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 What is CpG_MPs ?
  High-throughput bisulfite sequencing techniques are widely applied to accurately measure cytosine methylation at single-base resolution in eukaryotes. It has been opened a door for systems-level analysis of genome-wide methylation patterns associated with chromatin stability, gene transcription and DNA sequence context.

CpG_MPs, is proposed for identification and analysis of CpG methylation patterns of genomic regions from high-throughput bisulfite sequencing data. It may identify the unmethylated and methylated regions for a single sample, the conserved and differential methylation regions with different methylation patterns for paired or multiple samples. It includes four main modules as follows:

I) Normalization of the sequencing reads of cytosines following guanines;

II) Identification of the unmethylated (methylated) regions using hotspot extension algorithm;

III) Identification of conservatively and differentially methylated regionsby combining the combinatorial algorithm for determination of potentially functional regions with the algorithm of analysis of variance (ANOVA) for assess the statistical significance of differentially methylated regions;

  
  IV) Extraction of sequence features and visualization of these potentially functional regions.
 

CpG_MPs provide a user-friendly tool for experimental researchers and bioinformaticians to systematicly investigate the biological function of genomic methylation patterns.

CpG_MPs is available via Java Web Start.

Authors
 
 Su J, Yan H, Wei Y, Liu H, Liu H, Wang F, Lv J, Wu Q, Zhang Y.
 
Update
4. Saturday, December 14, 2013 at 14:00:32.We release CpG_MPs_v1.1.0. The first version which developed by Perl script. And the results produced by each step can display on UCSC: ".wig" for base resolution methylation from normalization, and ".bed" for methylation pattern region.
3. Thursday, October 18, 2012 at 9:03:01 CpG_MPs makes an adjustment to allow it run correctly on linux.
2. Tuesday, October 25, 2011 at 10:38:21 we update a new version of CpG_MPs.
1. Monday, June 20, 2011 at 14:30:01 CpG_MPs is now available.This release includes support for Java 6. For more information, see the release notes.
 

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College of Bioinformatics Science and Technology, Harbin Medical University, China

(Heilongjiang province : 150086)