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ICARUS, an interactive web server for single cell RNA-seq analysis.

Andrew Jiang1, Klaus Lehnert1, Linya You2

  • 1Applied Translational Genetics Group, School of Biological Sciences, The University of Auckland, Auckland, New Zealand.

Nucleic Acids Research
|May 10, 2022
PubMed
Summary
This summary is machine-generated.

ICARUS is a web server simplifying single-cell RNA sequencing (scRNA-seq) analysis for users without R programming experience. It offers an intuitive interface for pre-processing, analysis, and visualization, making complex bioinformatics accessible.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Single-cell RNA sequencing (scRNA-seq) generates complex datasets requiring specialized bioinformatics skills for analysis.
  • Existing tools often necessitate programming expertise (e.g., R), posing a barrier for many researchers.
  • There is a need for accessible, user-friendly platforms for scRNA-seq data analysis.

Purpose of the Study:

  • To present ICARUS, a novel web server designed for intuitive scRNA-seq analysis.
  • To empower users lacking R programming experience to perform comprehensive scRNA-seq data analysis.
  • To provide a streamlined workflow for pre-processing, analysis, and visualization of scRNA-seq data.

Main Methods:

  • Development of a web server with a tutorial-style user interface.
  • Implementation of quality control, dimensionality reduction (UMAP, t-SNE), and cell clustering functionalities.
  • Integration of differential expression analysis, gene set enrichment analysis, and multimodal data visualization (CITE-seq, 10X Genomics Multiome).

Main Results:

  • ICARUS provides accessible scRNA-seq analysis without software installation.
  • The platform supports quality control, parameter adjustment, and visualization of complex datasets.
  • It enables differential expression and pathway analysis across eleven supported organisms, including multimodal data.

Conclusions:

  • ICARUS significantly lowers the barrier to entry for scRNA-seq data analysis.
  • The web server facilitates efficient and comprehensive analysis for researchers of varying technical backgrounds.
  • ICARUS promotes broader adoption and utilization of scRNA-seq technologies in biological research.