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Training high-quality recommendation models requires collecting sensitive user data. The popular privacy-enhancing training method, federated learning (FL), cannot be used practically due to these models’ large embedding tables. This paper introduces FEDORA, a system for training recommendation models with FL. FEDORA allows each user to only download, train, and upload a small subset of the large tables based on their private data, while hiding the access pattern using oblivious memory (ORAM). FEDORA reduces the ORAM’s prohibitive latency and memory overheads by (1) introducing 𝜖-FDP, a formal way to balance the ORAM’s privacy with performance, and (2) placing the large ORAM in a power- and cost-efficient SSD with SSD-friendly optimizations. Additionally, FEDORA is carefully designed to support (3) modern operation modes of FL. FEDORA achieves high model accuracy by using private features during training while achieving, on average, 5× latency and 158× SSD lifetime improvement over the baseline. 

In this paper, we propose a new secure machine learning inference platform assisted by a small dedicated security processor, which will be easier to protect and deploy compared to today's TEEs integrated into high-performance processors. Our platform provides three main advantages over the state-of-the-art: (i) We achieve significant performance improvements compared to state-of-the-art distributed Privacy-Preserving Machine Learning (PPML) protocols, with only a small security processor that is comparable to a discrete security chip such as the Trusted Platform Module (TPM) or on-chip security subsystems in SoCs similar to the Apple enclave processor. In the semi-honest setting with WAN/GPU, our scheme is 4X-63X faster than Falcon (PoPETs'21) and AriaNN (PoPETs'22) and 3.8X-12X more communication efficient. We achieve even higher performance improvements in the malicious setting. (ii) Our platform guarantees security with abort against malicious adversaries under honest majority assumption. (iii) Our technique is not limited by the size of secure memory in a TEE and can support high-capacity modern neural networks like ResNet18 and Transformer. While previous work investigated the use of high-performance TEEs in PPML, this work represents the first to show that even tiny secure hardware with very limited performance can be leveraged to significantly speed-up distributed PPML protocols if the protocol can be carefully designed for lightweight trusted hardware. 

Abstract Language Models (LM) have been extensively utilized for learning DNA sequence patterns and generating synthetic sequences. In this paper, we present a novel approach for the generation of synthetic DNA data using pangenomes in combination with LM. We introduce three innovative pangenome-based tokenization schemes, including two that can decouple from private data, while enhance long DNA sequence generation. Our experimental results demonstrate the superiority of pangenome-based tokenization over classical methods in generating high-utility synthetic DNA sequences, highlighting a promising direction for the public sharing of genomic datasets. 

We created GNQA, a generative pre-trained transformer (GPT) knowledge base driven by a performant retrieval augmented generation (RAG) with a focus on aging, dementia, Alzheimer’s and diabetes. We uploaded a corpus of three thousand peer reviewed publications on these topics into the RAG. To address concerns about inaccurate responses and GPT ‘hallucinations’, we implemented a context provenance tracking mechanism that enables researchers to validate responses against the original material and to get references to the original papers. To assess the effectiveness of contextual information we collected evaluations and feedback from both domain expert users and ‘citizen scientists’ on the relevance of GPT responses. A key innovation of our study is automated evaluation by way of a RAG assessment system (RAGAS). RAGAS combines human expert assessment with AI-driven evaluation to measure the effectiveness of RAG systems. When evaluating the responses to their questions, human respondents give a “thumbs-up” 76% of the time. Meanwhile, RAGAS scores 90% on answer relevance on questions posed by experts. And when GPT-generates questions, RAGAS scores 74% on answer relevance. With RAGAS we created a benchmark that can be used to continuously assess the performance of our knowledge base. Full GNQA functionality is embedded in the freeGeneNetwork.orgweb service, an open-source system containing over 25 years of experimental data on model organisms and human. The code developed for this study is published under a free and open-source software license athttps://git.genenetwork.org/gn-ai/tree/README.md.