Nucleosome positioning based on DNA sequence embedding and deep learning.

Journal: BMC genomics
PMID: 35418074

Abstract

BACKGROUND: Nucleosome positioning is the precise determination of the location of nucleosomes on DNA sequence. With the continuous advancement of biotechnology and computer technology, biological data is showing explosive growth. It is of practical significance to develop an efficient nucleosome positioning algorithm. Indeed, convolutional neural networks (CNN) can capture local features in DNA sequences, but ignore the order of bases. While the bidirectional recurrent neural network can make up for CNN's shortcomings in this regard and extract the long-term dependent features of DNA sequence.

Authors

  • Guo-Sheng Han
    Key Laboratory of Intelligent Computing and Information Processing of Ministry of Education and Hunan Key Laboratory for Computation and Simulation in Science and Engineering, Xiangtan University, Xiangtan, China.
  • Qi Li
    The First Affiliated Hospital of Yangtze University, Jingzhou, Hubei, China.
  • Ying Li
    School of Information Engineering, Chang'an University, Xi'an 710010, China.

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