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RNAmine specifications


Unique identifier OMICS_08117
Name RNAmine
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability No
Maintained No


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Classification and assessment tools for structural motif discovery algorithms

PMCID: 3698030
PMID: 23902564
DOI: 10.1186/1471-2105-14-S9-S4

[…] node is connected to every other node. after that, a graph technique similar to topological sort is applied to find the best assemblies of stems. finally, the highest ranking motifs are reported., rnamine [] uses graph mining algorithm to discover motifs shared by a subset of different rna sequences. an rna sequence and its secondary structure is represented as a directed labeled graph, called […]


A fast structural multiple alignment method for long RNA sequences

PMCID: 2375124
PMID: 18215258
DOI: 10.1186/1471-2105-9-33

[…] without aligning the whole sequences. for structural motif finding, yao et al. proposed an algorithm based on covariance models (cmfinder) [], and hamada et al. proposed a graph mining approach (rnamine) []., here we propose a method, implemented in mxscarna, for fast multiple alignments of rna sequences. this method extends our previous work in pairwise alignments (scarna) [] to progressive […]

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RNAmine institution(s)
Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology (AIST), Koto-ku, Tokyo, Japan

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