Machine-learning-enabled virtual screening for inhibitors of lysine-specific histone demethylase 1

Jiajun Zhou, Shiying Wu, Boon Giin Lee, Tianwei Chen, Ziqi He, Yukun Lei, Bencan Tang, Jonathan D. Hirst

Research output: Journal PublicationArticlepeer-review

2 Citations (Scopus)


A machine learning approach has been applied to virtual screening for lysine specific demethylase 1 (LSD1) inhibitors. LSD1 is an important anti-cancer target. Machine learning models to predict activity were constructed using Morgan molecular fingerprints. The dataset, consisting of 931 molecules with LSD1 inhibition activity, was obtained from the ChEMBL database. An evaluation of several candidate algorithms on the main dataset revealed that the support vector regressor gave the best model, with a coefficient of determination (R2) of 0.703. Virtual screening, using this model, identified five predicted potent inhibitors from the ZINC database comprising more than 300,000 molecules. The virtual screening recovered a known inhibitor, RN1, as well as four compounds where activity against LSD1 had not previously been suggested. Thus, we performed a machine-learning-enabled virtual screening of LSD1 inhibitors using only the structural information of the molecules.

Original languageEnglish
Article number7492
Issue number24
Publication statusPublished - 1 Dec 2021


  • LSD1
  • LSD1 inhibitors
  • Machine learning
  • Virtual screening

ASJC Scopus subject areas

  • Analytical Chemistry
  • Chemistry (miscellaneous)
  • Molecular Medicine
  • Pharmaceutical Science
  • Drug Discovery
  • Physical and Theoretical Chemistry
  • Organic Chemistry


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