Genoscapist: online exploration of quantitative profiles along genomes via interactively customized graphical representations-Reference-Cited by-同舟云学术

Genoscapist: online exploration of quantitative profiles along genomes via interactively customized graphical representations

Published:2021-02-03 Issue:17 Volume:37 Page:2747-2749
ISSN:1367-4803
Container-title:Bioinformatics
language:en
Short-container-title:

Author:

Dérozier Sandra¹²,Nicolas Pierre¹,Mäder Ulrike³,Guérin Cyprien¹

Affiliation:

1. Université Paris-Saclay, INRAE, MaIAGE, Jouy-en-Josas 78350, France

2. Université Paris-Saclay, INRAE, BioinfOmics, MIGALE Bioinformatics Facility, Jouy-en-Josas 78350, France

3. Interfaculty Institute for Genetics and Functional Genomics, University Medicine Greifswald, Greifswald, Germany

Abstract

Abstract Summary Genoscapist is a tool to design web interfaces generating high-quality images for interactive visualization of hundreds of quantitative profiles along a reference genome together with various annotations. Relevance is demonstrated by deployment of two websites dedicated to large condition-dependent transcriptome datasets available for Bacillus subtilis and Staphylococcus aureus. Availability and implementation Websites and source code freely accessible at https://genoscapist.migale.inrae.fr

Funder

ANR CoNoCo

Publisher

Oxford University Press (OUP)

Subject

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

Link

http://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btab079/36233324/btab079.pdf

Reference11 articles.

1. Termination factor rho: from the control of pervasive transcription to cell fate determination in Bacillus subtilis;Bidnenko;PLoS Genet,2017

2. JBrowse: a dynamic web platform for genome visualization and analysis;Buels;Genome Biol,2016

3. Exploration of plant genomes in the FLAGdb++ environment;Dérozier;Plant Methods,2011

4. AureoWiki—the repository of the Staphylococcus aureus research and annotation community;Fuchs;Int. J. Med. Microbiol,2018

5. MuGeN: simultaneous exploration of multiple genomes and analysis results;Hoebeke;Bioinformatics,2003

Cited by 6 articles. 订阅此论文施引文献订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献

1. Exploring the targetome of IsrR, an iron-regulated sRNA controlling the synthesis of iron-containing proteins in Staphylococcus aureus;Frontiers in Microbiology;2024-07-05

2. Complex sporulation-specific expression of transcription termination factor Rho highlights its involvement inBacillus subtiliscell differentiation;2023-12-02

3. Direct comparison of spatial transcriptional heterogeneity across diverse Bacillus subtilis biofilm communities;Nature Communications;2023-11-20

4. Greedy reduction ofBacillus subtilisgenome yields emergent phenotypes of high resistance to a DNA damaging agent and low evolvability;Nucleic Acids Research;2023-03-15

5. Termination factor Rho mediates transcriptional reprogramming of Bacillus subtilis stationary phase;PLOS Genetics;2023-02-03