Riboswitch Scanner: An efficient pHMM-based web-server to detect riboswitches in genomic sequences

Sumit Mukherjee; Supratim Sengupta

doi:10.1093/bioinformatics/btv640

Riboswitch Scanner: An efficient pHMM-based web-server to detect riboswitches in genomic sequences

Sumit Mukherjee, Supratim Sengupta

Research output: Contribution to journal › Article › peer-review

43 Scopus citations

Abstract

Riboswitches are non-coding RNA located in the 5′ untranslated regions where they bind a target metabolite used to specify the riboswitch class and control the expression of associated genes. Accurate identification of riboswitches is the first step towards understanding their regulatory and functional roles in the cell. In this article, we describe a new web application named Riboswitch Scanner which provides an automated pipeline for pHMM-based detection of riboswitches in partial as well as complete genomic sequences rapidly, with high sensitivity and specificity.

Original language	English
Pages (from-to)	776-778
Number of pages	3
Journal	Bioinformatics
Volume	32
Issue number	5
DOIs	https://doi.org/10.1093/bioinformatics/btv640
State	Published - 1 Mar 2016
Externally published	Yes

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/btv640

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abstract = "Riboswitches are non-coding RNA located in the 5′ untranslated regions where they bind a target metabolite used to specify the riboswitch class and control the expression of associated genes. Accurate identification of riboswitches is the first step towards understanding their regulatory and functional roles in the cell. In this article, we describe a new web application named Riboswitch Scanner which provides an automated pipeline for pHMM-based detection of riboswitches in partial as well as complete genomic sequences rapidly, with high sensitivity and specificity.",

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N2 - Riboswitches are non-coding RNA located in the 5′ untranslated regions where they bind a target metabolite used to specify the riboswitch class and control the expression of associated genes. Accurate identification of riboswitches is the first step towards understanding their regulatory and functional roles in the cell. In this article, we describe a new web application named Riboswitch Scanner which provides an automated pipeline for pHMM-based detection of riboswitches in partial as well as complete genomic sequences rapidly, with high sensitivity and specificity.

AB - Riboswitches are non-coding RNA located in the 5′ untranslated regions where they bind a target metabolite used to specify the riboswitch class and control the expression of associated genes. Accurate identification of riboswitches is the first step towards understanding their regulatory and functional roles in the cell. In this article, we describe a new web application named Riboswitch Scanner which provides an automated pipeline for pHMM-based detection of riboswitches in partial as well as complete genomic sequences rapidly, with high sensitivity and specificity.

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JO - Bioinformatics

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Riboswitch Scanner: An efficient pHMM-based web-server to detect riboswitches in genomic sequences

Abstract

ASJC Scopus subject areas

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