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. 2021 Oct 22;13(4):281–301. doi: 10.1007/s13238-021-00885-0

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© The Author(s) 2021

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

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Model comparison and analysis. (A) Performance of the SSGCN models tested on different cell lines compared with that of the model developed by Pabon et al. (B) Effects of the cell lines on target prediction performance. The standard method is the SSGCN model trained on the KD profiles of all 8 cell lines. (C) The correlation between the KD signatures of A549 and MCF7 cells is significantly lower than that between the CP-signatures of these two cell lines. (D) Effects of the compound treatment time on target prediction performance