DeepGraphGO: graph neural network for large-scale, multispecies protein function prediction.

Journal: Bioinformatics (Oxford, England)
Published Date: Jul 12, 2021

Abstract

MOTIVATION: Automated function prediction (AFP) of proteins is a large-scale multi-label classification problem. Two limitations of most network-based methods for AFP are (i) a single model must be trained for each species and (ii) protein sequence information is totally ignored. These limitations cause weaker performance than sequence-based methods. Thus, the challenge is how to develop a powerful network-based method for AFP to overcome these limitations.

Authors

  • Ronghui You
    School of Computer Science and Shanghai Key Lab of Intelligent Information Processing, Fudan University, China; Center for Computational System Biology, ISTBI, Fudan University, Shanghai 200433, China.
  • Shuwei Yao
    School of Computer Science and Shanghai Key Lab of Intelligent Information Processing, Fudan University, Shanghai 200433, China.
  • Hiroshi Mamitsuka
    Bioinformatics Center, Institute of Chemical Research, Kyoto University, Uji, Kyoto, 611 - 0011, Japan.
  • Shanfeng Zhu

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