Journal Article

Visualizing set relationships: EVenn's comprehensive approach to Venn diagrams

Huang, Luqi, Yang, Mei, Chen, Tong, Liu, Yong‐Xin

2024

Overview

Venn diagrams serve as invaluable tools for visualizing set relationships due to their ease of interpretation. Widely applied across diverse disciplines such as metabolomics, genomics, transcriptomics, and proteomics, their utility is undeniable. However, the operational complexity has been compounded by the absence of standardized data formats and the need to switch between various platforms for generating different Venn diagrams. To address these challenges, we introduce the EVenn platform, a versatile tool offering a unified interface for efficient data exploration and visualization of diverse Venn diagrams. EVenn (http://www.ehbio.com/test/venn) streamlines the data upload process with a standardized format, enhancing the capabilities for multimodule analysis. This comprehensive protocol outlines various applications of EVenn, featuring representative results of multiple Venn diagrams, data uploads in the centralized data center, and step‐by‐step case demonstrations. Through these functionalities, EVenn emerges as a valuable and user‐friendly tool for the in‐depth exploration of multiomics data. The use of Venn diagrams greatly aids in illustrating and visualizing set relationships within metabolomics, genomics, transcriptomics, and proteomics. Here, we introduce EVenn, an all‐encompassing platform that provides a unified interface for a wide range of Venn diagram functionalities. This protocol delineates the features of EVenn, encompassing interactive Venn diagrams, interactive Edwards diagrams, Euler diagrams, UpSet plots, flower plots, and Venn network diagrams, solidifying its role as an invaluable tool for the analysis of multiomics data. Highlights Comprehensive Venn functionality: EVenn introduces a unified platform with diverse Venn diagram tools, from interactive diagrams to network representations, catering to the intricate needs of multiomics data analysis across metabolomics, genomics, transcriptomics, and proteomics. Efficient data exploration: EVenn's data center streamlines exploration by supporting a standardized data format, allowing researchers to effortlessly upload and analyze data. The manuscript demonstrates its practical utility through representative results and detailed case demonstrations. User‐friendly interface: With a user‐friendly interface, EVenn simplifies the generation of various Venn diagrams, Euler diagrams, UpSet plots, and more. This protocol establishes EVenn as a valuable resource for researchers seeking a cohesive and accessible tool for multiomics data interpretation.

• Publisher: John Wiley & Sons, Inc,John Wiley and Sons Inc,Wiley
• Subject: Computer centers / Datasets / Euler diagram / flower plot / Genes / interactive Venn diagram / Metabolites / multiomics data visualization / Proteins / Protocol / standardized data formats / UpSet plot / Venn network diagram / Visualization