Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms

SUMMARY: Pathway Inspector is an easy-to-use web application helping researchers to find patterns of expression in complex RNAseq experiments. The tool combines two standard approaches for RNAseq analysis: the identification of differentially expressed genes and a topology-based analysis of enriched...

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Detalles Bibliográficos
Autores principales: Bianco, Luca, Riccadonna, Samantha, Lavezzo, Enrico, Falda, Marco, Formentin, Elide, Cavalieri, Duccio, Toppo, Stefano, Fontana, Paolo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2017
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5408796/
https://www.ncbi.nlm.nih.gov/pubmed/28158604
http://dx.doi.org/10.1093/bioinformatics/btw636
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author Bianco, Luca
Riccadonna, Samantha
Lavezzo, Enrico
Falda, Marco
Formentin, Elide
Cavalieri, Duccio
Toppo, Stefano
Fontana, Paolo
author_facet Bianco, Luca
Riccadonna, Samantha
Lavezzo, Enrico
Falda, Marco
Formentin, Elide
Cavalieri, Duccio
Toppo, Stefano
Fontana, Paolo
author_sort Bianco, Luca
collection PubMed
description SUMMARY: Pathway Inspector is an easy-to-use web application helping researchers to find patterns of expression in complex RNAseq experiments. The tool combines two standard approaches for RNAseq analysis: the identification of differentially expressed genes and a topology-based analysis of enriched pathways. Pathway Inspector is equipped with ad hoc interactive graphical interfaces simplifying the discovery of modulated pathways and the integration of the differentially expressed genes in the corresponding pathway topology. AVAILABILITY AND IMPLEMENTATION: Pathway Inspector is available at the website http://admiral.fmach.it/PI and has been developed in Python, making use of the Django Web Framework.
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spelling pubmed-54087962017-05-03 Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms Bianco, Luca Riccadonna, Samantha Lavezzo, Enrico Falda, Marco Formentin, Elide Cavalieri, Duccio Toppo, Stefano Fontana, Paolo Bioinformatics Applications Notes SUMMARY: Pathway Inspector is an easy-to-use web application helping researchers to find patterns of expression in complex RNAseq experiments. The tool combines two standard approaches for RNAseq analysis: the identification of differentially expressed genes and a topology-based analysis of enriched pathways. Pathway Inspector is equipped with ad hoc interactive graphical interfaces simplifying the discovery of modulated pathways and the integration of the differentially expressed genes in the corresponding pathway topology. AVAILABILITY AND IMPLEMENTATION: Pathway Inspector is available at the website http://admiral.fmach.it/PI and has been developed in Python, making use of the Django Web Framework. Oxford University Press 2017-02-01 2016-10-06 /pmc/articles/PMC5408796/ /pubmed/28158604 http://dx.doi.org/10.1093/bioinformatics/btw636 Text en © The Author 2016. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Applications Notes
Bianco, Luca
Riccadonna, Samantha
Lavezzo, Enrico
Falda, Marco
Formentin, Elide
Cavalieri, Duccio
Toppo, Stefano
Fontana, Paolo
Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms
title Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms
title_full Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms
title_fullStr Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms
title_full_unstemmed Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms
title_short Pathway Inspector: a pathway based web application for RNAseq analysis of model and non-model organisms
title_sort pathway inspector: a pathway based web application for rnaseq analysis of model and non-model organisms
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5408796/
https://www.ncbi.nlm.nih.gov/pubmed/28158604
http://dx.doi.org/10.1093/bioinformatics/btw636
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