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Unsupervised learning of multi-omics data in the UK Biobank for disease risk prediction

Repository with additional information and code for the analysis of UK Biobank data, created as part of Chiara Rohrer's MSc thesis.

Link to MOVE framework:

MOVE (Multi-Omics Variational autoEncoder) -- developer-move-2.0

Links to genotype data preprocessing:

Pan UK Biobank SNP selection

Genotype extraction

Dataset overview

Number of features per dataset:

Dataset # Features
metabolomics 170
blood_biochemistry 30
proteomics 2923
urine 4
blood_count 22
infectious_diseases 25
pQTL 3146
physical_measurements 14
genomics 3943

Diagnoses overview

Number of diagnoses per disease in 400'000 individuals:

Disease # Diagnoses
hyperparathyroidism 957
non-hodgkin lymphoma 1549
type 2 diabetes mellitus 18127
type 1 diabetes mellitus 1616
primary hypertension 68786
asthma 6904
anaemia 20107
depression 9859
alzheimers 1223
angina pectoris 9796
heart failure 7418
copd 10317
psoriasis 1595
osteoporosis 6792
renal failure 17493

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