There are 14 repositories under precision-medicine topic.
Therapeutics Commons (TDC-2): Multimodal Foundation for Therapeutic Science
cBioPortal for Cancer Genomics
Precision Medicine Knowledge Graph (PrimeKG)
High performance data storage for importing, querying and transforming variants.
Extended Joint Models for Longitudinal and Survival Data
TxGNN: Zero-shot prediction of therapeutic use with geometric deep learning and clinician centered design
:package: Non-parametric Causal Effects Based on Modified Treatment Policies :crystal_ball:
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
Deep learning-based tissue compositions and cell-type-specific gene expression analysis with tissue-adaptive autoencoder (TAPE)
Text-mined knowledgebase for drivers, oncogenes and tumor suppressors in cancer
An Artificial Neural Network-based discriminator for validating clinically significant genomic variants
mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data
Methods for subgroup identification / personalized medicine / individualized treatment rules
Initial data release for drug-target interactions of the cancer targetome.
Subclassification of disease states based on the intersection of literature and expression
Services and guidelines for normalizing drug and other therapy terms
Patient 'omics data in OMOP format
TractLearn is a Manifold Learning Toolbox for precision medicine. The first application is for Diffusion-Weighted MRI quantitative analysis.
Algorithms to detect mutational hotspots
Code for paper Multiomics dynamic learning enables personalized diagnosis and prognosis for pan-cancer and cancer-subtypes
Data & Scripts for the Memorial Sloan Kettering Cancer Center's (MSKCC) request for a machine learning algorithm that, using annotated information on genomic variants, automatically classifies genetic variations as either neutral or cancerous.
Services and guidelines for normalizing disease terms
Official repo of the article: Briguglio, W., Moghaddam, P., Yousef, W. A., Traore, I., and Mamun, M. (2021) "Machine Learning in Precision Medicine to Preserve Privacy via Encryption". arXiv Preprint, arXiv:2102.03412.
scCIPHER: Contextual deep learning on single-cell-enriched knowledge graphs in neurological disorders
Open Science Projects at Georgetown-ICBI
A doubly robust precision medicine approach to estimate and validate conditional average treatment effects
Easy to use web interface for biologists to look for genetic variants and understand their deleteriousness using DITTO scores.
Code accompanying the findings in Duran-Ferrer 2020, Nat Cancer. The epiCMIT mitotic clock calculator and a Pan B-cell tumor classifier algorithm are provided.