AutoDimer 1.0 – Screening Tool for Primer-dimer & Hairpin Structures

AutoDimer 1.0

:: DESCRIPTION

AutoDimer software was developed to rapidly screen previously selected PCR primers for primer-dimer and hairpin interactions in short DNA oligomers (< 30 nucleotides). AutoDimer was originally created to assist in the development of multiplex PCR assays for probing STR and SNP markers for forensic purposes.

::DEVELOPER

Peter M. Vallone

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

AutoDimer

:: MORE INFORMATION

Citation

Vallone, P.M. and Butler, J.M. (2004)
AutoDimer: a screening tool for primer-dimer and hairpin structures.
Biotechniques, 37(2): 226-231.

Triplet-SVM – Predict a query sequence with Hairpin Structure as a real miRNA precursor or not

Triplet-SVM

:: DESCRIPTION

Triplet-SVM is developed for predicting a query sequence with hairpin structure as a real miRNA precursor or not. The triplet-SVM classifier analyzes the triplet elements of the query and predicts it using a SVM classifier. The SVM classifier is previously trained based on the triplet element features of a set of real miRNA precursors and a set of pseudo-miRNA hairpins.

::DEVELOPER

Triplet-SVM team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

  Triplet-SVM

:: MORE INFORMATION

Citation

Chenghai Xue, Fei Li, Tao He, Guoping Liu, Yanda Li, Xuegong Zhang,
Classification of real and pseudo microRNA precursors using local structure-sequence features and support vector machine,
BMC Bioinformatics, 6: 310, 2005

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