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RNALogo specifications

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Unique identifier OMICS_09352
Name RNALogo
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

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  • person_outline RNAMST

Publication for RNALogo

RNALogo citations

 (4)
library_books

Expression and function of microRNA 9 in the mid hindbrain area of embryonic chick

2018
BMC Dev Biol
PMCID: 5824543
PMID: 29471810
DOI: 10.1186/s12861-017-0159-8

[…] mirbase release 21:june 2014 []. evolutionary relationship of mir-9 sequences was studied with the precursor sequences from vertebrates. the consensus structure of mature mir-9 was obtained using rnalogo []. multiple sequence alignment was performed for mature and precursor sequences using muscle 3.8 (http://www.ebi.ac.uk/tools/msa/muscle/) with default parameter settings. the phylogenetic […]

library_books

The sRNAome mining revealed existence of unique signature small RNAs derived from 5.8SrRNA from Piper nigrum and other plant lineages

2017
Sci Rep
PMCID: 5286533
PMID: 28145468
DOI: 10.1038/srep41052

[…] assessed upstream of the gactct consensus and the length distribution at each upstream nucleotide position were analyzed. the sequence logo of abundant 5′5.8s rrfs (>100 rpm) were generated using rnalogo (rnalogo.mbc.nctu.edu.tw/)., to study the role of rrfs in the rnai pathway, high-throughput sequencing datasets of small rnas were co-immunoprecipitated with ago proteins from arabidopsis […]

library_books

Candidate RNA structures for domain 3 of the foot and mouth disease virus internal ribosome entry site

2012
Nucleic Acids Res
PMCID: 3561949
PMID: 23275533
DOI: 10.1093/nar/gks1302

[…] the overall height of the stack indicates a degree of sequence conservation, the height of each letter within the stack shows a relative frequency at each position. the logos are generated using the rnalogo webserver (). see supplementary figure s1 for the rna sequence logos of the four-way junctions., to tackle multiple consecutive four-way rna junctions, we use a divide-and-conquer approach […]

library_books

A small ribozyme with dual site kinase activity

2012
Nucleic Acids Res
PMCID: 3424543
PMID: 22618879
DOI: 10.1093/nar/gks356

[…] as those used during the selection that gave rise to the k28 parent (). the information content of aligned sequences from 40 isolates derived from this reselection was analyzed using the online rnalogo software () (b; supplementary figure s3). at this mutational density, approximately six mutations are expected to be observed at any given position among the 40 aligned sequences, and regions […]


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RNALogo institution(s)
Department of Computer Science and Information Engineering; Department of Life Science, National Central University, Chung-Li; Institute of Bioinformatics; Department of Biological Science and Technology, National Chiao Tung University, Hsin-Chu, Taiwan

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