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RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...

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Updated: Jul 11, 2025

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

Published on: August 4, 2016

scX: A user-friendly tool for scRNA-seq exploration.

Tomás Vega Waichman¹, M Luz Vercesi¹, Ariel A Berardino^1,2

¹Integrative Systems Biology Lab, Leloir Institute, Buenos Aires, C1405 BWE, Argentina.

|November 14, 2023

Summary

This summary is machine-generated.

scX is a new R package simplifying single-cell RNA sequencing (scRNA-seq) data analysis. It offers an interactive web application for easy exploration, visualization, and key analyses of scRNA-seq experiments.

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Area of Science:

Genomics
Bioinformatics
Computational Biology

Background:

Single-cell RNA sequencing (scRNA-seq) provides high-resolution insights into biological systems.
Analyzing scRNA-seq data requires specialized bioinformatics expertise and can be complex.
Existing tools may present challenges in accessibility and user-friendliness for researchers.

Approach:

Introduced scX, an R package utilizing the Shiny framework for interactive web-based analysis.
Developed a user-friendly graphical interface for streamlined scRNA-seq data handling.
Integrated scX with popular R objects like Seurat and Single-CellExperiment for broad compatibility.

Key Points:

scX facilitates essential scRNA-seq analyses: marker identification, gene expression profiling, and differential gene expression.
The package offers efficient processing and visualization capabilities for diverse single-cell datasets.
Its interactive nature simplifies data exploration and sharing among researchers.

Conclusions:

scX serves as a valuable tool for simplifying complex scRNA-seq data analysis.
The package enhances accessibility to advanced single-cell data exploration and visualization.
scX empowers researchers to more effectively interpret and share their single-cell experimental findings.