AtRTD specifications

Information


Unique identifier OMICS_18776
Name AtRTD
Alternative name Arabidopsis Thaliana Reference Transcript Dataset
Restrictions to use None
Community driven No
Data access File download
User data submission Not allowed
Version 2
Maintained Yes

Taxon


  • Plants and Fungi
    • Arabidopsis thaliana

Maintainers


  • person_outline John Brown
  • person_outline Maria Kalyna

Publications for Arabidopsis Thaliana Reference Transcript Dataset

AtRTD citation

library_books

Adaptation of iCLIP to plants determines the binding landscape of the clock regulated RNA binding protein AtGRP7

2017
Genome Biol
PMCID: 5663106
PMID: 29084609
DOI: 10.1186/s13059-017-1332-x

[…] remaining reads using barcodeRemoval from PIPE-CLIP []. The resulting reads were mapped to the A. thaliana TAIR10 reference genome with STAR v2.5.2a [] using the additional transcript annotation file atRTD.gff from atRTD, a novel reference transcriptome containing more than 32,500 additional transcript isoforms []. Up to three mismatches were allowed, and only reads mapping uniquely were kept.Puta […]

AtRTD institution(s)
Informatics and Computational Sciences, The James Hutton Institute, Invergowrie, Dundee, UK; Plant Sciences Division, College of Life Sciences, University of Dundee, Invergowrie, Dundee, UK; Max F. Perutz Laboratories, Medical University of Vienna, Vienna, Austria; The Donnelly Centre, University of Toronto, Toronto, ON, Canada; Cell and Molecular Sciences, The James Hutton Institute, Invergowrie, Dundee, UK; Centre for Gene Regulation and Expression, School of Life Sciences, University of Dundee, Dundee, UK; Institute of Plant Sciences Paris Saclay, INRA-CNRS-UEVE, Orsay, France; Institute of Molecular, Cell and Systems Biology, College of Medical, Veterinary and Life Sciences, University of Glasgow, Glasgow, UK; Department of Applied Genetics and Cell Biology, University of Natural Resources and Life Sciences - BOKU, Vienna, Austria
AtRTD funding source(s)
Biotechnology and Biological Sciences Research Council (BBSRC) [BB/K013661/1 and BB/K006568/1; BB/K006835/1]; Scottish Government Rural and Environment Science and Analytical Services division (RESAS); Austrian Science Fund (FWF) [P26333, DK W1207]; LABEX Saclay Plant Sciences; BBSRC EASTBIO PhD studentships; European Alternative Splicing Network of Excellence (EURASNET) [LSHG-CT-2005- 518238] for catalyzing important collaborations.

AtRTD reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review AtRTD