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CANTATAdb specifications

Information


Unique identifier OMICS_11197
Name CANTATAdb
Restrictions to use None
Database management system MySQL
Data access File download, Browse
Maintained Yes

Maintainer


  • person_outline Michał Szczesniak

Publication for CANTATAdb

CANTATAdb citations

 (3)
library_books

Regulation of Long Noncoding RNAs Responsive to Phytoplasma Infection in Paulownia tomentosa

2018
Int J Genomics
PMCID: 5841072
PMID: 29675420
DOI: 10.1155/2018/3174352

[…] ia to discover conserved lncRNAs in the lncRNA database CANTATAdb (http://yeti.amu.edu.pl/CANTATA/): (i) all the lncRNA sequences identified in this study were aligned against the lncRNA sequences in CANTATAdb using BLASTN with a cutoff E value < 1E − 5 and (ii) lncRNA sequence identity to lncRNA sequences in other plant genomes was >20% []. In addition, lncRNAs that may act as the miRNAs precurso […]

library_books

Non coding RNAs and Their Roles in Stress Response in Plants

2017
PMCID: 5673675
PMID: 29017967
DOI: 10.1016/j.gpb.2017.01.007

[…] based database of plant lncRNAs, in which lncRNAs from 37 plant species were annotated, whereas PLNlncRbase collects all experimentally-identified lncRNAs in 43 plant species. In addition, PNRD and CANTATAdb are the two largest plant lncRNAs databases. PNRD includes lncRNA sequences of mainly four plant species, including Arabidopsis, rice, poplar, and maize, while the recently-released CANTATA […]

library_books

Alternative splicing shapes transcriptome but not proteome diversity in Physcomitrella patens

2017
Sci Rep
PMCID: 5457400
PMID: 28578384
DOI: 10.1038/s41598-017-02970-z

[…] To identify lncRNA candidates, a modified CANTATAdb pipeline was used. All supposed transcripts from the Cuffmerge assembly with class_code=‘u’, ‘x’, or ‘s’ were selected. Sequences of putative lncRNAs and mRNAs were excised from the genome w […]

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CANTATAdb institution(s)
Department of Bioinformatics, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznan, Poznan, Poland
CANTATAdb funding source(s)
This work was supported by the National Science Centre [grant No. 2014/15/D/NZ2/00525]; the Foundation for Polish Science [a START Scholarship grant editions 2014/2015 and 2015/2016]; the KNOW Poznan RNA Centre [grant No. 01/KNOW2/2014].

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