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In silico analysis of gene expression data from bald frontal and haired occipital scalp to identify candidate genes in male androgenetic alopecia

  • A. Premanand
  • B. Reena RajkumariEmail author
Original Paper
  • 6 Downloads

Abstract

Androgenetic alopecia (AGA) is a progressive dermatological disorder of frontal and vertex scalp hair loss leading to baldness in men. This study aimed to identify candidate genes involved in AGA through an in silico search strategy. The gene expression profile GS36169, which contains microarray gene expression data from bald frontal and haired occipital scalps of five men with AGA, was downloaded from the Gene Expression Omnibus (GEO) database. The differential gene expression analysis for all five subjects was carried out separately by PUMA package in R and identified 32 differentially expressed genes (DEGs) common to all five subjects. Gene ontology (GO) biological process and pathway- enrichment analyses of the DEGs were conducted separately for the up-regulated and down-regulated genes. ReactomeFIViz app was utilized to construct the protein functional interaction network for the DEGs. Through GO biological process and pathway analysis on the clusters of the Reactome FI network, we found that the down-regulated DEGs participate in Wnt signaling, TGF-beta signaling, and up-regulated DEGs participate in oxidative-stress- related pathways.

Keywords

Androgenetic alopecia Differential gene expression Functional interaction network Gene ontology Wnt β-catenin signaling Transforming growth factor-β signaling Deleted in azoospermia 1 Hair growth 

Abbreviations

HBA1

Hemoglobin subunit alpha 1

HBB

Hemoglobin subunit beta

CD163

CD163 molecule

JUN

Jun proto-oncogene

PSORS1C2

Psoriasis susceptibility 1 candidate 2

PTGDS

Prostaglandin D2 synthase

LGR5

Leucine-rich repeat containing G-protein-coupled receptor 5

NPPA

Natriuretic peptide A

CORIN

Corin serine peptidase

RPS27A

Ribosomal protein S27a

EP300

E1A binding protein p300

COMP

Cartilage oligomeric matrix protein

BAMBI

BMP and activin membrane bound inhibitor

FGF18

Fibroblast growth factor 18

UBC

Ubiquitin C

SPOP

Speckle type BTB/POZ protein

DZIP1

DAZ interacting zinc finger protein 1

DAZ1

Deleted in azoospermia 1

KRT7

Keratin 7

KRT86

Keratin 86

KRT16

Keratin 16

KRT35

Keratin 35

KRT33A

Keratin 33A

KRT83

Keratin 83

KRT32

Keratin 32

KRT31

Keratin 31

KRT85

Keratin 85

KRT2

Keratin 2

EVPL

Envoplakin

TCHH

Trichohyalin

KRT75

Keratin 75

KRT81

Keratin 81

KRT33B

Keratin 33B

LCE4A

Late cornified envelope 4A

KRTAP10-8

Keratin-associated protein 10-8

KRTAP4-7

Keratin-associated protein 4-7

KRTAP10-5

Keratin-associated protein 10-5

KRTAP2-3

Keratin-associated protein 2-3

Notes

Acknowledgements

The author A. Premanand acknowledges the financial support provided through Junior Research Fellowship by the Council of Scientific and Industrial Research, New Delhi, India (Award No: 09/844(0045)/2017-EMR-I). The author B. Reena Rajkumari acknowledges the seed grant provided by Vellore Institute of Technology, Vellore.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

This article does not contain any studies with human participants or animals performed by any of the authors.

Informed consent

No original data are collected for this analysis, hence this study did not meet the criteria for ethical approval and formal consent is not required.

Supplementary material

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Supplementary file7 (PDF 112 kb)

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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  1. 1.Department of Integrative Biology, School of Bio Sciences and TechnologyVellore Institute of TechnologyVelloreIndia

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