Phantasus, a web-application for visual and interactive gene expression analysis
- ITMO University, Russian Federation
- Washington University in St. Louis, United States
Abstract
Transcriptomic profiling became a standard approach to quantify a cell state, which led to accumulation of huge amount of public gene expression datasets. However, both reuse of these datasets or analysis of newly generated ones requires significant technical expertise. Here we present Phantasus - a user-friendly web-application for interactive gene expression analysis which provides a streamlined access to more than 96000 public gene expression datasets, as well as allows analysis of user-uploaded datasets. Phantasus integrates an intuitive and highly interactive JavaScript-based heatmap interface with an ability to run sophisticated R-based analysis methods. Overall Phantasus allows users to go all the way from loading, normalizing and filtering data to doing differential gene expression and downstream analysis. Phantasus can be accessed on-line at https://alserglab.wustl.edu/phantasus or can be installed locally from Bioconductor (https://bioconductor.org/packages/phantasus). Phantasus source code is available at https://github.com/ctlab/phantasus under MIT license.
Data availability
The current manuscript is a computational study, so no data have been generated for this manuscript. The application source code is available at https://github.com/ctlab/phantasus under MIT licence.
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Article and author information
Author details
Alexey A Sergushichev
Funding
Ministry of Science and Higher Education of the Russian Federation (Priority 2030 Federal Academic Leadership Program)
- Maksim Kleverov
- Alexey A Sergushichev
The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
Copyright
© 2024, Kleverov et al.
This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.
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Phantasus, a web-application for visual and interactive gene expression analysis
eLife 13:e85722.
https://doi.org/10.7554/eLife.85722
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