Publication detail

MHC AND KIR GENOTYPING OF MACAQUES IN HIV INFECTION RESEARCH

MATULA, J.

Original Title

MHC AND KIR GENOTYPING OF MACAQUES IN HIV INFECTION RESEARCH

English Title

MHC AND KIR GENOTYPING OF MACAQUES IN HIV INFECTION RESEARCH

Type

conference paper

Language

Czech

Original Abstract

Modern research of viral diseases relies on genomic data processing. Not only is the sequence of a virus important, genomic sequence of specific receptors in affected organisms also plays an important role. In this paper, a novel package for processing of next generation sequencing data in infectious disease written using R/Bioconductor language is proposed. Functionality of the package, including implementation of advanced SSAHA algorithm for fast database searches, in demonstrated using genotyping of genes for MHC and KIR receptors of HIV positive macaques.

English abstract

Modern research of viral diseases relies on genomic data processing. Not only is the sequence of a virus important, genomic sequence of specific receptors in affected organisms also plays an important role. In this paper, a novel package for processing of next generation sequencing data in infectious disease written using R/Bioconductor language is proposed. Functionality of the package, including implementation of advanced SSAHA algorithm for fast database searches, in demonstrated using genotyping of genes for MHC and KIR receptors of HIV positive macaques.

Keywords

Roche 454, SSAHA, sequencing, demultiplexing, hash table, HIV, genotyping

Key words in English

Roche 454, SSAHA, sequencing, demultiplexing, hash table, HIV, genotyping

Authors

MATULA, J.

Released

27. 4. 2017

ISBN

978-80-214-5496-5

Book

Proceedings of the 23rd Conference STUDENT EEICT 2017

Pages from

27

Pages to

29

Pages count

3

BibTex

@inproceedings{BUT135342,
  author="Jan {Matula}",
  title="MHC AND KIR GENOTYPING OF MACAQUES IN HIV INFECTION RESEARCH",
  booktitle="Proceedings of the 23rd  Conference STUDENT EEICT 2017",
  year="2017",
  pages="27--29",
  isbn="978-80-214-5496-5"
}