Data on Stop Codon Usage in Bacteria and Its Correlation with Release Factor Abundance
type: Dataset
description: We present a comprehensive analysis of stop codon usage in bacteria by analyzing over eight million coding sequences of 4684 bacterial sequences. Using a newly developed program called "stop codon counter," the frequencies of the three classical stop codons TAA, TAG, and TGA were analyzed, and a publicly available stop codon database was built. Datafiles contain: 1) Complete data set of stop codon usage of all analyzed sequences as described in the publication "Comprehensive Analysis of Stop Codon Usage in Bacteria and Its Correlation with Release Factor Abundance" by Korkmaz et al (2014). 2) The Java program that was used for the analysis of the coding sequences. Execute the file in Program\ProjectStopCodonCounter\dist The dataset was originally published in DiVA and moved to SND in 2024.
alternate name: Comprehensive Analysis of Stop Codon Usage in Bacteria and Its Correlation with Release Factor Abundance
citation: CreativeWork
  name: Korkmaz, G., Holm, M., Wiens, T., & Sanyal, S. (2014). Comprehensive Analysis of Stop Codon Usage in Bacteria and Its Correlation with Release Factor Abundance. Journal of Biological Chemistry, 289(44), 30334–30342. https://doi.org/10.1074/jbc.M114.606632
conditions of access: http://publications.europa.eu/resource/authority/access-right/PUBLIC
conditions of access: info:eu-repo/semantics/openAccess
creative work status: completed
  type: DefinedTerm
  in defined term set: http://publications.europa.eu/resource/authority/dataset-status
  term code: COMPLETED
creator: Gürkan Korkmaz
date modified: 2025-06-26
date published: 2016-12-14
language: English
is part of: https://doi.org/10.57804/sctg-rn66
keywords: Biochemistry
  type: DefinedTerm
  term code: 10408
keywords: Molecular Biology
  type: DefinedTerm
  term code: 10616
keywords: molecular biology
keywords: bacteria
keywords: biochemistry
publisher: Uppsala University
distribution: data/DATASET01.zip
  type: DataDownload
  additional type: data
  conditions of access: http://publications.europa.eu/resource/authority/access-right/PUBLIC
  conditions of access: info:eu-repo/semantics/openAccess
  content size: 77355124
  encoding format: application/zip
distribution: data/SOFTWARE01.zip
  type: DataDownload
  additional type: data
  conditions of access: http://publications.europa.eu/resource/authority/access-right/PUBLIC
  conditions of access: info:eu-repo/semantics/openAccess
  content size: 106760384
  encoding format: application/zip
version: 1

PropertyValue
property ID: DOI
value: 10.57804/83hw-m374

PropertyValue
property ID: URN
value: urn:nbn:se:uu:diva-310359

Gürkan Korkmaz
type: Person
affiliation: Uppsala University
family name: Korkmaz
given name: Gürkan

Uppsala University
type: Organization

English
type: Language
alternate name: eng

molecular biology
type: DefinedTerm
term code: p7549

bacteria
type: DefinedTerm
term code: p1749

biochemistry
type: DefinedTerm
term code: p1375