Integrated Computer Analysis of Genomic Sequencing Data Based on ICGenomics Tool

Yuriy L. Orlov, Anatoly O. Bragin, Roman O. Babenko, Alina E. Dresvyannikova, Sergey S. Kovalev, Igor A. Shaderkin, Nina G. Orlova, Fedor M. Naumenko

Research output: Chapter in Book/Report/Conference proceedingConference contributionResearchpeer-review

Abstract

Fast growth of sequencing data volume demands development of new program systems for processing, storage and analysis of sequencing data. Here we review approaches for data bioinformatics integration using complementary approaches in genomics, proteomics and supercomputer calculations on example of ICGenomics tool. The program complex ICGenomics has been designed previously in Novosibirsk for storage, mining, and analysis of genomic sequences. This tool enables wet-lab biologists to perform high-quality processing of sequencing data in the fields of genomics, biomedicine, and biotechnology. Overall, integrated software tools have to include novel methods of the processing of initial high-throughput sequencing data including gene expression data. Examples of the application areas are: ChIP-seq analysis; functional annotation of gene regulatory regions in nucleotide sequences; prediction of nucleosome positioning; and structural and functional annotation of proteins, including prediction of their allergenicity parameters, as well as estimates of evolution changes in protein families. Applications of the ICGenomics to the analysis of genomic sequences in model genomes are shown. We conclude the presentation by on machine learning methods adaptation in bioinformatics. The ICGenomics tool is available at http://www-bionet.sscc.ru/icgenomics/.

Original languageEnglish
Title of host publicationAdvances in Intelligent Systems, Computer Science and Digital Economics, CSDEIS 2019
EditorsZhengbing Hu, Sergey Petoukhov, Matthew He
PublisherSpringer Gabler
Pages154-164
Number of pages11
ISBN (Print)9783030392154
DOIs
Publication statusPublished - 24 Jan 2020
EventInternational Symposium on Computer Science, Digital Economy and Intelligent Systems, CSDEIS 2019 - Moscow, Russian Federation
Duration: 4 Oct 20196 Oct 2019

Publication series

NameAdvances in Intelligent Systems and Computing
Volume1127 AISC
ISSN (Print)2194-5357
ISSN (Electronic)2194-5365

Conference

ConferenceInternational Symposium on Computer Science, Digital Economy and Intelligent Systems, CSDEIS 2019
CountryRussian Federation
CityMoscow
Period04.10.201906.10.2019

Keywords

  • Biomedicine
  • Biotechnology
  • Genomic sequencing data
  • ICGenomics
  • Integrated computer analysis

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