DocumentCode :
190995
Title :
A new multi-level thresholding algorithm for finding peaks in ChIP-Seq data
Author :
Rezaeian, Iman ; Rueda, Laura
Author_Institution :
Sch. of Comput. Sci., Univ. of Windsor, Windsor, ON, Canada
fYear :
2014
fDate :
2-4 June 2014
Firstpage :
1
Lastpage :
6
Abstract :
Combination of Chromatin immunoprecipitation (ChIP) and high-throughput sequencing (Seq) is one of the most effective ways for studying the genome-wide binding sites, which helps to understand protein-DNA interactions on a genomic-wide scale. Several algorithms have been proposed to take advantage of ChIP-Seq abilities. However, despite many elaborations, it is still difficult to accurately determine individual peaks corresponding to each binding event. We developed a constrained multi-level thresholding algorithm which has the ability of targeting regions within a user-defined range. We show that out proposed method has higher accuracy in detecting enriched regions by assessing its performance relative to other previously proposed peak finders.
Keywords :
DNA; biochemistry; bioinformatics; genomics; molecular biophysics; precipitation (physical chemistry); proteins; ChIP-Seq data; chromatin immunoprecipitation; constrained multilevel thresholding algorithm; genome-wide binding sites; high-throughput sequencing; protein-DNA interactions; Bioinformatics; Biological cells; DNA; Genomics; Histograms; Proteins; ChIP-Seq data; machine learning; peak detection; thresholding;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Computational Advances in Bio and Medical Sciences (ICCABS), 2014 IEEE 4th International Conference on
Conference_Location :
Miami, FL
Print_ISBN :
978-1-4799-5786-6
Type :
conf
DOI :
10.1109/ICCABS.2014.6863911
Filename :
6863911
Link To Document :
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