Jun Jie Sim

Jun Jie Sim, Fook Mun Chan, Shibin Chen et al.

One way of investigating how genes affect human traits would be with a genome-wide association study (GWAS). Genetic markers, known as single-nucleotide polymorphism (SNP), are used in GWAS. This raises privacy and security concerns as these genetic markers can be used to identify individuals uniquely. This problem is further exacerbated by a large number of SNPs needed, which produce reliable results at a higher risk of compromising the privacy of participants. We describe a method using homomorphic encryption (HE) to perform GWAS in a secure and private setting. This work is based on a proposed algorithm. Our solution mainly involves homomorphically encrypted matrix operations and suitable approximations that adapts the semi-parallel GWAS algorithm for HE. We leverage the complex space of the CKKS encryption scheme to increase the number of SNPs that can be packed within a ciphertext. We have also developed a cache module that manages ciphertexts, reducing the memory footprint. We have implemented our solution over two HE open source libraries, HEAAN and SEAL. Our best implementation took $24.70$ minutes for a dataset with $245$ samples, over $4$ covariates and $10643$ SNPs. We demonstrate that it is possible to achieve GWAS with homomorphic encryption with suitable approximations.

Ahmad Al Badawi, Jin Chao, Jie Lin et al.

Deep Learning as a Service (DLaaS) stands as a promising solution for cloud-based inference applications. In this setting, the cloud has a pre-learned model whereas the user has samples on which she wants to run the model. The biggest concern with DLaaS is user privacy if the input samples are sensitive data. We provide here an efficient privacy-preserving system by employing high-end technologies such as Fully Homomorphic Encryption (FHE), Convolutional Neural Networks (CNNs) and Graphics Processing Units (GPUs). FHE, with its widely-known feature of computing on encrypted data, empowers a wide range of privacy-concerned applications. This comes at high cost as it requires enormous computing power. In this paper, we show how to accelerate the performance of running CNNs on encrypted data with GPUs. We evaluated two CNNs to classify homomorphically the MNIST and CIFAR-10 datasets. Our solution achieved a sufficient security level (> 80 bit) and reasonable classification accuracy (99%) and (77.55%) for MNIST and CIFAR-10, respectively. In terms of latency, we could classify an image in 5.16 seconds and 304.43 seconds for MNIST and CIFAR-10, respectively. Our system can also classify a batch of images (> 8,000) without extra overhead.