triplet-SVM classifier protocols

View triplet-SVM classifier computational protocol

triplet-SVM classifier statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left miRNA precursor prediction chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

triplet-SVM classifier specifications

Information


Unique identifier OMICS_07326
Name triplet-SVM classifier
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Stability Stable
Requirements
RNAfold, Libsvm
Maintained Yes

Versioning


Add your version

Maintainer


  • person_outline Chenghai Xue <>

Publication for triplet-SVM classifier

triplet-SVM classifier in pipelines

 (2)
2015
PMCID: 4584007
PMID: 26484271
DOI: 10.1016/j.gdata.2015.04.028

[…] and assembled est sequences should not be more than 3. these aligned ests were used as precursors with flanking regions of 50 nucleotides. candidate hairpin forming precursors were filtered out by triplet-svm classifier. filtered precursors were subjected to blastx and rfam search and non-protein coding precursors were finally obtained., potentially stable secondary structures […]

2013
PMCID: 3906146
PMID: 23511197
DOI: 10.4161/psb.23932

[…] wherever available, precursor sequence of 250 nt base pair upstream and downstream to the blast hits were extracted and used for hairpin structure prediction. to predict real mirna precursor, triplet-svm classifier program, which is based on support vector machine was used. this software needs other packages namely rnafold, libsvm. the predicted precursor sequences were used […]


To access a full list of citations, you will need to upgrade to our premium service.

triplet-SVM classifier in publications

 (8)
PMCID: 5390031
PMID: 28450878
DOI: 10.3389/fpls.2017.00567

[…] ests. wherever available, the precursor sequence of 50 ntd upstream and downstream to the blast hits were extracted and used for hairpin structure prediction. to predict real mirna precursor, triplet-svm classifier program () was used. filtered precursors were subjected to blastx and rfam search to remove protein coding sequences and to distinguish between mirna and other rna families […]

PMCID: 4628322
PMID: 26517985
DOI: 10.1186/s12864-015-2071-6

[…] precursor of known mirnas or novel mirnas. novel mirnas were predicted by mireap, and the minimal folding free energy index (mfei) of precursors greater than 0.85 were then predicted by mipred and triplet-svm-classifier. the mirna precursor matched above two conditions were identified as a real one. the stem-loop structures of pre-mirnas were constructed by mfold and selected manually []., […]

PMCID: 4584007
PMID: 26484271
DOI: 10.1016/j.gdata.2015.04.028

[…] perl script and the remaining sequences were used as a reference set., initially, software blast-2.2.14 was used from ncbi genbank. cap3 was used for assembly in the form of contigs and singlets. triplet svm classifier was used to predict potential mirna precursor . these precursor sequences were used for blastx analysis for removing the protein-coding sequences and retained only non-protein […]

PMCID: 4144313
PMID: 25180085
DOI: 10.1155/2014/570176

[…] between mirna and other small rna families such as rrna, snrna, and trna. nonredundant ests sequences were selected with the help of perl program. real mirna precursors were predicted through triplet-svm classifier program based on support vector machine []. this software needs additional packages like rnafold and libsvm. the secondary structure of pre-mirnas was determined using mfold […]

PMCID: 3906146
PMID: 23511197
DOI: 10.4161/psb.23932

[…] wherever available, precursor sequence of 250 nt base pair upstream and downstream to the blast hits were extracted and used for hairpin structure prediction. to predict real mirna precursor, triplet-svm classifier program, which is based on support vector machine was used. this software needs other packages namely rnafold, libsvm. the predicted precursor sequences were used […]


To access a full list of publications, you will need to upgrade to our premium service.

triplet-SVM classifier institution(s)
Laboratory of Complex Systems and Intelligence Science, Institute of Automation, Chinese Academy of Sciences, Beijing, China

triplet-SVM classifier reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review triplet-SVM classifier