AI Proteomics: Technologies and Their Potential

A special issue of Applied Sciences (ISSN 2076-3417). This special issue belongs to the section "Applied Biosciences and Bioengineering".

Deadline for manuscript submissions: closed (30 April 2022) | Viewed by 3580

Special Issue Editor


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Guest Editor
Department of Life Science and Technology, School of Life Science and Technology, Tokyo Institute of Technology, Meguro-ku, Tokyo 152-8550, Japan
Interests: AI proteomics; social implementation of proteomics; healthcare based on personalized proteomics; commercialization of proteomics in industry; database construction and operation by integrating a wide variety of data including life logs; effective use of biobanks; solving problems in a super-aging societies; solving the problem of high medical costs

Special Issue Information

Dear Colleagues,

Since the dawn of molecular biology, it has been considered that bird’s-eye and comprehensive analysis (proteomics) of gene products (proteins) that change in real time is the ultimate biological diagnosis. However, to date, there has been a limit in manually handling massive and complicated proteomics data. In recent years, though, the capabilities of AI have progressed innovatively, and it has become possible to process proteomics data using AI. Unlike the conventional science of repeating hypothesis construction and its verification, AI is effective in data-driven knowledge discovery in proteomics, which constructs a hypothesis from the obtained data. In that sense, proteomics and AI are very compatible. Thus, although proteomics data have always been a treasure trove of knowledge, there is a high possibility that a lot more of these wonderful treasures will be unearthed by processing proteomics data with AI. In addition, high-speed processing of data by AI is also envisioned for real-time vital diagnosis via real-time analysis of proteomics data that reflects real-time changing vital conditions. What is more, there are great expectations for the practical application of proteomics by AI in all fields dealing with living organisms, not just those limited to humans.

In this Special Issue, we invite submissions exploring cutting-edge research and recent advances in the fields of AI-aided proteomics. Both theoretical and experimental studies are welcome, as well as comprehensive review and survey papers.

Prof. Dr. Nobuhiro Hayashi
Guest Editor

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Keywords

  • Artificial intelligence (AI)
  • Proteomics
  • Diagnosis
  • Healthcare
  • Database
  • Data-driven research

Published Papers (1 paper)

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Research

12 pages, 1708 KiB  
Article
Diagnosis of Sepsis by AI-Aided Proteomics Using 2D Electrophoresis Images of Patient Serum Incorporating Transfer Learning for Deep Neural Networks
by Nobuhiro Hayashi, Yoshihide Sawada, Kei Ujimoto, Syunta Yamaguchi, Yoshikuni Sato, Takahiro Miki, Toru Nakada and Toshiaki Iba
Appl. Sci. 2021, 11(4), 1967; https://doi.org/10.3390/app11041967 - 23 Feb 2021
Cited by 2 | Viewed by 2779
Abstract
An accuracy of ≥98% was achieved in sepsis diagnosis using serum samples from 30 sepsis patients and 68 healthy individuals and a high-performance two-dimensional polyacrylamide gel electrophoresis (HP-2D-PAGE) method developed here with deep learning and transfer learning algorithms. In this method, small-scale target [...] Read more.
An accuracy of ≥98% was achieved in sepsis diagnosis using serum samples from 30 sepsis patients and 68 healthy individuals and a high-performance two-dimensional polyacrylamide gel electrophoresis (HP-2D-PAGE) method developed here with deep learning and transfer learning algorithms. In this method, small-scale target domain data, which are collected to achieve our objective, are inputted directly into a model constructed with source domain data which are collected from a different domain from the target; target vectors are estimated with the outputted target domain data and applied to refine the model. Recognition performance of small-scale data is improved by reusing all layers, including the output layers of the neural network. Proteomics is generally considered the ultimate bio-diagnostic technique and provides extremely high information density in its two-dimensional electrophoresis images, but extracting the data has posed a basic problem. The present study is expected to solve that problem and will be an important breakthrough for practical utilization and future perspectives of proteomics in clinics after evaluation in clinical settings. Full article
(This article belongs to the Special Issue AI Proteomics: Technologies and Their Potential)
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