Phantasus: web-application for visual and interactive gene expression analysis

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 a significant technical expertise. Here we present Phantasus – a user-friendly web-application for interactive gene expression analysis which provide a streamlined access to more than 84000 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 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<ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="https://ctlab.itmo.ru/phantasus">https://ctlab.itmo.ru/phantasus</ext-link>or<ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="https://artyomovlab.wustl.edu/phantasus">https://artyomovlab.wustl.edu/phantasus</ext-link>or can be installed locally from Bioconductor (<ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="https://bioconductor.org/packages/phantasus">https://bioconductor.org/packages/phantasus</ext-link>). Phantasus source code is available at<ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="https://github.com/ctlab/phantasus">https://github.com/ctlab/phantasus</ext-link>under MIT licence.