Dev Punjabi, Yu-Chieh Huang, Laura Holzhauer, Pierre Tremouilhac, Pascal Friederich, Nicole Jung, Stefan Bräse
{"title":"利用神经网络,结合真实世界数据,使用标准参考数据集分析有机分子的红外光谱","authors":"Dev Punjabi, Yu-Chieh Huang, Laura Holzhauer, Pierre Tremouilhac, Pascal Friederich, Nicole Jung, Stefan Bräse","doi":"10.1186/s13321-025-00960-2","DOIUrl":null,"url":null,"abstract":"<div><p>In this study, we propose a neural network- based approach to analyze IR spectra and detect the presence of functional groups. Our neural network architecture is based on the concept of learning split representations. We demonstrate that our method achieves favorable validation performance using the NIST dataset. Furthermore, by incorporating additional data from the open-access research data repository Chemotion, we show that our model improves the classification performance for nitriles and amides. </p><p><b>Scientific contribution</b>: Our method exclusively uses IR data as input for a neural network, making its performance, unlike other well-performing models, independent of additional data types obtained from analytical measurements. Furthermore, our proposed method leverages a deep learning model that outperforms previous approaches, achieving F1 scores above 0.7 to identify 17 functional groups. By incorporating real-world data from various laboratories, we demonstrate how open-access, specialized research data repositories can serve as yet unexplored, valuable benchmark datasets for future machine learning research.</p></div>","PeriodicalId":617,"journal":{"name":"Journal of Cheminformatics","volume":"17 1","pages":""},"PeriodicalIF":5.7000,"publicationDate":"2025-02-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-025-00960-2","citationCount":"0","resultStr":"{\"title\":\"Infrared spectrum analysis of organic molecules with neural networks using standard reference data sets in combination with real-world data\",\"authors\":\"Dev Punjabi, Yu-Chieh Huang, Laura Holzhauer, Pierre Tremouilhac, Pascal Friederich, Nicole Jung, Stefan Bräse\",\"doi\":\"10.1186/s13321-025-00960-2\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><p>In this study, we propose a neural network- based approach to analyze IR spectra and detect the presence of functional groups. Our neural network architecture is based on the concept of learning split representations. We demonstrate that our method achieves favorable validation performance using the NIST dataset. Furthermore, by incorporating additional data from the open-access research data repository Chemotion, we show that our model improves the classification performance for nitriles and amides. </p><p><b>Scientific contribution</b>: Our method exclusively uses IR data as input for a neural network, making its performance, unlike other well-performing models, independent of additional data types obtained from analytical measurements. Furthermore, our proposed method leverages a deep learning model that outperforms previous approaches, achieving F1 scores above 0.7 to identify 17 functional groups. By incorporating real-world data from various laboratories, we demonstrate how open-access, specialized research data repositories can serve as yet unexplored, valuable benchmark datasets for future machine learning research.</p></div>\",\"PeriodicalId\":617,\"journal\":{\"name\":\"Journal of Cheminformatics\",\"volume\":\"17 1\",\"pages\":\"\"},\"PeriodicalIF\":5.7000,\"publicationDate\":\"2025-02-26\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://jcheminf.biomedcentral.com/counter/pdf/10.1186/s13321-025-00960-2\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Cheminformatics\",\"FirstCategoryId\":\"92\",\"ListUrlMain\":\"https://link.springer.com/article/10.1186/s13321-025-00960-2\",\"RegionNum\":2,\"RegionCategory\":\"化学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q1\",\"JCRName\":\"CHEMISTRY, MULTIDISCIPLINARY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Cheminformatics","FirstCategoryId":"92","ListUrlMain":"https://link.springer.com/article/10.1186/s13321-025-00960-2","RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"CHEMISTRY, MULTIDISCIPLINARY","Score":null,"Total":0}
Infrared spectrum analysis of organic molecules with neural networks using standard reference data sets in combination with real-world data
In this study, we propose a neural network- based approach to analyze IR spectra and detect the presence of functional groups. Our neural network architecture is based on the concept of learning split representations. We demonstrate that our method achieves favorable validation performance using the NIST dataset. Furthermore, by incorporating additional data from the open-access research data repository Chemotion, we show that our model improves the classification performance for nitriles and amides.
Scientific contribution: Our method exclusively uses IR data as input for a neural network, making its performance, unlike other well-performing models, independent of additional data types obtained from analytical measurements. Furthermore, our proposed method leverages a deep learning model that outperforms previous approaches, achieving F1 scores above 0.7 to identify 17 functional groups. By incorporating real-world data from various laboratories, we demonstrate how open-access, specialized research data repositories can serve as yet unexplored, valuable benchmark datasets for future machine learning research.
期刊介绍:
Journal of Cheminformatics is an open access journal publishing original peer-reviewed research in all aspects of cheminformatics and molecular modelling.
Coverage includes, but is not limited to:
chemical information systems, software and databases, and molecular modelling,
chemical structure representations and their use in structure, substructure, and similarity searching of chemical substance and chemical reaction databases,
computer and molecular graphics, computer-aided molecular design, expert systems, QSAR, and data mining techniques.