Protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using MIND-S

Post-translational modifications (PTMs) serve as key regulatory mechanisms in various cellular processes; altered PTMs can potentially lead to human diseases. We present a protocol for using MIND-S (multi-label interpretable deep-learning approach for PTM prediction-structure version), to study PTMs...

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Detalles Bibliográficos
Autores principales: Yan, Yu, Wang, Dean, Xin, Ruiqi, Soriano, Raine A., Ng, Dominic C.M., Wang, Wei, Ping, Peipei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2023
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10694567/
https://www.ncbi.nlm.nih.gov/pubmed/37979178
http://dx.doi.org/10.1016/j.xpro.2023.102682
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author Yan, Yu
Wang, Dean
Xin, Ruiqi
Soriano, Raine A.
Ng, Dominic C.M.
Wang, Wei
Ping, Peipei
author_facet Yan, Yu
Wang, Dean
Xin, Ruiqi
Soriano, Raine A.
Ng, Dominic C.M.
Wang, Wei
Ping, Peipei
author_sort Yan, Yu
collection PubMed
description Post-translational modifications (PTMs) serve as key regulatory mechanisms in various cellular processes; altered PTMs can potentially lead to human diseases. We present a protocol for using MIND-S (multi-label interpretable deep-learning approach for PTM prediction-structure version), to study PTMs. This protocol consists of step-by-step guide and includes three key applications of MIND-S: PTM predictions based on protein sequences, important amino acids identification, and elucidation of altered PTM landscape resulting from molecular mutations. For complete details on the use and execution of this protocol, please refer to Yan et al (2023).(1)
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spelling pubmed-106945672023-12-05 Protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using MIND-S Yan, Yu Wang, Dean Xin, Ruiqi Soriano, Raine A. Ng, Dominic C.M. Wang, Wei Ping, Peipei STAR Protoc Protocol Post-translational modifications (PTMs) serve as key regulatory mechanisms in various cellular processes; altered PTMs can potentially lead to human diseases. We present a protocol for using MIND-S (multi-label interpretable deep-learning approach for PTM prediction-structure version), to study PTMs. This protocol consists of step-by-step guide and includes three key applications of MIND-S: PTM predictions based on protein sequences, important amino acids identification, and elucidation of altered PTM landscape resulting from molecular mutations. For complete details on the use and execution of this protocol, please refer to Yan et al (2023).(1) Elsevier 2023-11-18 /pmc/articles/PMC10694567/ /pubmed/37979178 http://dx.doi.org/10.1016/j.xpro.2023.102682 Text en © 2023 The Authors https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Protocol
Yan, Yu
Wang, Dean
Xin, Ruiqi
Soriano, Raine A.
Ng, Dominic C.M.
Wang, Wei
Ping, Peipei
Protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using MIND-S
title Protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using MIND-S
title_full Protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using MIND-S
title_fullStr Protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using MIND-S
title_full_unstemmed Protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using MIND-S
title_short Protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using MIND-S
title_sort protocol for the prediction, interpretation, and mutation evaluation of post-translational modification using mind-s
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10694567/
https://www.ncbi.nlm.nih.gov/pubmed/37979178
http://dx.doi.org/10.1016/j.xpro.2023.102682
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