CoReMicrob: Computational Resources for Micorbiome

Major Tools and Database for Disease diagnosis using Microbiome data

This page provides information regarding Major Tools and Database for Disease diagnosis using Microbiome data along with links to their websites.

Major tools for Disease Diagnosis

Tool Name Description PubMed ID
DeepMicro Deep representation learning for disease prediction based on microbiome data. 32265477
MetAML Metagenomic prediction analysis based on machine learning. 27400279
Ph-CNN Phylogenetic convolutional neural networks in metagenomics. 29536822
PopPhy-CNN A phylogenetic tree-embedded architecture for convolutional neural networks to predict host phenotype from metagenomic data. 32396115
Predomics Interpretable and accurate prediction models for metagenomics data. 32150601
MegaD Deep learning for rapid and accurate disease status prediction of metagenomic samples. 35629336
CRC_analysis Increasing prediction performance of colorectal cancer disease status using random forests classification based on metagenomic shotgun sequencing data. 35155839
MVIB Microbiome-based disease prediction with multimodal variational information bottlenecks. 35404958
MetaDR Human disease prediction from microbiome data by multiple feature fusion and deep learning. 35372808
MEGMA Enhanced metagenomic deep learning for disease prediction and consistent signature recognition by restructured microbiome 2D representations. 36699735
MetaP A permutable MLP-like architecture for disease prediction from gut metagenomic data. 39048979
DeepMPTB A vaginal microbiome-based deep neural network as an artificial intelligence strategy for efficient preterm birth prediction. 38355595
G2S A deep learning tool designed to predict the structure of the human stool microbiome from oral microbiome data, aiding in studies where fecal samples are unavailable. 33897763
Preterm Birth Prediction Model Employs machine learning techniques to analyze oral microbiome compositions in mouthwash samples, predicting the risk of preterm birth. 38036587

Major Curated Databases for Diagnosis Studies

Database Name Description PubMed ID
ML Repo A public repository of microbiome regression and classification tasks. 31042284
GutMDisorder Literature collated disease-associated microbiome changes. 36215029
BugSigDB Manually curated disease signatures from > 600 studies (3 species). 37697152
Disbiome A database covering microbial composition changes in different kinds of diseases. 29866037