umu.sePublications
Change search
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf
Shetti, a simple tool to parse, manipulate and search large datasets of sequences
2015 (English)In: Microbial Genomics, ISSN 2057-5858, Vol. 1, no 5Article in journal (Refereed) Published
Abstract [en]

Parsing and manipulating long and/or multiple protein or gene sequences can be a challenging process for experimental biologists and microbiologists lacking prior knowledge of bioinformatics and programming. Here we present a simple, easy, user-friendly and versatile tool to parse, manipulate and search within large datasets of long and multiple protein or gene sequences. The Shetti tool can be used to search for a sequence, species, protein/gene or pattern/motif. Moreover, it can also be used to construct a universal consensus or molecular signatures for proteins based on their physical characteristics. Shetti is an efficient and fast tool that can deal with large sets of long sequences efficiently. Shetti parses UniProt Knowledgebase and NCBI GenBank flat files and visualizes them as a table.

Place, publisher, year, edition, pages
2015. Vol. 1, no 5
Keyword [en]
consensus pattern, comparative genomics, functional motif/domain, sequence manipulation, protein/gene sequences
National Category
Biochemistry and Molecular Biology Bioinformatics and Systems Biology Microbiology
Research subject
Molecular Biology; Molecular Biotechnology; Microbiology; Genetics
Identifiers
URN: urn:nbn:se:umu:diva-128377DOI: 10.1099/mgen.0.000035OAI: oai:DiVA.org:umu-128377DiVA: diva2:1051761
Available from: 2016-12-02 Created: 2016-12-02 Last updated: 2017-05-02

Open Access in DiVA

No full text

Other links

Publisher's full textFull text

Search in DiVA

By author/editor
Sobhy, Haitham
Biochemistry and Molecular BiologyBioinformatics and Systems BiologyMicrobiology

Search outside of DiVA

GoogleGoogle Scholar

Altmetric score

Total: 38 hits
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf