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Elisa Gomezdelope / ML_PD_metab_transc
MIT LicenseThis repository contains the code for ML analyses performed in Chapter 4 of my PhD thesis "Interpretable Machine Learning on omics data for biomarker discovery in Parkinson's disease". The project consists on performing Parkinson's disease (PD) case-control classification from blood plasma metabolomics measurements at the baseline clinical visit from the LuxPARK cohort, and from whole blood transcriptomics data at baseline as well as dynamic features engineered from a short temporal series of 4 timepoints from the PPMI cohort. The study involves evaluation of different feature selection strategies, The goal was to build and test a collection of ML models and, most interestingly, identify molecular and higher-level functional representations associated with PD diagnosis.
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Mohamed Soudy / ScRNAIMM
GNU General Public License v3.0 or laterUpdated -
Elisa Gomezdelope / GRL_sample_similarity_PD
MIT LicenseGraph representation learning modelling pipeline exploiting sample-similarity networks derived from high-throughput omics profiles to learn PD-specific fingerprints from the spatial distribution of molecular abundance similarities in an end-to-end fashion. The scripts apply the graph representation learning modelling pipeline on sample-similarity networks of transcriptomics and metabolomics data from the PPMI and the LuxPARK cohort, respectively.
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Graph representation learning modelling pipeline exploiting molecular interaction networks of transcriptomics (protein-protein interactions) and metabolomics (metabolite-metabolite interactions) to learn PD-specific fingerprints from the spatial distribution of molecular relationships in an end-to-end fashion. The scripts apply the graph representation learning modelling pipeline on networks of molecular interactions, where transcriptomics and metabolomics data from the PPMI and the LuxPARK cohort, respectively, are projected.
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Gianfranco Frigerio / basic-practice-pages
MIT LicenseBasic practice repository for git trainings
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BDS / Comparison_AD_PD_single-cell
MIT LicenseUpdated -
BDS / Ml Dyskinesia
MIT LicenseUpdated -
LCSB-BioCore / publications / Pavelka 2023-LuxPARK Parkinson Study Baseline
Apache License 2.0Updated -
Basic practice repository for git trainings
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This repository contains the code for statistical analyses performed in Chapter 3 of my thesis "Cross-sectional and longitudinal profiling of PD transcriptomics and metabolomics". The project consists on whole blood transcriptomics and blood plasma metabolomics cross-sectional and longitudinal profiling of Parkinson's disease patients and controls from the PPMI cohort and the LuxPARK cohort respectively, to identify differential molecular and higher-level functional features in PD.
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LCSB / How-to Cards / common
Creative Commons Attribution Share Alike 4.0 InternationalCommon contents for all How-To Cards (preview at https://lcsb.pages.uni.lu/howto/common )
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LCSB / How-to Cards / external
Creative Commons Attribution Share Alike 4.0 InternationalExternally visible Howto Cards (preview at https://lcsb.pages.uni.lu/howto/external )
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LCSB / How-to Cards / template
Apache License 2.0HTML and CSS template for the Howto Cards (preview at https://lcsb.pages.uni.lu/howto/template )
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