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NetPicoRNA specifications

Information


Unique identifier OMICS_02446
Name NetPicoRNA
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Nikolaj Blom

Publication for NetPicoRNA

NetPicoRNA citations

 (19)
library_books

Novel RNA viruses within plant parasitic cyst nematodes

2018
PLoS One
PMCID: 5839581
PMID: 29509804
DOI: 10.1371/journal.pone.0193881

[…] 0.123 offset value) and selecting conserved domains with similarity to other nyamiviridae []. additionally, putative protease cleavage sites of pcn picorna-like virus (plv) were predicted via the netpicorna 1.0 server (http://www.cbs.dtu.dk/services/netpicorna/) []., a read information represents three pooled biological replicates., b sequence data spans the length of the genome; however, […]

library_books

A novel role of ER stress signal transducer ATF6 in regulating enterovirus A71 viral protein stability

2018
J Biomed Sci
PMCID: 5793394
PMID: 29386036
DOI: 10.1186/s12929-018-0412-x

[…] role in viral protein stability.fig. 2fig. 3, we proposed a scenario in which p90atf6 is beneficial for viral replication, but it undergoes cleavage to generate p45atf6. a prediction algorithm (netpicorna 1.0) revealed several potential picornaviral protease cleavage sites in atf6; thus, we examined the possibility of cleavage by the ev-a71-encoded proteases 2apro and 3cpro. plasmids […]

library_books

Cleavage of osmosensitive transcriptional factor NFAT5 by Coxsackieviral protease 2A promotes viral replication

2017
PLoS Pathog
PMCID: 5738146
PMID: 29220410
DOI: 10.1371/journal.ppat.1006744

[…] negative mutant of nfat5 [, ], implying the potential influence of p70-nfat5 on overall nfat5 activity. therefore, we focused our study on p70-nfat5, the 2a cleavage product. we utilized the program netpicorna 1.0 [] to analyze the whole aa sequence of nfat5 and predicted the peptide bond just before g503 as the top candidate site of 2a cleavage (). interestingly, the predicted 2a recognition […]

library_books

A porcine enterovirus G associated with enteric disease contains a novel papain like cysteine protease

2017
PMCID: 5656790
PMID: 28590234
DOI: 10.1099/jgv.0.000799

[…] (ealfq*gppt) []. to investigate the insertion of the plpro in the texas ev-g stains, a cleavage site analysis was performed by submitting the full-length orf of the texas ev-g strains to the netpicorna 1.0 server [], which predicted two highly probable cleavage sites (0.958/1.0 cleavage scores) flanking the insertion region (. thus, this analysis suggests that the plpro insertion […]

library_books

Identification of a novel bovine enterovirus possessing highly divergent amino acid sequences in capsid protein

2017
BMC Microbiol
PMCID: 5240211
PMID: 28095784
DOI: 10.1186/s12866-016-0923-0

[…] generated by de novo assembly algorithm were analyzed using blastn., hypothetical polyprotein cleavage sites of the viruses were predicted by multiple alignments with other bevs and confirmed by the netpicorna []. nucleotide (nt) sequences or amino acid (aa) sequences were aligned using clustalw. phylogenetic trees were constructed by maximum likelihood (ml) methods on mega5.2.2 []. the mtrev24‚ÄČ+ […]

library_books

Novel Picornavirus Associated with Avian Keratin Disorder in Alaskan Birds

2016
MBio
PMCID: 4958255
PMID: 27460795
DOI: 10.1128/mBio.00874-16

[…] and pigeon mesivirus 1 and 2, respectively. possible cleavage sites of the polyprotein were q/x and e/x (where lowercase x is a nonconserved amino acid) (); these cleavage sites are supported by netpicorna () and by the alignment of the amino acid sequence to those of duck megrivirus and pigeon mesivirus 1 and 2 (ncbi accession numbers yp_009030047, ags15016, and agw95843)., in the p1 […]


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NetPicoRNA institution(s)
Center for Biological Sequence Analysis, Technical University of Denmark, Lyngby, Denmark

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