Machine Learning And Deep Learning Applications In Pathogenic Microbiome Research
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Machine Learning And Deep Learning Applications In Pathogenic Microbiome Research
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Author : Gang Ye
language : en
Publisher: Frontiers Media SA
Release Date : 2024-09-30
Machine Learning And Deep Learning Applications In Pathogenic Microbiome Research written by Gang Ye and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-09-30 with Science categories.
The pathogenic microbiome is the community of microorganisms that live in humans or animals and cause disease. These microorganisms include bacteria, viruses, fungi, protozoa, etc. They usually live in the host's skin, mouth, intestinal tract, genitourinary tract, etc. Normally, there is a state of equilibrium between the host and these microorganisms, but when this equilibrium is disturbed, these microorganisms become the pathogenic microbiome and cause disease. To advance the field of microbiome research, artificial intelligence methods, especially machine learning and deep learning, have recently been used as important tools due to their powerful predictive and informative potential. Classical machine learning algorithms such as linear regression, random forests, support vector machines, etc. perform well on microbiome data. However, as algorithms have been iteratively updated, these models have long been relegated to the basics. Linear regression models are now more often used to interpret these models more intuitively by using the output of other models as input. Deep learning is a branch of machine learning that involves a large number of neural network structures. Deep learning relies on neurons whose role is to transform the input and propagate it forward to the next neuron. Deep learning is currently being used with spectacular success in areas such as image recognition, text processing and automatic translation. As a result, a growing number of researchers are attempting to apply deep learning techniques to biomedical data analysis. Although there are still challenges in practical applications, such as model interpretability, data availability, model evaluation and selection, machine learning and deep learning are very promising tools in pathogenic microbiome research. This Research Topic, therefore, aims to contribute to the latest advances in machine learning, especially deep learning, and to explore new applications of related techniques in pathogenic microbiome research, trying to find relationships between microbiome and human health as well as the environment by studying high-throughput sequencing data of microbes, laying the foundation for further applications for subsequent treatment or forensic identification. We welcome submissions of Original Research, Brief Research Report, Review, Mini-Review, Methods, Perspective and Opinion articles that focus on, but are not limited to, the utilization of machine learning and deep learning to address the following subtopics. 1. Classification and identification of pathogenic microorganisms 2. Virulence prediction of pathogenic microorganisms 3. Antimicrobial resistance prediction of pathogenic microorganisms 4. Population structure and epidemiology of pathogenic microorganisms-related diseases 5. Immunological studies of pathogenic microorganisms 6. Drug target prediction for pathogenic microorganisms-related diseases
Microbiome And Microbial Informatics
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Author : Zheng Zhang
language : en
Publisher: Frontiers Media SA
Release Date : 2022-11-24
Microbiome And Microbial Informatics written by Zheng Zhang and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-11-24 with Science categories.
Pathogens And Environmental Impact On Life Forms
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Author : Ramanathan Sethuraman
language : en
Publisher: Springer Nature
Release Date : 2025-04-21
Pathogens And Environmental Impact On Life Forms written by Ramanathan Sethuraman and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2025-04-21 with Medical categories.
This book underscores the effects of anthropogenic changes on microbes external to us and the consequences of the resultant environmental dysbiosis for our continued health and well-being. Since before the time of our last common ancestor, microbes have been shaping our evolution and our environment, just as we have shaped theirs. This fact has recently gained renewed prominence with wider acknowledgement of the microbiome (part of One Health) and its role in maintenance of human homeostasis. This two-part book titled “Pathogens and Environmental Impact on Life Forms” highlights the fluid dynamics we share with the microbes within us, including both, arguably ‘helpful’ species, and undoubtedly pathogenic ones (pathogen containment, clearance, and optimisation are dwelt on). Prominent examples include indiscriminate industrialisation and urbanisation. Both of these forces, empowered by a culture of consumerism, have led to excessive pollution and several detrimental lifestyle changes, which have culminated in our present obesity crisis and diabetes ‘pandemic’. Finally, this book concludes by emphasising that the way forward for healthcare is not only to be cognizant of the eubiotic microbiome in its diagnoses and treatments, but also to use this tremendous resource to contend with the quickly transforming landscape of infectious diseases.
Artificial Intelligence In Pathogenic Microorganism Research
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Author : Chen Li
language : en
Publisher: Frontiers Media SA
Release Date : 2025-05-26
Artificial Intelligence In Pathogenic Microorganism Research written by Chen Li and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2025-05-26 with Science categories.
