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This paper demonstrates the utility of organized numerical representations of genes in research involving flat string gene formats (i.e., FASTA/FASTQ5). FASTA/FASTQ files have several current limitations, such as their large file sizes,…

Genomics · Quantitative Biology 2023-08-11 Daniel H. Um , David A. Knowles , Gail E. Kaiser

Most visual retrieval applications store feature vectors for downstream matching tasks. These vectors, from where user information can be spied out, will cause privacy leakage if not carefully protected. To mitigate privacy risks, current…

Computer Vision and Pattern Recognition · Computer Science 2022-08-02 Qiang Meng , Feng Zhou

Text embeddings are fundamental to many natural language processing (NLP) tasks, extensively applied in domains such as recommendation systems and information retrieval (IR). Traditionally, transmitting embeddings instead of raw text has…

Computation and Language · Computer Science 2025-07-11 Dominykas Seputis , Yongkang Li , Karsten Langerak , Serghei Mihailov

Foundational feed-forward visual geometry models enable accurate and efficient camera pose estimation and scene reconstruction by learning strong scene priors from massive RGB datasets. However, their effectiveness drops when applied to…

Computer Vision and Pattern Recognition · Computer Science 2026-03-20 Vsevolod Skorokhodov , Chenghao Xu , Shuo Sun , Olga Fink , Malcolm Mielle

Multi-vector representations generated by late interaction models, such as ColBERT, enable superior retrieval quality compared to single-vector representations in information retrieval applications. In multi-vector retrieval systems, both…

Information Retrieval · Computer Science 2026-05-22 Elias Jääsaari , Ville Hyvönen , Teemu Roos

The drastic increase in language models' parameters has led to a new trend of deploying models in cloud servers, raising growing concerns about private inference for Transformer-based models. Existing two-party privacy-preserving…

Computation and Language · Computer Science 2023-12-12 Zi Liang , Pinghui Wang , Ruofei Zhang , Nuo Xu , Lifeng Xing , Shuo Zhang

Dense retrieval, which encodes queries and documents into a single dense vector, has become the dominant neural retrieval approach due to its simplicity and compatibility with fast approximate nearest neighbor algorithms. As the tasks dense…

Information Retrieval · Computer Science 2026-02-06 Julian Killingback , Mahta Rafiee , Madine Manas , Hamed Zamani

The privacy leakage of the model about the training data can be bounded in the differential privacy mechanism. However, for meaningful privacy parameters, a differentially private model degrades the utility drastically when the model…

Machine Learning · Computer Science 2021-10-13 Da Yu , Huishuai Zhang , Wei Chen , Tie-Yan Liu

While large code language models have made significant strides in AI-assisted coding tasks, there are growing concerns about privacy challenges. The user code is transparent to the cloud LLM service provider, inducing risks of unauthorized…

Computation and Language · Computer Science 2024-10-10 Yalan Lin , Chengcheng Wan , Yixiong Fang , Xiaodong Gu

Recent advances in large language models have demonstrated remarkable effectiveness in information retrieval (IR) tasks. While many neural IR systems encode queries and documents into single-vector representations, multi-vector models…

Information Retrieval · Computer Science 2023-12-12 Susav Shrestha , Narasimha Reddy , Zongwang Li

The Basic Local Alignment Search Tool (BLAST) is currently the most popular method for searching databases of biological sequences. BLAST compares sequences via similarity defined by a weighted edit distance, which results in it being…

Biomolecules · Quantitative Biology 2020-10-29 Amir Shanehsazzadeh , David Belanger , David Dohan

This paper addresses the privacy and security concerns associated with deep neural language models, which serve as crucial components in various modern AI-based applications. These models are often used after being pre-trained and…

Cryptography and Security · Computer Science 2024-01-01 Abhijit Mishra , Mingda Li , Soham Deo

The rapid development of the autonomous driving industry has led to a significant accumulation of autonomous driving data. Consequently, there comes a growing demand for retrieving data to provide specialized optimization. However, directly…

Computer Vision and Pattern Recognition · Computer Science 2024-06-19 Tao Tang , Dafeng Wei , Zhengyu Jia , Tian Gao , Changwei Cai , Chengkai Hou , Peng Jia , Kun Zhan , Haiyang Sun , Jingchen Fan , Yixing Zhao , Fu Liu , Xiaodan Liang , Xianpeng Lang , Yang Wang

While NLP models significantly impact our lives, there are rising concerns about privacy invasion. Although federated learning enhances privacy, attackers may recover private training data by exploiting model parameters and gradients.…

Artificial Intelligence · Computer Science 2024-10-23 Mengjiao Zhang , Jia Xu

Machine unlearning is increasingly important for clinical language models, where privacy regulations and institutional policies may require removing sensitive information from deployed systems without retraining from scratch. In practice,…

Machine Learning · Computer Science 2026-03-23 Iyad Ait Hou , Shrenik Borad , Harsh Sharma , Pooja Srinivasan , Rebecca Hwa , Aya Zirikly

Image-text matching is an interesting and fascinating task in modern AI research. Despite the evolution of deep-learning-based image and text processing systems, multi-modal matching remains a challenging problem. In this work, we consider…

Computer Vision and Pattern Recognition · Computer Science 2021-01-27 Nicola Messina , Fabrizio Falchi , Andrea Esuli , Giuseppe Amato

The Sparse Vector Technique (SVT) is one of the most fundamental tools in differential privacy (DP). It works as a backbone for adaptive data analysis by answering a sequence of queries on a given dataset, and gleaning useful information in…

Cryptography and Security · Computer Science 2026-05-06 Yuhan Liu , Sheng Wang , Yixuan Liu , Feifei Li , Hong Chen

Large neural models (such as Transformers) achieve state-of-the-art performance for information retrieval (IR). In this paper, we aim to improve distillation methods that pave the way for the resource-efficient deployment of such models in…

Drug repurposing identifies new therapeutic uses for existing drugs, reducing the time and costs compared to traditional de novo drug discovery. Most existing drug repurposing studies using real-world patient data often treat the entire…

Machine Learning · Computer Science 2024-12-31 Seungyeon Lee , Ruoqi Liu , Feixiong Cheng , Ping Zhang

The embedding-based retrieval (EBR) approach is widely used in mainstream search engine retrieval systems and is crucial in recent retrieval-augmented methods for eliminating LLM illusions. However, existing EBR models often face the…

Computation and Language · Computer Science 2024-04-10 Yanan Zhang , Xiaoling Bai , Tianhua Zhou