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SnoReport specifications

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Unique identifier OMICS_06249
Name SnoReport
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for SnoReport

SnoReport citations

 (19)
library_books

The Glaciozyma antarctica genome reveals an array of systems that provide sustained responses towards temperature variations in a persistently cold habitat

2018
PLoS One
PMCID: 5791967
PMID: 29385175
DOI: 10.1371/journal.pone.0189947

[…] sites were compiled and fed into the snoscan program for guide box c/d snorna prediction. hits with scores higher than 20 and in the correct orientation were selected for further analysis. both the snoreport and snoseeker programs were employed to locate potential orphan box c/d snornas. output generated was compared and contrasted by using vlookup function in excel to identify similar hits […]

library_books

An updated human snoRNAome

2016
Nucleic Acids Res
PMCID: 4914119
PMID: 27174936
DOI: 10.1093/nar/gkw386

[…] sufficiently or completely cover the loci., to uncover additional snorna genes that have supporting expression evidence, we first collected predictions of two computational tools, snoseeker () and snoreport (), that have been specifically designed to predict snorna genes. due to the high computational demand of these tools, we restricted the search space to genomic regions that were supported […]

library_books

The non coding RNA composition of the mitotic chromosome by 5′ tag sequencing

2016
Nucleic Acids Res
PMCID: 4889943
PMID: 27016738
DOI: 10.1093/nar/gkw195

[…] performed using unipro ugene (). visualization of the phylogenetic tree was performed using mega ()., a two-stage method was used to identify putative snornas in the novel mcar population: first, snoreport () was used to search for a potential snorna sequence within −20 to +350 b of the 5′ base of a novel tag cluster, and then secondly, for putative cd snornas, we examined within −5 to +25 b […]

library_books

Promoter based identification of novel non coding RNAs reveals the presence of dicistronic snoRNA miRNA genes in Arabidopsis thaliana

2015
BMC Genomics
PMCID: 4660826
PMID: 26607788
DOI: 10.1186/s12864-015-2221-x

[…] coding capability. to maintain stringent parameters for the selection of ncrnas candidates, we excluded these sequences from further analyses., the remaining 121 ncrna candidates were analyzed using snoreport, an algorithm that predicts both c/d and h/aca box snorna/scarnas [], and were subsequently processed with rfam tools [] to detect any rna family signature in the remaining predictions. […]

library_books

Unusual Novel SnoRNA Like RNAs in Drosophila melanogaster

2015
Noncoding RNA
PMCID: 5932544
DOI: 10.3390/ncrna1020139

[…] kept. to alleviate this limitation, we used every position in the d. melanogaster rrnas as a putative methylation site. genomic regions surrounding these initial candidates were re-evaluated with snoreport-1.0 [] using default parameters, to increase the sensitivity of the search. this program is designed to improve the prediction of snornas with non-canonical antisense elements, and thus […]

library_books

Small RNAs in metastatic and non metastatic oral squamous cell carcinoma

2015
BMC Med Genomics
PMCID: 4479233
PMID: 26104160
DOI: 10.1186/s12920-015-0102-4

[…] searches are influenced by nucleotide sequence and the by the length of the sequence. three reads had positive classification only for c/d snorna. considering the reported specificity of snoreport (0.91 for the classification of c/d snornas) and the high scores obtained by the candidates, these sequences were annotated as snornas and were not further analysed.table 3candidate number […]


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SnoReport institution(s)
Institute for Theoretical Chemistry, University of Vienna, Wien, Austria

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