Overview of data preprocessing for machine learning applications in human microbiome research

E Ibrahimi, MB Lopes, X Dhamo, A Simeon… - Frontiers in …, 2023 - frontiersin.org
Although metagenomic sequencing is now the preferred technique to study microbiome-host
interactions, analyzing and interpreting microbiome sequencing data presents challenges …

Parallel‐Meta Suite: Interactive and rapid microbiome data analysis on multiple platforms

Y Chen, J Li, Y Zhang, M Zhang, Z Sun, G Jing… - IMeta, 2022 - Wiley Online Library
Massive microbiome sequencing data has been generated, which elucidates associations
between microbes and their environmental phenotypes such as host health or ecosystem …

The gut microbiome associates with phenotypic manifestations of post-acute COVID-19 syndrome

Q Su, RI Lau, Q Liu, MKT Li, JWY Mak, W Lu, ISF Lau… - Cell Host & Microbe, 2024 - cell.com
The mechanisms underlying the many phenotypic manifestations of post-acute COVID-19
syndrome (PACS) are poorly understood. Herein, we characterized the gut microbiome in …

The diagnostic potential and barriers of microbiome based therapeutics

A Acharjee, U Singh, SP Choudhury, GV Gkoutos - Diagnosis, 2022 - degruyter.com
High throughput technological innovations in the past decade have accelerated research
into the trillions of commensal microbes in the gut. The 'omics' technologies used for …

Comprehensive assessment of 16S rRNA gene amplicon sequencing for microbiome profiling across multiple habitats

W Zhang, X Fan, H Shi, J Li, M Zhang… - Microbiology …, 2023 - Am Soc Microbiol
The 16S rRNA gene works as a rapid and effective marker for the identification of
microorganisms in complex communities; hence, a huge number of microbiomes have been …

Host‐Variable‐Embedding Augmented Microbiome‐Based Simultaneous Detection of Multiple Diseases by Deep Learning

S Wu, Z Li, Y Chen, M Zhang, Y Sun… - Advanced Intelligent …, 2023 - Wiley Online Library
Microbiome has emerged as a promising indicator or predictor of human diseases.
However, previous studies have typically labeled each specimen as either healthy or with a …

Artificial Intelligence for Microbiology and Microbiome Research

XW Wang, T Wang, YY Liu - arXiv preprint arXiv:2411.01098, 2024 - arxiv.org
Advancements in artificial intelligence (AI) have transformed many scientific fields, with
microbiology and microbiome research now experiencing significant breakthroughs through …

Toward Multilabel Classification for Multiple Disease Prediction Using Gut Microbiota Profiles

ZA Huang, P Hu, L Hu, ZH You, KC Tan… - IEEE Transactions on …, 2024 - ieeexplore.ieee.org
Advancements in high-throughput technologies have yielded large-scale human gut
microbiota profiles, sparking considerable interest in exploring the relationship between the …

Differentially Private Multi-Label Learning Is Harder Than You'd Think

A Hannemann, B Friedl… - 2024 IEEE European …, 2024 - ieeexplore.ieee.org
Machine Learning is key in modern data analysis. However, privacy concerns related to
sharing sensitive data often hinder the full potential of Machine Learning. One of the popular …

Relevance under the iceberg: Reasonable prediction for extreme multi-label classification

JY Jiang, WC Chang, J Zhang, CJ Hsieh… - Proceedings of the 45th …, 2022 - dl.acm.org
In the era of big data, eXtreme Multi-label Classification (XMC) has already become one of
the most essential research tasks to deal with enormous label spaces in machine learning …