GenExplorer: Visualizing and Comparing Gene Expression Levels via Differential Charts

Chau Pham, Vung Pham, Tommy Dang

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

Abstract

This paper describes a visual interface for analyzing gene expression data generated from multiple biological samples under different controlled conditions. The tasks are to provide a comprehensive overview of thousands of genes under different states and have an intuitive way to narrow down genes with common behaviors. Our method involves using multidimensional projections and differential charts to help users analyze different data sets via a web-based interface. Incorporating these charts and other visualization techniques into our final design makes the application accessible to genetics analysts, as demonstrated in the two use cases in plant and cancer researches. We further discuss the feedback from domain experts and the limitations of our approach to accommodate gene exploration tasks.

Original languageEnglish
Title of host publicationAdvances in Visual Computing - 15th International Symposium, ISVC 2020, Proceedings
EditorsGeorge Bebis, Zhaozheng Yin, Edward Kim, Jan Bender, Kartic Subr, Bum Chul Kwon, Jian Zhao, Denis Kalkofen, George Baciu
PublisherSpringer Science and Business Media Deutschland GmbH
Pages248-259
Number of pages12
ISBN (Print)9783030645557
DOIs
StatePublished - 2020
Event15th International Symposium on Visual Computing, ISVC 2020 - San Diego, United States
Duration: Oct 5 2020Oct 7 2020

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume12509 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

Conference15th International Symposium on Visual Computing, ISVC 2020
CountryUnited States
CitySan Diego
Period10/5/2010/7/20

Keywords

  • Abiotic stress
  • Cancer research
  • Differential charts
  • Gene expression
  • Multidimensional projection
  • Venn diagram

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