TY - GEN
T1 - EpiDiff
T2 - 2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2013
AU - Zhang, Yan
AU - Su, Jangzhong
AU - Yu, Di
AU - Wu, Qiong
AU - Yan, Haidan
PY - 2013
Y1 - 2013
N2 - Genome-wide epigenetic modification dynamics, including DNA methylation and chromatin modification, are involved in biological processes such as development, aging, and disease. Quantitative identification of differential epigenetic modification regions (DEMRs) from various temporal and spatial epigenomes is a crucial step towards investigating the relationship between epigenotype and phenotype. Here, we describe EpiDiff (http://bioinfo.hrbmu.edu. cn/epidiff/), an integrated software platform that supports quantification of epigenetic difference and identification of DEMRs by Shannon entropy. Two main modules, quantitative differential chromatin modification region (QDCMR) and quantitative differentially methylated region (QDMR) are provided for bioinformatic analysis of chromatin modifications and DNA methylation data, respectively. The third module, quantitative differential expressed gene (QDEG), can be used to identify differentially expressed genes. The platform-free and species-free nature of EpiDiff makes it potentially applicable to a wide variety of epigenomes at an unprecedented scale and resolution. The graphical user interface provides biologists with a practicable and reliable way to analyze and visualize epigenetic difference.
AB - Genome-wide epigenetic modification dynamics, including DNA methylation and chromatin modification, are involved in biological processes such as development, aging, and disease. Quantitative identification of differential epigenetic modification regions (DEMRs) from various temporal and spatial epigenomes is a crucial step towards investigating the relationship between epigenotype and phenotype. Here, we describe EpiDiff (http://bioinfo.hrbmu.edu. cn/epidiff/), an integrated software platform that supports quantification of epigenetic difference and identification of DEMRs by Shannon entropy. Two main modules, quantitative differential chromatin modification region (QDCMR) and quantitative differentially methylated region (QDMR) are provided for bioinformatic analysis of chromatin modifications and DNA methylation data, respectively. The third module, quantitative differential expressed gene (QDEG), can be used to identify differentially expressed genes. The platform-free and species-free nature of EpiDiff makes it potentially applicable to a wide variety of epigenomes at an unprecedented scale and resolution. The graphical user interface provides biologists with a practicable and reliable way to analyze and visualize epigenetic difference.
UR - https://www.scopus.com/pages/publications/84886501367
U2 - 10.1109/EMBC.2013.6609585
DO - 10.1109/EMBC.2013.6609585
M3 - 会议稿件
C2 - 24109772
AN - SCOPUS:84886501367
SN - 9781457702167
T3 - Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS
SP - 655
EP - 658
BT - 2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2013
Y2 - 3 July 2013 through 7 July 2013
ER -