Curated List of Biomarkers, Blood Tests, and Blood Tracking

R package for microbiome biomarker discovery

Learn interpretable computational phenotyping models from k-merized genomic data

🧪 🖥 Transparent exploration of machine learning for biomarker discovery from proteomics and omics data

OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic tool development from high-throughput high-throughput omics experiments and other multidimensional datasets. Initially developed for miRNA-seq, RNA-seq and qPCR.

Histomic Prognostic Signature (HiPS): A population-level computational histologic signature for invasive breast cancer prognosis

TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020

Spatial Multiomics Profiler for Spatial Characterization of Tissue Microenvironment (https://smprofiler.io)

Single cell analysis using Low Resource

Cartography of Genomic Interactions Enables Deep Analysis of Single-Cell Expression Data (Nature Communications, 2023)

Predictive Biomarker Modeling Framework (PBMF)

A user-friendly R pipeline for biomarker discovery in single-cell transcriptomics

👀 An all-purpose eye tracking web application and API for Alzheimer's disease research (3 tasks, <3 mins). 1st place in the 2021 CNT hackathon https://www.cnthackathon.org/

Investigating the reproducibility of federated GNN models

Python implementation of the feature relevance interval (FRI) algorithm

In this module, you will learn how to use a Docker container to analyze amplicon sequencing metagenomics data with common tools such as qiime2 and PICRUSt2

Multimodal Context-Aware Detection of Glioma Biomarkers using MRI and WSI

Code implementation of SHRED variants

CimpleG, an R package to find (small) CpG signatures.