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WALTER: an easy way to online evaluate telomere lengths from terminal restriction fragment analysis

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    SYSNO ASEP0542027
    Document TypeJ - Journal Article
    R&D Document TypeJournal Article
    Subsidiary JČlánek ve WOS
    TitleWALTER: an easy way to online evaluate telomere lengths from terminal restriction fragment analysis
    Author(s) Lycka, M. (CZ)
    Peška, Vratislav (BFU-R) RID, ORCID
    Demko, M. (CZ)
    Spyroglou, I. (CZ)
    Kilar, A. (CZ)
    Fajkus, Jiří (BFU-R) RID, ORCID
    Fojtová, M. (CZ)
    Number of authors7
    Article number145
    Source TitleBMC Bioinformatics. - : BioMed Central - ISSN 1471-2105
    Roč. 22, č. 1 (2021)
    Number of pages14 s.
    Publication formPrint - P
    Languageeng - English
    CountryCZ - Czech Republic
    KeywordsTelomere length ; Terminal restriction fragments ; Online toolset
    Subject RIVCE - Biochemistry
    OECD categoryBiochemistry and molecular biology
    R&D ProjectsGA18-07027S GA ČR - Czech Science Foundation (CSF)
    GX20-01331X GA ČR - Czech Science Foundation (CSF)
    EF15_003/0000477 GA MŠk - Ministry of Education, Youth and Sports (MEYS)
    Method of publishingOpen access
    Institutional supportBFU-R - RVO:68081707
    UT WOS000634776700003
    EID SCOPUS85102696153
    DOI10.1186/s12859-021-04064-0
    AnnotationBackgroundTelomeres, nucleoprotein structures comprising short tandem repeats and delimiting the ends of linear eukaryotic chromosomes, play an important role in the maintenance of genome stability. Therefore, the determination of the length of telomeres is of high importance for many studies. Over the last years, new methods for the analysis of the length of telomeres have been developed, including those based on PCR or analysis of NGS data. Despite that, terminal restriction fragment (TRF) method remains the gold standard to this day. However, this method lacks universally accepted and precise tool capable to analyse and statistically evaluate TRF results.ResultsTo standardize the processing of TRF results, we have developed WALTER, an online toolset allowing rapid, reproducible, and user-friendly analysis including statistical evaluation of the data. Given its web-based nature, it provides an easily accessible way to analyse TRF data without any need to install additional software.ConclusionsWALTER represents a major upgrade from currently available tools for the image processing of TRF scans. This toolset enables a rapid, highly reproducible, and user-friendly evaluation of almost any TRF scan including in-house statistical evaluation of the data. WALTER platform together with user manual describing the evaluation of TRF scans in detail and presenting tips and troubleshooting, as well as test data to demo the software are available at https://www.ceitec.eu/chromatin-molecular-complexes-jiri-fajkus/rg51/tab?tabId=125#WALTER and the source code at https://github.com/mlyc93/WALTER.
    WorkplaceInstitute of Biophysics
    ContactJana Poláková, polakova@ibp.cz, Tel.: 541 517 244
    Year of Publishing2022
    Electronic addresshttps://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-021-04064-0
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