Analyzing Gene Pathways from Microarrays to Sequencing Platforms

Jeffrey Miecznikowski; Dan Wang; Xing Ren; Jianmin Wang; Song Liu

doi:10.1007/978-3-030-34675-1_16

Analyzing Gene Pathways from Microarrays to Sequencing Platforms

Jeffrey Miecznikowski
, Dan Wang
, Xing Ren
, Jianmin Wang
, Song Liu

Department of Biostatistics

Roswell Park Cancer Institute
SUNY Buffalo

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

1 Scopus citations

Abstract

Genetic microarrays have been the primary technology for quantitative transcriptome analysis since the mid-1990s. Via statistical testing methodology developed for microarray data, researchers can study genes and gene pathways involved in a disease. Recently a new technology known as RNA-seq has been developed to quantitatively study the transcriptome. This new technology can also study genes and gene pathways, although the statistical methodology used for microarrays must be adapted to this new platform. In this manuscript, we discuss methods of gene pathway analysis in microarrays and next generation sequencing and their advantages over standard “gene by gene” testing schemes.

Original language	English
Title of host publication	Statistical Modeling for Biological Systems
Subtitle of host publication	In Memory of Andrei Yakovlev
Publisher	Springer International Publishing
Pages	289-296
Number of pages	8
ISBN (Electronic)	9783030346751
ISBN (Print)	9783030346744
DOIs	https://doi.org/10.1007/978-3-030-34675-1_16
State	Published - Jan 1 2020

Keywords

GSA
GSEA
Microarrays
Multiple testing
Pathway analysis
RNA-Seq

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10.1007/978-3-030-34675-1_16

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abstract = "Genetic microarrays have been the primary technology for quantitative transcriptome analysis since the mid-1990s. Via statistical testing methodology developed for microarray data, researchers can study genes and gene pathways involved in a disease. Recently a new technology known as RNA-seq has been developed to quantitatively study the transcriptome. This new technology can also study genes and gene pathways, although the statistical methodology used for microarrays must be adapted to this new platform. In this manuscript, we discuss methods of gene pathway analysis in microarrays and next generation sequencing and their advantages over standard “gene by gene” testing schemes.",

keywords = "GSA, GSEA, Microarrays, Multiple testing, Pathway analysis, RNA-Seq",

author = "Jeffrey Miecznikowski and Dan Wang and Xing Ren and Jianmin Wang and Song Liu",

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AU - Miecznikowski, Jeffrey

AU - Wang, Dan

AU - Ren, Xing

AU - Wang, Jianmin

AU - Liu, Song

N1 - Publisher Copyright: © Springer Nature Switzerland AG 2020.

PY - 2020/1/1

Y1 - 2020/1/1

N2 - Genetic microarrays have been the primary technology for quantitative transcriptome analysis since the mid-1990s. Via statistical testing methodology developed for microarray data, researchers can study genes and gene pathways involved in a disease. Recently a new technology known as RNA-seq has been developed to quantitatively study the transcriptome. This new technology can also study genes and gene pathways, although the statistical methodology used for microarrays must be adapted to this new platform. In this manuscript, we discuss methods of gene pathway analysis in microarrays and next generation sequencing and their advantages over standard “gene by gene” testing schemes.

AB - Genetic microarrays have been the primary technology for quantitative transcriptome analysis since the mid-1990s. Via statistical testing methodology developed for microarray data, researchers can study genes and gene pathways involved in a disease. Recently a new technology known as RNA-seq has been developed to quantitatively study the transcriptome. This new technology can also study genes and gene pathways, although the statistical methodology used for microarrays must be adapted to this new platform. In this manuscript, we discuss methods of gene pathway analysis in microarrays and next generation sequencing and their advantages over standard “gene by gene” testing schemes.

KW - GSA

KW - GSEA

KW - Microarrays

KW - Multiple testing

KW - Pathway analysis

KW - RNA-Seq

UR - https://www.scopus.com/pages/publications/85134462671

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BT - Statistical Modeling for Biological Systems

PB - Springer International Publishing

ER -

Analyzing Gene Pathways from Microarrays to Sequencing Platforms

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Keywords

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