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snOPY specifications

Information


Unique identifier OMICS_22218
Name snOPY
Alternative name snoRNA Orthological Gene Database
Restrictions to use Academic or non-commercial use
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes

Maintainer


  • person_outline Naoya Kenmochi

Publication for snoRNA Orthological Gene Database

snOPY citations

 (3)
library_books

The circadian dynamics of small nucleolar RNA in the mouse liver

2017
PMCID: 5454292
PMID: 28468917
DOI: 10.1098/rsif.2017.0034

[…] d in TPM using the Kallisto pseudo-alignment technique []. This requires the set of transcripts of interest to be compiled (Ensembl GRCm38) to which we added the 5.8S, 18S and 28S pre-rRNA sequences (snOPY database []). The large proportions of snoRNA and rRNA species, and their variation over the day in nascent sequencing data were unexpected but readily apparent (a). It was evident that mRNA con […]

library_books

Phylogenetic distribution of plant snoRNA families

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

[…] ants) eudicots, we preferrentially included species for which snoRNAs had been described in the literature.We collected all available plant snoRNA sequences from the SnoRNA orthologous gene database (SNOPY []) and the plant snoRNA database []. In addition we extracted snoRNA sequences from the literature [, , –].We considered only the rRNAs/snRNAs as potential targets. Ribosomal RNA sequences of t […]

library_books

Structural and Functional Characterization of Ribosomal Protein Gene Introns in Sponges

2012
PLoS One
PMCID: 3412847
PMID: 22880015
DOI: 10.1371/journal.pone.0042523

[…] A snoRNAs in each of the sponge (). With a more detailed analysis we were able to identified only three snoRNAs in all four sponges that match a sequence motif of known snoRNAs available on Rfam, the snOPY database and/or the snoRNA-LBME database. The first snoRNA is the sponge ortholog of the human C/D box snoRNA SNORD100 (HBII-429) found in the RPS12 gene. We analyzed introns of RPS12 genes in v […]

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snOPY institution(s)
Frontier Science Research Center, University of Miyazaki, Miyazaki, Japan; Hymena & Co, Tokyo, Japan
snOPY funding source(s)
Supported by JSPS KAKENHI Grant Numbers 22370065, 238043, 248045, and 24659476.

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