RiboD: A comprehensive database for prokaryotic riboswitches

Sumit Mukherjee; Sukhen Das Mandal; Nikita Gupta; Matan Drory-Retwitzer; Danny Barash; Supratim Sengupta

doi:10.1093/bioinformatics/btz093

RiboD: A comprehensive database for prokaryotic riboswitches

Sumit Mukherjee
, Sukhen Das Mandal
, Nikita Gupta
, Matan Drory-Retwitzer
, Danny Barash
, Supratim Sengupta

Indian Institute of Science Education and Research, Kolkata
Indian Institute of Technology Banaras Hindu University
Ben-Gurion University of the Negev

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

20 Scopus citations

Abstract

Riboswitches are cis-regulatory non-coding genomic segments that control the expression of downstream genes by undergoing conformational change upon ligand binding. We present a comprehensive database of prokaryotic riboswitches that allows the user to search for riboswitches using multiple criteria, extract information about riboswitch location and gene/operon it regulates. RiboD provides a very useful resource that can be utilized for the better understanding of riboswitch-based gene regulation in bacteria and archaea. Availability and implementation: RiboD can be freely accessed on the web at http://ribod.iiserkol.ac.in/.

Original language	English
Pages (from-to)	3541-3543
Number of pages	3
Journal	Bioinformatics
Volume	35
Issue number	18
DOIs	https://doi.org/10.1093/bioinformatics/btz093
State	Published - 15 Sep 2019
Externally published	Yes

Bibliographical note

Publisher Copyright:
© 2019 The Author(s) 2019. Published by Oxford University Press. All rights reserved.

Funding

SDM thanks CSIR, India for a research fellowship.

Funders
Council of Scientific and Industrial Research, India

Access to Document

10.1093/bioinformatics/btz093

Cite this

@article{b9f696ebe3ef463d8cdc10b83682f032,

title = "RiboD: A comprehensive database for prokaryotic riboswitches",

abstract = "Riboswitches are cis-regulatory non-coding genomic segments that control the expression of downstream genes by undergoing conformational change upon ligand binding. We present a comprehensive database of prokaryotic riboswitches that allows the user to search for riboswitches using multiple criteria, extract information about riboswitch location and gene/operon it regulates. RiboD provides a very useful resource that can be utilized for the better understanding of riboswitch-based gene regulation in bacteria and archaea. Availability and implementation: RiboD can be freely accessed on the web at http://ribod.iiserkol.ac.in/.",

author = "Sumit Mukherjee and \{Das Mandal\}, Sukhen and Nikita Gupta and Matan Drory-Retwitzer and Danny Barash and Supratim Sengupta",

year = "2019",

month = sep,

day = "15",

doi = "10.1093/bioinformatics/btz093",

language = "אנגלית",

volume = "35",

pages = "3541--3543",

journal = "Bioinformatics",

issn = "1367-4803",

publisher = "Oxford University Press",

number = "18",

}

TY - JOUR

T1 - RiboD

T2 - A comprehensive database for prokaryotic riboswitches

AU - Mukherjee, Sumit

AU - Das Mandal, Sukhen

AU - Gupta, Nikita

AU - Drory-Retwitzer, Matan

AU - Barash, Danny

AU - Sengupta, Supratim

PY - 2019/9/15

Y1 - 2019/9/15

N2 - Riboswitches are cis-regulatory non-coding genomic segments that control the expression of downstream genes by undergoing conformational change upon ligand binding. We present a comprehensive database of prokaryotic riboswitches that allows the user to search for riboswitches using multiple criteria, extract information about riboswitch location and gene/operon it regulates. RiboD provides a very useful resource that can be utilized for the better understanding of riboswitch-based gene regulation in bacteria and archaea. Availability and implementation: RiboD can be freely accessed on the web at http://ribod.iiserkol.ac.in/.

AB - Riboswitches are cis-regulatory non-coding genomic segments that control the expression of downstream genes by undergoing conformational change upon ligand binding. We present a comprehensive database of prokaryotic riboswitches that allows the user to search for riboswitches using multiple criteria, extract information about riboswitch location and gene/operon it regulates. RiboD provides a very useful resource that can be utilized for the better understanding of riboswitch-based gene regulation in bacteria and archaea. Availability and implementation: RiboD can be freely accessed on the web at http://ribod.iiserkol.ac.in/.

UR - https://www.scopus.com/pages/publications/85072340476

U2 - 10.1093/bioinformatics/btz093

DO - 10.1093/bioinformatics/btz093

M3 - ???researchoutput.researchoutputtypes.contributiontojournal.article???

C2 - 30726866

AN - SCOPUS:85072340476

SN - 1367-4803

VL - 35

SP - 3541

EP - 3543

JO - Bioinformatics

JF - Bioinformatics

IS - 18

ER -

RiboD: A comprehensive database for prokaryotic riboswitches

Abstract

Bibliographical note

Funding

Access to Document

Other files and links

Fingerprint

Cite this