Machine Learning in Precision Medicine to Preserve Privacy via Encryption
Bibliographic record
Abstract
Precision medicine is an emerging approach for disease treatment and prevention that delivers personalized care to individual patients by considering their genetic makeups, medical histories, environments, and lifestyles. Despite the rapid advancement of precision medicine and its considerable promise, several underlying technological challenges remain unsolved. One such challenge of great importance is the security and privacy of precision health-related data, such as genomic data and electronic health records, which stifle collaboration and hamper the full potential of machine-learning (ML) algorithms. To preserve data privacy while providing ML solutions, this article makes three contributions. First, we propose a generic machine learning with encryption (MLE) framework, which we used to build an ML model that predicts cancer from one of the most recent comprehensive genomics datasets in the field. Second, our framework's prediction accuracy is slightly higher than that of the most recent studies conducted on the same dataset, yet it maintains the privacy of the patients' genomic data. Third, to facilitate the validation, reproduction, and extension of this work, we provide an open-source repository that contains the design and implementation of the framework, all the ML experiments and code, and the final predictive model deployed to a free cloud service.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.008 | 0.018 |
| Meta-epidemiology (narrow) | 0.001 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.001 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.001 | 0.002 |
| Scholarly communication | 0.004 | 0.008 |
| Open science | 0.002 | 0.004 |
| Research integrity | 0.002 | 0.004 |
| Insufficient payload (model declined to judge) | 0.005 | 0.002 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".