PathVisio statistics

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Citations per year

Number of citations per year for the bioinformatics software tool PathVisio
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Tool usage distribution map

This map represents all the scientific publications referring to PathVisio per scientific context
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Associated diseases

This word cloud represents PathVisio usage per disease context
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Protocols

PathVisio specifications

Information


Unique identifier OMICS_10374
Name PathVisio
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
License Apache License version 2.0
Computer skills Medium
Version 3.0
Stability Stable
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/PathVisio

Versioning


No version available

Documentation


Publications for PathVisio

PathVisio citations

 (46)
library_books

Transcriptional development of phospholipid and lipoprotein metabolism in different intestinal regions of Atlantic salmon (Salmo salar) fry

2018
BMC Genomics
PMCID: 5902856
PMID: 29661132
DOI: 10.1186/s12864-018-4651-8

[…] ed to each other using the edgeR TMM normalization method.All RNA-Seq data analysis was preformed using R (v3.2.4) and Bioconductor (v3.3). The pathway maps of PL and LP synthesis were produced using PathVisio. The heatmap was drawn using R package pheatmap. All other figures were produced using SigmaPlot for Windows Version 13.0. […]

library_books

Redox responses are preserved across muscle fibres with differential susceptibility to aging

2018
J Proteomics
PMCID: 5884322
PMID: 29438851
DOI: 10.1016/j.jprot.2018.02.015

[…] dentified proteins was visualised using Volcano plots using Log2 (Fold Change) plotted against significance in R studio. Pathway analysis of label free quantitative proteomic data was performed using PathVisio [] together with WikiPathways [] to visualize and highlight altered pathways from identified proteins. […]

library_books

Integrative analysis of Multiple Sclerosis using a systems biology approach

2018
Sci Rep
PMCID: 5884799
PMID: 29618802
DOI: 10.1038/s41598-018-24032-8

[…] ein ISG15 (G1P2) induces IFN-γ expression while Ubl carboxyl-terminal hydrolase 18 (USP18) inhibits G1P2 activity, explaining the observed down-regulation state of IFN-γ.Figure 6After the analysis in PathVisio of the “treated” group, the TLR signalling pathway (Fig. ) was considered the most relevant one due to molecular consistency criteria and statistical significance with a high Z-score and per […]

library_books

Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data

2018
BMC Bioinformatics
PMCID: 5749025
PMID: 29291722
DOI: 10.1186/s12859-017-2006-0

[…] l on-going initiatives on identifiers standardization such as BridgeDB and the Chemical Translation Service are trying to overcome redundancy [–]. Some tools such as MetaboAnalyst, ConsensusPathDB or PathVisio embrace these initiatives and accept different types of identifiers, which are then transformed into an internal identifier prior to the enrichment analysis []. However, this approach also p […]

library_books

A Review of Pathway Based Analysis Tools That Visualize Genetic Variants

2017
Front Genet
PMCID: 5681904
PMID: 29163640
DOI: 10.3389/fgene.2017.00174

[…] ted LDL receptor degradation pathway (WikiPathways ID: WP 2846) that represents the key role of PCSK9 in the regulation of the LDL-cholesterol level. This pathway can be dynamically explored with the PathVisio tool (), in which not only the different entities of the pathway will show extra information through their hyperlinks with various sources (e.g., gene, protein, disease databases, etc.), but […]

library_books

A genomic screen for angiosuppressor genes in the tumor endothelium identifies a multifaceted angiostatic role for bromodomain containing 7 (BRD7)

2017
PMCID: 5660147
PMID: 28951988
DOI: 10.1007/s10456-017-9576-3

[…] have one unique identifier representing average expression of low versus high BRD7 expressing cells. FunRich (www.funrich.org), DAVID (https://david.ncifcrf.gov/), WebGestalt (www.webgestalt.org) and PathVisio (www.pathvisio.org) were used to perform functional annotation analysis on the final data set. […]


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PathVisio institution(s)
Department of Bioinformatics, BiGCaT Maastricht University, Universiteitssingel, Maastricht, Netherlands

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