eVITTA at UBC - easy Visualization and Inference Toolbox for Transcriptome Analysis

easyGEO

GEO data processing and visualization

Visit easyGEO

Demo session

easyGSEA

Gene set enrichment analysis

Visit easyGSEA

Demo session

easyVizR

Multiple dataset comparisons

Visit easyVizR

Demo session

eVITTA User Guide

easyGEO tutorial video

easyGEO: Retrieving, processing and visualizing NCBI Gene Expression Omnibus (GEO) data

Two-click retrieval of GEO metadata, count data and study designs
Supports analysis on microarray and RNA-seq studies
Convenient batch effect correction, grouping of samples for differential gene expression analysis, and visualizations on gene-level expression changes
Results readily imported to easyGSEA for functional enrichment analysis and/or easyVizR for multiple comparisons

easyGSEA tutorial video

easyGSEA: Gene set enrichment, pathway and network analyses

Two modes: Pre-ranked GSEA and Overrepresentation (gene/protein list) analysis
Pathway visualizations

KEGG, Reactome, WikiPathways

Network and dendrogram visualizations
Comprehensive and species-specific databases updated monthly

FlyBase, WormCat, WormBase, Saccharomyces Genome Database
DrugBank, MSigDB, DisGeNET, eRic enhancer RNA, Human Cancer Metastasis Database
BioGRID, TF2DNA, and more

Custom analysis for power users

easyVizR tutorial video

easyVizR: Comparing and analyzing multiple datasets

Set up custom filters for each dataset and generate gene lists
Analyze intersections among gene lists with Venn and UpSet plot
Visualize terms in the selected intersection with Heatmap, 2D and 3D Scatter Plots, and more

eVITTA v1.3.1

Cheng, X.*, Yan, J.*, Liu, Y., Wang, J., Taubert, S. eVITTA: a web-based visualization and inference toolbox for transcriptome analysis. (2021). Nucleic Acids Research. In press. * equal contributions

Acknowledgement

We thank our dear collaborators and labmates for beta testing and continuous support:

Dr. Ting Fung Chan, The Chinese University of Hong Kong
Dr. ‪Oriol Fornes, The University of British Columbia
Dr. Dandan Huang, Tianjin Medical University
Dr. Hoi Shan Kwan, The Chinese University of Hong Kong
Dr. Mulin Jun Li, Tianjin Medical University
Dr. Sara Mostafavi, The University of British Columbia
Dr. Wenyan Nong, The Chinese University of Hong Kong
Dr. Amy K. Walker, University of Massachusetts Medical School
Jiaming (Caitlyn) Xu (@CaitlynXu ): eVITTA, easyGEO & easyGSEA logos
Junran (Judith) Yan (@judithyan ): easyVizR logo
Kelsie Doering (@layscience ): eVITTA tutorial videos

eVITTA

@UBC