Publication detail

digIS: automated pipeline for detecting distant, novel insertion sequence elements in prokaryotes

PUTEROVÁ, J. MARTÍNEK, T.

Original Title

digIS: automated pipeline for detecting distant, novel insertion sequence elements in prokaryotes

Type

article in a collection out of WoS and Scopus

Language

English

Original Abstract

Insertion sequences (ISs) are short DNA elements (typically less than 5 kb) and represent the simplest transposable elements. They are widespread in prokaryotes and may occur in high numbers in their genomes. ISs play important role in prokaryotic genome structure and evolution, for example, they can cause large rearrangements in the host genome or gene inactivation. Current ISs annotation tools depend either on existing genome annotations or databases of known IS elements and lack generalization capability resulting in an inability to detect novel IS elements or distant members of individual IS families. Here we introduce a novel approach which tackles these shortcomings based on manually curated pHMMs.

Keywords

insertion sequence, hidden markov models, transposons, mobile genetic elements, transposase

Authors

PUTEROVÁ, J.; MARTÍNEK, T.

Released

11. 10. 2018

Publisher

Brno University of Technology

Location

Brno

ISBN

978-80-214-5679-2

Book

Data & Knowledge 2018

Pages from

1

Pages to

5

Pages count

5

BibTex

@inproceedings{BUT155089,
  author="Janka {Puterová} and Tomáš {Martínek}",
  title="digIS: automated pipeline for detecting distant, novel insertion sequence elements in prokaryotes",
  booktitle="Data & Knowledge 2018",
  year="2018",
  pages="1--5",
  publisher="Brno University of Technology",
  address="Brno",
  isbn="978-80-214-5679-2"
}