Publication result detail

BenchStab: A tool for automated querying of web-based stability predictors

VELECKÝ, J.; BEREZNÝ, M.; MUSIL, M.; MAZURENKO, S.; BEDNÁŘ, D.; DAMBORSKÝ, J.

Original Title

BenchStab: A tool for automated querying of web-based stability predictors

English Title

BenchStab: A tool for automated querying of web-based stability predictors

Type

WoS Article

Original Abstract

Protein design requires information about how mutations affect protein stability. Many web-based predictors are available for this purpose, yet comparing them or using them en masse is difficult. Here, we present BenchStab, a console tool/Python package for easy and quick execution of 19 predictors and result collection on a list of mutants. Moreover, the tool is easily extensible with additional predictors. We created an independent dataset derived from the FireProtDB and evaluated 24 different prediction methods.

English abstract

Protein design requires information about how mutations affect protein stability. Many web-based predictors are available for this purpose, yet comparing them or using them en masse is difficult. Here, we present BenchStab, a console tool/Python package for easy and quick execution of 19 predictors and result collection on a list of mutants. Moreover, the tool is easily extensible with additional predictors. We created an independent dataset derived from the FireProtDB and evaluated 24 different prediction methods.

Keywords

prediction of stability, protein stability, web-tools, benchmarking

Key words in English

prediction of stability, protein stability, web-tools, benchmarking

Authors

VELECKÝ, J.; BEREZNÝ, M.; MUSIL, M.; MAZURENKO, S.; BEDNÁŘ, D.; DAMBORSKÝ, J.

RIV year

2025

Released

15.09.2024

Publisher

Oxford University Press

ISBN

1367-4803

Periodical

BIOINFORMATICS

Volume

40

Number

9

State

United Kingdom of Great Britain and Northern Ireland

Pages from

1

Pages to

8

Pages count

8

URL

https://academic.oup.com/bioinformatics/article/40/9/btae553/7755040

Full text in the Digital Library

http://hdl.handle.net/11012/252347

BibTex

@article{BUT189729,
  author="Jan {Velecký} and Matej {Berezný} and Miloš {Musil} and Jiří {Damborský} and David {Bednář} and Stanislav {Mazurenko}",
  title="BenchStab: A tool for automated querying of web-based stability predictors",
  journal="BIOINFORMATICS",
  year="2024",
  volume="40",
  number="9",
  pages="1--8",
  doi="10.1093/bioinformatics/btae553",
  issn="1367-4803",
  url="https://academic.oup.com/bioinformatics/article/40/9/btae553/7755040"
}

Documents

btae553