WormBase single-cell tools.
Eduardo da Veiga Beltrame1, Valerio Arnaboldi1, Paul W Sternberg1
1Division of Biology and Biological Engineering, Caltech, Pasadena, CA 91125, USA.
Bioinformatics Advances
|July 11, 2022
Summary
We developed two web applications, scdefg and wormcells-viz, for analyzing single-cell RNA sequencing data. These tools facilitate differential gene expression and visualization for the model organism Caenorhabditis elegans.
Area of Science:
- Computational Biology
- Bioinformatics
- Genomics
Background:
- Single-cell RNA sequencing (scRNA-seq) generates complex datasets.
- Interactive tools are needed for common scRNA-seq data analysis tasks.
- Standardized analysis pipelines improve reproducibility.
Purpose of the Study:
- To present two user-friendly web applications for scRNA-seq data analysis.
- To provide interactive tools for differential gene expression and data visualization.
- To deploy these tools using public Caenorhabditis elegans datasets.
Main Methods:
- Development of two distinct web applications: scdefg for differential expression analysis and wormcells-viz for gene expression visualization.
- Deployment of these applications using curated single-cell RNA sequencing datasets from Caenorhabditis elegans.
