VISPER - Visualization System for Interactions between Proteins and Drugs for Exploratory Research
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Date
2024
Journal Title
Journal ISSN
Volume Title
Publisher
The Eurographics Association
Abstract
VISPER is a web-based application that enables users to interactively explore and analyze drug-protein associations. Its uniqueness lies in the dataset for which it has been specifically designed. Until now, most biomarkers for cancer vulnerabilities have primarily relied on genomic and transcriptomic measurements. A recently published study created a comprehensive pan-cancer proteomic map of human cancer cell lines, involving the application of 625 drugs to these cell lines. From these data, proteomic responses to the drug treatment across different cell lines can be derived, providing an extensive resource for a better understanding of drug mechanisms. To facilitate the analysis of this extensive dataset, we developed VISPER, a visualization tool specifically tailored to explore the ProCan dataset, enabling easy exploration of the relationships between proteins, drugs, and cell lines through a network graph representation. The graphical representation is complemented by a wide range of filter options, different representations, and integration of existing online databases for improved biological classification. Furthermore, the web application provides a clear overview of the similarity of drugs based on their protein associations. VISPER thus represents a promising addition to established systems biology software tools. Availability and implementation: VISPER is available open-source on GitHub (https://github.com/scibiome/VISPER) or as a Docker image (https://hub.docker.com/r/thegoldenphoenix/VISPER).
Description
CCS Concepts: Human-centered computing → Visual Analytics; Applied computing → Life and medical sciences
@inproceedings{10.2312:vcbm.20241190,
booktitle = {Eurographics Workshop on Visual Computing for Biology and Medicine},
editor = {Garrison, Laura and Jönsson, Daniel},
title = {{VISPER - Visualization System for Interactions between Proteins and Drugs for Exploratory Research}},
author = {Dehncke, Daniel and Fiebach, Vinzenz and Kinzel, Lennart and Baumann, Knut and Kacprowski, Tim},
year = {2024},
publisher = {The Eurographics Association},
ISSN = {2070-5786},
ISBN = {978-3-03868-244-8},
DOI = {10.2312/vcbm.20241190}
}