PathwAX II: network-based pathway analysis with interactive visualization of network crosstalk

Christoph Ogris; Miguel Castresana-Aguirre; Erik L L Sonnhammer

doi:10.1093/bioinformatics/btac153

PathwAX II: network-based pathway analysis with interactive visualization of network crosstalk

Bioinformatics. 2022 Apr 28;38(9):2659-2660. doi: 10.1093/bioinformatics/btac153.

Authors

Christoph Ogris^{1

2}, Miguel Castresana-Aguirre¹, Erik L L Sonnhammer¹

Affiliations

¹ Department of Biochemistry and Biophysics, Stockholm University, Science for Life Laboratory, 17121 Solna, Sweden.
² Institute of Computational Biology, Helmholtz Center Munich, 85764 Neuherberg, Germany.

Abstract

Motivation: Pathway annotation tools are indispensable for the interpretation of a wide range of experiments in life sciences. Network-based algorithms have recently been developed which are more sensitive than traditional overlap-based algorithms, but there is still a lack of good online tools for network-based pathway analysis.

Results: We present PathwAX II-a pathway analysis web tool based on network crosstalk analysis using the BinoX algorithm. It offers several new features compared with the first version, including interactive graphical network visualization of the crosstalk between a query gene set and an enriched pathway, and the addition of Reactome pathways.

Availability and implementation: PathwAX II is available at http://pathwax.sbc.su.se.

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Algorithms*
Cell Physiological Phenomena
Software*