CpG Clusters in Genes - http://epmb.berkeley.edu/vfs/PIs/Zilberman-D/web/CurBio2005.pdf Find information in this Current Biology article on the DNA methylation profiling identification of CpG methylation clusters in Arabidopsis genes. - [Read more]

CpG Dinucleotide Distribution - http://www.genome.ad.jp/manuscripts/GIW96/Poster/GIW96P11.pdf Find information in this article of on the CpG dinucleotide distribution and DNA methylation. Includes calculations on the ratios and densities, as well as many other statistical measures, used when studying CpG dinucleotides. - [Read more]

Dragon Promoter Finder - http://research.i2r.a-star.edu.sg/promoter/promoter1_5/DPF.htm Program finds promoters and promoter relevant sequences within any set of sequence. - [Read more]

EMBOSS CpGPlot CpGReport - http://www.ebi.ac.uk/emboss/cpgplot/ CpG Plot is a program that plots CpG rich areas, and CpG Report reports all CpG rich regions. - [Read more]

FirstEF: first-exon and promoter prediction program for human DNA - http://rulai.cshl.edu/tools/FirstEF/ First-exon and promoter prediction program for human DNA, identifies promoters and CpG island rich areas. - [Read more]

McPromoter 006 -- The Markov Chain Promoter Prediction Server - http://tools.genome.duke.edu/generegulation/McPromoter/ McPromoter is a program aiming at the exact localization of eukaryotic RNA polymerase II transcription start sites. We currently actively develop specific models designed for D. melanogaster DNA. This service is free for non-commercial use and restricted to sequences up to 20 kb. - [Read more]

Neural Network Promoter Prediction - http://www.fruitfly.org/seq_tools/promoter.html Allows analysis of DNA sequences to find possible transcription promoters. - [Read more]

Promoter 2.0 Prediction Server - http://www.cbs.dtu.dk/services/Promoter/ Promoter2.0 predicts transcription start sites of vertebrate PolII promoters in DNA sequences. It has been developed as an evolution of simulated transcription factors that interact with sequences in promoter regions. It builds on principles that are common to neural networks and genetic algorithms. - [Read more]