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CpG island detection software tools | Genome annotation

CpG islands (CGIs) are CG-rich stretches in the genome that are concentrated near the transcription start sites (TSS) of genes. Genes that possess CGIs, such as the housekeeping genes, are often highly expressed in multiple tissues. Indeed, CGIs are…
CpGTLBO
Desktop

CpGTLBO CpG Teaching–Learning-Based Optimization

Provides a method to study the human genome. CpGTLBO is based on the CpGcluster…

Provides a method to study the human genome. CpGTLBO is based on the CpGcluster algorithm that detects the cytosine phosphate guanine (CpG) islands with Gardiner-Garden and Frommer (GGF) criteria.…

CpGProD
Desktop
Web

CpGProD CpG island Promoter Detection

An application for identifying mammalian promoter regions associated with CpG…

An application for identifying mammalian promoter regions associated with CpG islands in large genomic sequences. Although it is strictly dedicated to this particular promoter class corresponding to…

CpGcluster
Desktop
Web

CpGcluster

Uses only integer arithmetic, thus being a fast and computationally efficient…

Uses only integer arithmetic, thus being a fast and computationally efficient algorithm able to predict statistically significant clusters of CpG dinucleotides. Another outstanding feature is that…

newcpgseek
Desktop

newcpgseek

Scores each position in the sequence using a running sum calculated from all…

Scores each position in the sequence using a running sum calculated from all positions in the sequence, starting with the first and ending in the last. newcpgseek identifies in a nucleotide sequence…

cpgplot
Desktop

cpgplot

Identifies and plots CpG islands in nucleotide sequences. cpgplot identifies…

Identifies and plots CpG islands in nucleotide sequences. cpgplot identifies CpG islands in one or more nucleotide sequences. The ratio of observed to expected number of GC dinucleotides patterns is…

newcpgreport
Desktop

newcpgreport

Identifies CpG islands in one or more nucleotide sequences. newcpgreport is an…

Identifies CpG islands in one or more nucleotide sequences. newcpgreport is an Emboss tool. The ratio of observed to expected number of GC dinucleotides patterns is calculated over a window (sequence…

CgiHunter
Desktop

CgiHunter

A software tool for CpG island annotation. Unlike many other heuristic-based…

A software tool for CpG island annotation. Unlike many other heuristic-based approaches, the CgiHunter algorithm has been proven to identify all genome regions that meet a specified criteria and…

CpG_MI
Web

CpG_MI

Allows identification of functional CpG islands (CGIs) in other mammalian…

Allows identification of functional CpG islands (CGIs) in other mammalian genomes. CpG_MI is an online tool that assists in finding of the characteristics of functional CGIs in human genome.

CpGIF
Desktop

CpGIF CpG Island Finder

Allows users to predict CpG islands (CGIs) in DNA sequences. CpGIF aims to…

Allows users to predict CpG islands (CGIs) in DNA sequences. CpGIF aims to locate regions with high CpG density that are next extended and clustered into a final result. The algorithm was compared…

CpGPAP
Web

CpGPAP CpG island Predictor Analysis Platform

A web-based application that provides a user-friendly interface for predicting…

A web-based application that provides a user-friendly interface for predicting CpG islands in genome sequences or in user input sequences. The prediction algorithms supported in CpGPAP include…

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