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plantDARIO specifications

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Unique identifier OMICS_17994
Name plantDARIO
Interface Application programming interface
Restrictions to use None
Input data A list of sequencing read positions.
Input format BAM, BED
Output format BED
Programming languages Python, R
Computer skills Advanced
Stability Stable
Maintained Yes

Maintainer


  • person_outline Peter F. Stadler <>

Publication for plantDARIO

plantDARIO citation

library_books

Phylogenetic distribution of plant snoRNA families

2016
PMCID: 5122169
PMID: 27881081
DOI: 10.1186/s12864-016-3301-2

[…] sequences of the 24 plant and red algae species are downloaded from the silva database []. the snrnas comprising of u1, u2, u4, u4atac, u5, u6, u6atac, u11, and u12 are imported from datasets of the plantdario webserver []., from the initial set of collected snornas, the box motifs are annotated and categorized into box c/d and box h/aca snornas. the characteristic boxes (c, d’, c’, d, h, aca) […]


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plantDARIO institution(s)
Institut für Informatik, Martin-Luther-Universität Halle-Wittenberg, Halle (Saale), Germany; Bioinformatics Group, Department of Computer Science, Interdisciplinary Center for Bioinformatics, University Leipzig, Leipzig, Germany; ecSeq Bioinformatics, Leipzig, Germany; Institut für Pysikalische Biologie, Heinrich-Heine-Universität, Düsseldorf, Germany; German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leipzig, Germany; Max Planck Institute for Mathematics in the Sciences, Leipzig, Germany; Fraunhofer Institute for Cell Therapy and Immunology, Leipzig, Germany; Department of Theoretical Chemistry of the University of Vienna, Vienna, Austria; Center for RNA in Technology and Health, University of Copenhagen, Frederiksberg, Denmark; Santa Fe Institute, Santa Fe, NM, USA
plantDARIO funding source(s)
Supported by Deutsche Forschungsgemeinschaft (grant no. GR 3526/2 and JU 205/19).

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