Infections caused by pathogenic microorganisms, including bacteria, viruses, fungi, and other eukaryotic microbes, seriously threaten human health. Traditional research methods and laboratory techniques have many limitations and focus more on the identification and classification of pathogenic microorganisms. In recent years, technologies such as whole genome sequencing and advanced bioinformatics analysis have promoted the research of pathogenic microorganisms. However, with the interplay of multiple factors like global climate change, ecological and environmental changes, urbanization, social behavior, and lifestyle changes, pathogenic microorganisms' transmission patterns and impact scope are gradually changing. There is an urgent need for multidimensional technological approaches to achieve epidemiological monitoring and evolutionary direction prediction of pathogenic microorganisms. Additionally, more robust data processing and analysis capabilities are required for rapid identification and diagnosis, monitoring of drug resistance, development of antimicrobial drugs and vaccines, and optimization of treatment plans. Therefore, Artificial Intelligence (AI) has entered our field of vision. In the field of pathogenic microorganisms, AI has shown tremendous potential. In epidemiological research, AI technology can quickly and automatically collect, integrate and analyze the epidemic data of infectious diseases from different regions, so as to predict the trend and scope of disease transmission, and track the source of infection. In the process of diagnosis and treatment of infectious diseases, machine learning can not only analyze the microscopic images of pathogens, but also analyze the genome sequences of multiple pathogens in a short time, and predict their sensitivity or resistance to specific antibiotics, greatly improving the efficiency and accuracy of diagnosis and treatment of infectious diseases. In drug or vaccine development, researchers can use AI models to predict efficient antigens for diseases such as HIV and influenza, and thus design more effective vaccine candidates. AI models can also analyze the interactions between drugs, pathogens, and patients, in order to design the optimal dosing regimen for each patient. In a word, AI can help human beings better deal with infectious diseases. We welcome original reviews, articles, and other contributions in related fields, which mainly include the following aspects: (1) The application of AI in the differential diagnosis of pathogenic microorganisms (2) The application of AI in the formulation of anti-infection treatment plans (3) The application of AI in monitoring and predicting the prevalence of pathogenic microorganisms (4) Application of AI in the prediction and prevention of infectious diseases caused by pathogenic microorganisms (5) The application of AI in the research and development of anti-infective drugs and vaccines
Microbiome And Machine Learning Volume Ii
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Author : Erik Bongcam-Rudloff
language : en
Publisher: Frontiers Media SA
Release Date : 2024-10-24
Microbiome And Machine Learning Volume Ii written by Erik Bongcam-Rudloff and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-10-24 with Science categories.
Due to the success of Microbiome and Machine Learning, which collected research results and perspectives of researchers working in the field of machine learning (ML) applied to the analysis of microbiome data, we are launching the second volume to collate any new findings in the field to further our understanding and encourage the participation of experts worldwide in the discussion. The success of ML algorithms in the field is substantially due to their capacity to process high-dimensional data and deal with uncertainty and noise. However, to maximize the combinatory potential of these emerging fields (microbiome and ML), researchers have to deal with some aspects that are complex and inherently related to microbiome data. Microbiome data are convoluted, noisy and highly variable, and non-standard analytical methodologies are required to unlock their clinical and scientific potential. Therefore, although a wide range of statistical modelling and ML methods are available, their application is only sometimes optimal when dealing with microbiome data.
Computational Intelligence For Genomics Data
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Author : Babita Pandey
language : en
Publisher: Elsevier
Release Date : 2025-01-21
Computational Intelligence For Genomics Data written by Babita Pandey and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 2025-01-21 with Computers categories.
Computational Intelligence for Genomics Data presents an overview of machine learning and deep learning techniques being developed for the analysis of genomic data and the development of disease prediction models. The book focuses on machine and deep learning techniques applied to dimensionality reduction, feature extraction, and expressive gene selection. It includes designs, algorithms, and simulations on MATLAB and Python for larger prediction models and explores the possibilities of software and hardware-based applications and devices for genomic disease prediction. With the inclusion of important case studies and examples, this book will be a helpful resource for researchers, graduate students, and professional engineers. - Provides comparative analysis of machine learning and deep learning methods in the analysis of genomic data, discussing major design challenges, best practices, pitfalls, and research potential - Explores machine and deep learning techniques applied to dimensionality reduction, feature extraction, data selection, and their application in genomics - Presents case studies of various diseases based on gene microarray expression data, including cancer, liver disorders, neuromuscular disorders, and neurodegenerative disorders
Soil Microbiome Of The Cold Habitats
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Author : Puja Gupta
language : en
Publisher: CRC Press
Release Date : 2023-09-28
Soil Microbiome Of The Cold Habitats written by Puja Gupta and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-09-28 with Medical categories.
