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.

Mendelian Randomization with Biomarker Associations for Causality with Outcomes

A comprehensive R package for label-free proteomics data analysis and modeling

Profile RNA-seq data using published TB gene signatures

Omics BioAnalytics - RShiny web app for bioinformatics analyses

This package contains a Rshiny webtool developed to allow the calculation of the metabolic predictors developed by the groups of MOLEPI and LCBC (LUMC), from raw Nightingale Health 1H-NMR metabolomics data.

R package BioPred

Incidence Estimation Tools

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

Univariate conditional average treatment effect estimation for predictive biomarker discovery

Code for analysis of metabolomics data for DMD natural history study

R Code and website for Longitudinal Fecal Calprotectin Profiles Characterize Disease Course Heterogeneity in Crohn’s Disease by Constantine-Cooke et al.

Source code for "Overexpression of CRNDE in glioblastoma is a poor survival prognosis biomarker" paper

Code and data to support doi:10.1136/jitc-2020-001506

🔎 Web-based Tool for Interacting with FOBI Ontology

GENEPARK is a large study that aimed for finding blood-based biomarkers Parkinson's disease. Here we provide the R code for reproducing the main results of the project.

Fit Poolwise Regression Models

Gene Polymorphisms Among Plasmodium vivax Geographical Isolates and the Potential as New Biomarkers for Gametocyte Detection

Predicting eczema severity with biomarkers using a Bayesian state-space model

R package for cleaning biomarker test results in EHR (especially CPRD Aurum)