Processing and Analysis of RNA-seq Data from Public Resources

Yazeed Zoabi; Noam Shomron

doi:10.1007/978-1-0716-1103-6_4

Processing and Analysis of RNA-seq Data from Public Resources

Yazeed Zoabi
, Noam Shomron

Cell and Developmental Biology

Tel Aviv University

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

Abstract

Advances in next generation sequencing (NGS) technologies resulted in a broad array of large-scale gene expression studies and an unprecedented volume of whole messenger RNA (mRNA) sequencing data, or the transcriptome (also known as RNA sequencing, or RNA-seq). These include the Genotype Tissue Expression project (GTEx) and The Cancer Genome Atlas (TCGA), among others. Here we cover some of the commonly used datasets, provide an overview on how to begin the analysis pipeline, and how to explore and interpret the data provided by these publicly available resources.

Original language	English
Title of host publication	Methods in Molecular Biology
Publisher	Humana Press
Pages	81-94
Number of pages	14
DOIs	https://doi.org/10.1007/978-1-0716-1103-6_4
State	Published - 2021

Publication series

Name	Methods in Molecular Biology
Volume	2243

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

SDG 3 Good Health and Well-being

Keywords

Databases
Differential expression analysis
GTEx
Genomics
NGS
RNA sequencing
RNA-seq
TCGA

ASJC Scopus subject areas

Molecular Biology
Genetics

Access to Document

10.1007/978-1-0716-1103-6_4

Cite this

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AU - Shomron, Noam

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AB - Advances in next generation sequencing (NGS) technologies resulted in a broad array of large-scale gene expression studies and an unprecedented volume of whole messenger RNA (mRNA) sequencing data, or the transcriptome (also known as RNA sequencing, or RNA-seq). These include the Genotype Tissue Expression project (GTEx) and The Cancer Genome Atlas (TCGA), among others. Here we cover some of the commonly used datasets, provide an overview on how to begin the analysis pipeline, and how to explore and interpret the data provided by these publicly available resources.

KW - Databases

KW - Differential expression analysis

KW - GTEx

KW - Genomics

KW - NGS

KW - RNA sequencing

KW - RNA-seq

KW - TCGA

UR - https://www.scopus.com/pages/publications/85102050409

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M3 - Chapter

C2 - 33606253

T3 - Methods in Molecular Biology

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EP - 94

BT - Methods in Molecular Biology

PB - Humana Press

ER -

Processing and Analysis of RNA-seq Data from Public Resources

Abstract

Publication series

UN SDGs

Keywords

ASJC Scopus subject areas

Access to Document

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