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Development of an Interactive Web Application “Shiny App for Frequency Analysis on Homo sapiens Genome (SAFA-HsG)”

  • Balamurugan SivaprakasamEmail author
  • Prasanna Sadagopan
original research article
  • 60 Downloads

Abstract

The web application “Shiny App for Frequency Analysis on Homo sapiens Genome (SAFA-HsG)” was developed using R programming-based bioconductor packages and shiny framework. Through the app, preliminary descriptive data analysis on nucleotide frequency, and CpG island, CpG non-island, and CpG island shores and shelves (downstream and upstream) of human reference genome can be carried out, which will help biologists to work on human epigenomics. Table view of these analyses of all chromosomes can be visualized and downloaded by the end users. Similarly, the respective comparative plots can be used for CpG sites comparison. In addition, to introduce the personal genome project, the present study has done a preliminary work on few raw data and are included in the app, which will create interest on personal genome information. The app is hosted on https://SAFA-HsG.shinyapps.io/home/. It is a multi-platform application and can be initiated locally from any computer that has or has not installed R. It is a user-friendly interface, which will allow a biologist, even who has little computer knowledge to access and analyze further.

Keywords

Human genome CpG island Bioconductor Shiny app 

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Copyright information

© International Association of Scientists in the Interdisciplinary Areas 2019

Authors and Affiliations

  1. 1.Department of Computer ScienceVels Institute of Science, Technology and Advanced Studies (VISTAS)ChennaiIndia

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