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|Alternative name||Transfer RNA database|
|Restrictions to use||None|
Publication for Transfer RNA database
Dynamics of tRNA fragments and their targets in aging mammalian brain
[…] nalysis. We collapsed and mapped the reads to the rat genome (rn6, http://hgdownload.soe.ucsc.edu/goldenPath/rn6/bigZips/), and also to the union of rat tRNAs from two independent databases ( http://gtrnadb.ucsc.edu and http://trnadb.bioinf.uni-leipzig.de, also including mitochondrial tRNA genes from the latter) using Bowtie (version 1.1.1, released on 10/1/2014, http://bowtie-bio.sourceforge.net/ […]
Novel Centromeric Loci of the Wine and Beer Yeast Dekkera bruxellensis CEN1 and CEN2
[…] y GIRI (Genetic Information Research Institute, http://www.girinst.org) and EMBOSS explorer (http://emboss.bioinformatics.nl/cgi-bin/emboss/palindrome). We searched for the tRNA gene sequences in the transfer RNA database (http://trna.bioinf.uni-leipzig.de/DataOutput/Search).To determine the frequency of appearance, the sequences of cloned centromeres were searched against the assembled scaffolds […]
Comprehensive analysis of differentially expressed genes and transcriptional regulation induced by salt stress in two contrasting cotton genotypes
[…] and adapter sequences from the Solexa sequencing reads, unique sequences of 17–35 nt were used for further analysis. First, the unique sequences were queried against ribosomal and transfer RNAs from tRNAdb (http://trna.bioinf.uni-leipzig.de/DataOutput/Search), SILVArRNA (http://www.arb-silva.de/), and NONCODE v3.0 (http://www.noncode.org/NONCODERv3/; plant database only, single-nt mismatches allo […]
Analysis of the melon (Cucumis melo) small RNAome by high throughput pyrosequencing
[…] sition were considered. Known sRNAs were identified by searching public databases using BLAST version 2.2.19  and allowing up to two mismatches. The following databases and sequences were searched: Transfer RNA Database (version 2009) , Plant Small Nucleolar RNA Database (v1.2) , SILVA (ribosomal RNA database, v100) , The Arabidopsis Small RNA Project (ASRP) Database , Rfam Database 10.0 […]
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