Ecole Polytechnique Federale De Lausanne

Sophia Genetics S.a.

Erman Ayday

Jean-Pierre Hubaux

Amalio Telenti

Jean Louis Raisaro

Adam Molyneaux

Zhenyu Xu

Paul McLaren

Jurgi Camblong

Pierre Hutter

Jacques Fellay

Jean-Louis Raisaro

Jacques Rougemont

Urs Hengartner

Mathias Humbert

Jesus Garcia

Huang Lin

Zhicong Huang

Paul J McLaren

A genomic data decoder may jointly compress and encrypt genomic data alignment information while preserving the privacy of sensitive genomic data elements at retrieval stage. Genomic data alignment information organized as a read-based alignment data stream may be transposed into a position-based alignment data stream. The position-based alignment information may been coded into a reference-based alignment data stream. The reference-based alignment data stream may be encrypted with a combination of order-preserving encryption of the genomic position information and symmetric encryption of the reference-based alignment differential data. Differential encoding and entropy coding schemes may further compress the reference-based alignment data stream. The resulting compressed and encrypted stream may be indexed and stored in a biobank storage unit. A genomic data decoder may efficiently retrieve, decrypt and decode a specific subset of the resulting compressed and encrypted stream without leaking information on the other genomic data subsets in the resulting stream.

Methods to compress, encrypt and retrieve genomic alignment data

A method to manage raw genomic data (SAM/BAM files) in a privacy preserving manner in a biobank. By using order preserving encryption of the reads' positions, the method provides a requested range of nucleotides to a medical unit, without revealing the locations of the short reads (which include the requested nucleotides) to the biobank. The method prevents the leakage of extra information in the short reads to the medical unit by masking the encrypted short reads at the biobank. That is, specific parts of the genomic data for which the medical unit is not authorized or the patient prefers to keep secret are masked at the biobank, without revealing any information to the biobank.

Method to manage raw genomic data in a privacy preserving manner in a biobank

In this invention, we propose privacy-enhancing technologies for medical tests and personalized medicine methods, which utilize patients' genomic data. Assuming the whole genome sequencing is done by a certified institution, we propose to store patients' genomic data encrypted by a patient's public keys at a Storage and Processing Unit (SPU). A part of the corresponding private key is also stored on the SPU. At the time of the test by a Medical Unit (MU), the patient provides the second part of the private key to the MU. A test with its associated markers is determined by the MU and sent to the SPU. The test is carried out on the encrypted values thanks to homomorphic operation and returned back to the MU. The latter uses the second part of the private key to access the result.

Privacy-enhancing technologies for medical tests using genomic data

A privacy-preserving method for performing a disease susceptibility test on a patient, said method comprising: The invention is also related to a method for inferring ancestry in the encrypted domain.

Method for privacy-preserving medical risk test

Growing community of inventors

Renens, Switzerland

Erman Ayday