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Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-3884
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dc.contributor.authorSchaper, Elke-
dc.contributor.authorKorsunsky, Alexander-
dc.contributor.authorPečerska, Jūlija-
dc.contributor.authorMessina, Antonio-
dc.contributor.authorMurri, Riccardo-
dc.contributor.authorStockinger, Heinz-
dc.contributor.authorZoller, Stefan-
dc.contributor.authorXenarios, Ioannis-
dc.contributor.authorAnisimova, Maria-
dc.date.accessioned2018-07-17T14:57:38Z-
dc.date.available2018-07-17T14:57:38Z-
dc.date.issued2015-
dc.identifier.issn1367-4803de_CH
dc.identifier.issn1367-4811de_CH
dc.identifier.urihttps://digitalcollection.zhaw.ch/handle/11475/8265-
dc.descriptionErworben im Rahmen der Schweizer Nationallizenzen (http://www.nationallizenzen.ch)de_CH
dc.description.abstractMotivation: Currently, more than 40 sequence tandem repeat detectors are published, providing heterogeneous, partly complementary, partly conflicting results. Results: We present TRAL, a tandem repeat annotation library that allows running and parsing of various detection outputs, clustering of redundant or overlapping annotations, several statistical frameworks for filtering false positive annotations, and importantly a tandem repeat annotation and refinement module based on circular profile hidden Markov models (cpHMMs). Using TRAL, we evaluated the performance of a multi-step tandem repeat annotation workflow on 547 085 sequences in UniProtKB/Swiss-Prot. The researcher can use these results to predict run-times for specific datasets, and to choose annotation complexity accordingly.de_CH
dc.language.isoende_CH
dc.publisherOxford University Pressde_CH
dc.relation.ispartofBioinformaticsde_CH
dc.rightsLicence according to publishing contractde_CH
dc.subjectMolecular sequencede_CH
dc.subjectProfile hidden Markov modelsde_CH
dc.subjectTandem repeatde_CH
dc.subjectBioinformaticsde_CH
dc.subject.ddc004: Informatikde_CH
dc.subject.ddc572: Biochemiede_CH
dc.titleTRAL : tandem repeat annotation libraryde_CH
dc.typeBeitrag in wissenschaftlicher Zeitschriftde_CH
dcterms.typeTextde_CH
zhaw.departementLife Sciences und Facility Managementde_CH
zhaw.organisationalunitInstitut für Computational Life Sciences (ICLS)de_CH
dc.identifier.doi10.1093/bioinformatics/btv306de_CH
dc.identifier.doi10.21256/zhaw-3884-
zhaw.funding.euNode_CH
zhaw.issue18de_CH
zhaw.originated.zhawYesde_CH
zhaw.pages.end3053de_CH
zhaw.pages.start3051de_CH
zhaw.publication.statuspublishedVersionde_CH
zhaw.volume31de_CH
zhaw.embargo.end2019-01-01de_CH
zhaw.publication.reviewPeer review (Publikation)de_CH
zhaw.webfeedBiomedical String Analysisde_CH
zhaw.webfeedComputational Genomicsde_CH
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Schaper, E., Korsunsky, A., Pečerska, J., Messina, A., Murri, R., Stockinger, H., Zoller, S., Xenarios, I., & Anisimova, M. (2015). TRAL : tandem repeat annotation library. Bioinformatics, 31(18), 3051–3053. https://doi.org/10.1093/bioinformatics/btv306
Schaper, E. et al. (2015) ‘TRAL : tandem repeat annotation library’, Bioinformatics, 31(18), pp. 3051–3053. Available at: https://doi.org/10.1093/bioinformatics/btv306.
E. Schaper et al., “TRAL : tandem repeat annotation library,” Bioinformatics, vol. 31, no. 18, pp. 3051–3053, 2015, doi: 10.1093/bioinformatics/btv306.
SCHAPER, Elke, Alexander KORSUNSKY, Jūlija PEČERSKA, Antonio MESSINA, Riccardo MURRI, Heinz STOCKINGER, Stefan ZOLLER, Ioannis XENARIOS und Maria ANISIMOVA, 2015. TRAL : tandem repeat annotation library. Bioinformatics. 2015. Bd. 31, Nr. 18, S. 3051–3053. DOI 10.1093/bioinformatics/btv306
Schaper, Elke, Alexander Korsunsky, Jūlija Pečerska, Antonio Messina, Riccardo Murri, Heinz Stockinger, Stefan Zoller, Ioannis Xenarios, and Maria Anisimova. 2015. “TRAL : Tandem Repeat Annotation Library.” Bioinformatics 31 (18): 3051–53. https://doi.org/10.1093/bioinformatics/btv306.
Schaper, Elke, et al. “TRAL : Tandem Repeat Annotation Library.” Bioinformatics, vol. 31, no. 18, 2015, pp. 3051–53, https://doi.org/10.1093/bioinformatics/btv306.


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