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ORIGINAL ARTICLE
Year : 2021  |  Volume : 5  |  Issue : 4  |  Page : 425-434

Gene expression analysis to network construction for the identification of hub genes involved in neurodevelopment


Amity Institute of Biotechnology, Amity University Uttar Pradesh, Lucknow Campus, Lucknow, Uttar Pradesh, India

Correspondence Address:
Ruchi Yadav
Amity Institute of Biotechnology, Amity University Uttar Pradesh, Lucknow Campus, Lucknow, Uttar Pradesh
India
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Source of Support: None, Conflict of Interest: None


DOI: 10.4103/bbrj.bbrj_250_21

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Background: Gene expression information can be decoded to identify not only differentially expressed genes but also co-expressed genes that can give insight into protein interaction network. Current research has been done for the prediction of genes associated with Neurodevelopmental process using Microarray data and to construct the network of coexpressed genes and their functional annotation. Methods: Mesenchymal stem cells (MSCs) were exposed with Resveratrol (RV), Nerve Growth Factor (NGF) and RV+NGF to study the effect of neuroprotective role of RV (Data submitted NCBI's Gene Expression Omnibus (GEO Series accession number GSE121261). Bioinformatics software's, tools and databases like R and Bioconductor, Affy package, CoExpress 1.0b software, Metascape tool and Gene Ontology database was used prediction and functional enrichment of coexpressed genes. Normalization was done using RMA (Robust Multi-array Average) as implemented in Affy package and co-expressed genes were identified using CoExpress 1.0b with default parameters. Results: Co- expression result shows that total 135 genes have same gene expression across microarray chip these genes have function in different biological processes like, developmental processes, MAPK TRK pathway, muscle structure development etc. Total fifteen were identified that have function in nervous system development. Conclusions: This study identifies the list of co-expressed that were expressed in neurodevelopmental stage. These genes can be used further as neuronal markers, neuronal injury identification and diagnosis prospective at the developmental stage. Further verification methods are required for these predicted proteins for their applicability in drug development process.


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