Python package for processing and analyzing Illumina DNA methylation data

MAAPster is a comprehensive tool to perform transcriptome analysis of human or mouse Affymetrix gene expression data

Bioinformatics course project - Fall 2020, analysis of genetic expression omnibus (GEO) data series of Acute Myeloid Leukemia

NormalizeQuantiles.jl implements quantile normalization

Collection of gene expression datasets

PHet: Heterogeneity-Preserving Discriminative Feature Selection for Subtype Discovery

"Identification of Biomarkers for Early-Stage Hepatocellular Carcinoma (HCC)" aims to address the critical global challenge of late-stage cancer diagnosis, which significantly lowers patient survival rates. It explores microarray gene expression datasets from GEO to identify potential early-stage biomarkers for improved patient outcomes.

Acute Myeloid Leukemia Microarray Analysis

Source code and description of GCSscore Package

Scripts using GEOquery package to fetch expression matrices and phenotypic data associated with GSE datasets

An R tool to detect and correct batch-effects in gene-expression data (Microarray and bulk-RNAseq))

Tumor Identification Based on Machine Learning Analysis of Microarray Data

A list of publicly available Microarray Gene Expression datasets with proper attribution and associated toolkits.

Analysis of long continuous stretches of homozygosity of the human genome.

Identification for Key Pathways and Genes in Polycystic Ovary Syndrome (PCOS) using a multi-omics approach, as part of the Applied High Throughput Analysis course at Ghent University

A pipeline to identify new biomarkers with microarray analysis. (AI & Intelligent Medicine, Spring 2022).

This R script is used to analyze microarray data acquired by an Agilent SureScan Microarray Scanner.

WGCNA-based lncRNA module analysis in castration-resistant prostate cancer metastasis (GSE74685).

Nextcast: a software suite to analyse and model toxicogenomics data

Visualization of co-expression networks

Project for the course of Network Based Data Analysis :computer:

A repository of RNA-seq & microarray pipelines, network modeling, and ML-based biomarker validation projects from my 2nd–3rd year undergrad.

This repository contains the code for the project: Transcriptomic meta-analysis reveals up-regulation of gene expression functional in osteoclast differentiation in human septic shock

This repository showcases bioinformatics analysis and visualization results from an independent project for a scientific writing course, utilizing iDEP and a microarray dataset derived from NCBI GEO.

Selection of genes to be cultured and studied on-board for the AcubeSAT nanosatellite project. Microarray data analysis in R. Meta-analysis in R. Literature review and more

This repository focused on the usage of a Microarray pipeline called ArrayAnalysis. It is intended to be viewed from the HTML webpage on a computer.

The Trypanosoma cruzi Antigen and Epitope Atlas: deep characterization of individual antibody specificities in human Chagas Disease patients across the Americas

Selection of genes to be cultured and studied on-board for the AcubeSAT nanosatellite project. Microarray data analysis in R. Meta-analysis in R. Literature review and more

Comprehensive transcriptomic analysis of host response to Plasmodium falciparum infection. This study identifies key immune pathways, differential gene expression patterns, and potential biomarkers associated with malaria pathogenesis.

Data analysis and integration of several transcriptomics studies to uncover genes and co-expression networks associated with the ageing process.