Protocol for gene annotation, prediction, and validation of genomic gene expansion

Quanwei Zhang; Zhengdong D. Zhang

doi:10.1016/j.xpro.2022.101692

Protocol for gene annotation, prediction, and validation of genomic gene expansion

Quanwei Zhang, Zhengdong D. Zhang

Genetics

Research output: Contribution to journal › Article › peer-review

Abstract

Although gene expansion plays an important role in evolution, its identification remains a challenge due to potential errors in genome assembly and annotation. Here, we describe a detailed step-by-step protocol for gene annotation, prediction of genomic gene expansion, and its computational and experimental validation. Finally, we also detail steps to discover functionality of each copy of replicated genes. For complete details on the use and execution of this protocol, please refer to Zhang et al. (2021).

Original language	English (US)
Article number	101692
Journal	STAR Protocols
Volume	3
Issue number	4
DOIs	https://doi.org/10.1016/j.xpro.2022.101692
State	Published - Dec 16 2022

Keywords

Bioinformatics
Evolutionary biology
Gene expression
Genomics

ASJC Scopus subject areas

Neuroscience(all)
Biochemistry, Genetics and Molecular Biology(all)
Immunology and Microbiology(all)

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10.1016/j.xpro.2022.101692

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abstract = "Although gene expansion plays an important role in evolution, its identification remains a challenge due to potential errors in genome assembly and annotation. Here, we describe a detailed step-by-step protocol for gene annotation, prediction of genomic gene expansion, and its computational and experimental validation. Finally, we also detail steps to discover functionality of each copy of replicated genes. For complete details on the use and execution of this protocol, please refer to Zhang et al. (2021).",

keywords = "Bioinformatics, Evolutionary biology, Gene expression, Genomics",

author = "Quanwei Zhang and Zhang, {Zhengdong D.}",

note = "Funding Information: This work was supported by NIH grant P01AG047200 and a grant from the Irma T. Hirschl Trust to Z.D.Z. Publisher Copyright: {\textcopyright} 2022 The Author(s)",

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KW - Gene expression

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Protocol for gene annotation, prediction, and validation of genomic gene expansion

Abstract

Keywords

ASJC Scopus subject areas

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