CETSA Feature Based Clustering for Protein Outlier Discovery by Protein-to-Protein Interaction Prediction

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CETSA Feature Based Clustering for Protein Outlier Discovery by Protein-to-Protein Interaction Prediction
Title:
CETSA Feature Based Clustering for Protein Outlier Discovery by Protein-to-Protein Interaction Prediction
Journal Title:
2022 44th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC)
Keywords:
Publication Date:
08 September 2022
Citation:
Yang, X., Da, Q., Qian, P., Veeravalli, B., Leong, T. W., Dai, L., Nordlund, P., Prabhu, N., Zhao, Z., & Zeng, Z. (2022). CETSA Feature Based Clustering for Protein Outlier Discovery by Protein-to-Protein Interaction Prediction. 2022 44th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC). https://doi.org/10.1109/embc48229.2022.9871558
Abstract:
The Cellular Thermal Shift Assay (CETSA) is a biophysical assay based on the principle of ligand-induced thermal stabilization of target proteins. This technology has revolutionized cell-based target engagement studies and has been used as guidance for drug design. Although many applications of CETSA data have been explored, the correlations between CETSA data and protein-protein interactions (PPI) have barely been touched. In this study, we conduct the first exploration study applying CETSA data for PPI prediction. We use a machine learning method, Decision Tree, to predict PPI scores using proteins’ CETSA features. It shows promising results that the predicted PPI scores closely match the groundtruth PPI scores. Furthermore, for a small number of protein pairs, whose PPI score predictions mismatch the ground truth, we use iterative clustering strategy to gradually reduce the number of these pairs. At the end of iterative clustering, the remaining protein pairs may have some unusual properties and are of scientific value for further biological investigation. Our study has demonstrated that PPI is a brand-new application of CETSA data. At the same time, it also manifests that CETSA data can be used as a new data source for PPI exploration study.
License type:
Publisher Copyright
Funding Info:
This research / project is supported by the National Research Foundation - Competitive Research Programme
Grant Reference no. : NRF-CRP22-2019-0003
Description:
© 2022 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.
ISSN:
2694-0604
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