This book focuses on cold habitat microbes as a potential source of elite enzymes and secondary metabolites to meet the growing demands of the pharmaceutical, food and biotechnological industries. Microbes living in such extremely cold conditions are reported to produce various biomolecules with potential biotechnological applications. The book overviews recent research trends to discover such important biomolecules and also suggests future research directions to discover such elite novel biomolecules. Salient features: Covers studies on various biotic communities and abiotic components of the soil of terrestrial habitats with a focus on cold habitats Discusses various 'Omic' approaches: metagenomics and meta-transcriptomics Lists adaptation strategies adopted by cold-adapted microbes Highlights various biotechnological and industrially important biomolecules produced by cold-adapted microbes Explores the role of microbial biofilm in the degradation of microplastics in cold habitats
Multi Omics Analysis Of The Human Microbiome
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Author : Indra Mani
language : en
Publisher: Springer Nature
Release Date : 2024-05-29
Multi Omics Analysis Of The Human Microbiome written by Indra Mani and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-05-29 with Science categories.
This book introduces the rapidly evolving field of multi-omics in understanding the human microbiome. The book focuses on the technology used to generate multi-omics data, including advances in next-generation sequencing and other high-throughput methods. It also covers the application of artificial intelligence and machine learning algorithms to the analysis of multi-omics data, providing readers with an overview of the powerful computational tools that are driving innovation in this field. The chapter also explores the various bioinformatics databases and tools available for the analysis of multi-omics data. The book also delves into the application of multi-omics technology to the study of microbial diversity, including metagenomics, metatranscriptomics, and metaproteomics. The book also explores the use of these techniques to identify and characterize microbial communities in different environments, from the gut and oral microbiome to the skin microbiome and beyond. Towards theend, it focuses on the use of multi-omics in the study of microbial consortia, including mycology and the viral microbiome. The book also explores the potential of multi-omics to identify genes of biotechnological importance, providing readers with an understanding of the role that this technology could play in advancing biotech research. Finally, the book concludes with a discussion of the clinical applications of multi-omics technology, including its potential to identify disease biomarkers and develop personalized medicine approaches. Overall, this book provides readers with a comprehensive overview of this exciting field, highlighting the potential for multi-omics to transform our understanding of the microbial world.
Microbe Hunting
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Author : Bhagwan Narayan Rekadwad
language : en
Publisher: CRC Press
Release Date : 2024-11-07
Microbe Hunting written by Bhagwan Narayan Rekadwad and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-11-07 with Medical categories.
"Microbe Hunting: Unveiling the Secrets of Microorganisms through Assessment, Sequencing, and Bioinformatics Analysis" embarks on a captivating expedition into the unseen world of microorganisms. This insightful journey navigates the intricate realms of microbial diversity, unwrapping the significance of ecological roles and technological advancements. Through the lens of assessment techniques, the book unveils the art of sample preparation and the transformative power of sequencing technologies, shedding light on the uncharted territories of bioinformatics analysis. From decoding taxonomic landscapes to unearthing functional treasures, this book traverses metagenomics and its benefits for human. With ethical considerations and glimpses into the future, the voyage culminates, offering a profound understanding of the microbial universe and its boundless potential.
Biotechnology Applications In Forestry
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Author : Fred O Asiegbu
language : en
Publisher: Elsevier
Release Date : 2025-01-20
Biotechnology Applications In Forestry written by Fred O Asiegbu and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 2025-01-20 with Nature categories.
Biotechnology Applications in Forestry: Forest Microbiology, Volume Four in the Forest Microbiology series, is a comprehensive exploration of harnessing the unique attributes of the microbes in the forest biome and their tree hosts. The book introduces the basics of genomics, applied bioinformatics and next generation sequencing, providing a firm foundation before moving to specific approach, application and use chapters. Further sections explore opportunities through the use of genetics to expand or improve on many of these positive attributes of forest trees and associated organisms, including adaptation to climate change as well as resilience to biotic and abiotic stressors.Novel techniques and current advances in the application of modern biotechniques in tree health protection, mushroom technology, biological control, biochar, bioenergy, Isolate & strain selection, metabolic engineering and commercial application relevant for forest ecosystem are also addressed. - Outlines novel approaches in the use of fungi or bacteria for biocontrol of insect pests and invasive plant species - Highlights the many functions and uses of forest microbes as biofertilizers, in soil fertility, and in bioremediation, including phytoremediation - Addresses major industrial and biotechnological applications of forest microbes