AptaSim – Virtual SELEX AptaSim :: DESCRIPTION AptaSim is a program, aimed at realistically recreating the selection process during SELEX using error-prone PCR. ::DEVELOPER Teresa Przytycka Research Group :: SCREENSHOTS N/A :: REQUIREMENTS Windows/Linux / MacOsX Java :: DOWNLOAD AptaSim :: MORE INFORMATION
MPBind 2.1 – Predict SELEX-derived Binding Aptamers MPBind 2.1 :: DESCRIPTION MPBind is a meta-motif based statistical framework and pipeline to predict SELEX derived binding aptamers. Briefly, MPBind calculates four kinds of p-values (1-sided) for each motif, representing different features. ::DEVELOPER MPBind team :: SCREENSHOTS N/A :: REQUIREMENTS Linux Python :: DOWNLOAD MPBind :: MORE INFORMATION Citation Bioinformatics. 2014 May 28. pii: btu348. [Epub ahead of print] MPBind: A Meta-Motif Based Statistical Framework and Pipeline to Predict Binding Potential of SELEX-derived Aptamers. Jiang P1, Hou Z1, Propson NE1, Soh HT2, Thomson JA3, Stewart R4.
BEESEM – Binding Energy Estimation on SELEX with Expectation Maximization BEESEM :: DESCRIPTION The BEESEM program is designed for transcription factor binding motif discovery using HT-SELEX data. ::DEVELOPER Stormo Lab in Department of Genetics, Washington University :: SCREENSHOTS N/A :: REQUIREMENTS Linux Python :: DOWNLOAD BEESEM :: MORE INFORMATION Citation Bioinformatics. 2017 Aug 1;33(15):2288-2295. doi: 10.1093/bioinformatics/btx191. BEESEM: estimation of binding energy models using HT-SELEX data. Ruan S, Swamidass SJ, Stormo GD