Related papers: New algorithmic challenges of adaptive immune repe…

Recent advances in generative artificial intelligence, particularly large language models (LLMs), have opened new opportunities for enhancing recommender systems (RecSys). Most existing LLM-based RecSys approaches operate in a discrete…

Current sequential recommender systems are proposed to tackle the dynamic user preference learning with various neural techniques, such as Transformer and Graph Neural Networks (GNNs). However, inference from the highly sparse user behavior…

Recent advances in high-throughput cDNA sequencing (RNA-Seq) technology have revolutionized transcriptome studies. A major motivation for RNA-Seq is to map the structure of expressed transcripts at nucleotide resolution. With accurate…

Bibliographic reference parsers extract machine-readable metadata such as author names, title, journal, and year from bibliographic reference strings. To extract the metadata, the parsers apply heuristics or machine learning. However, no…

Background: Elucidating gene regulatory networks is crucial for understanding normal cell physiology and complex pathologic phenotypes. Existing computational methods for the genome-wide ``reverse engineering'' of such networks have been…

Our main purpose is to compare classical nonself-centered, two-signal theoretical models of the adaptive immune system with a novel, self-centered, one-signal model developed by our research group. Our model hypothesizes that the immune…

Scoring systems are widely adopted in medical applications for their inherent simplicity and transparency, particularly for classification tasks involving tabular data. In this work, we introduce RegScore, a novel, sparse, and interpretable…

International Classification of Diseases (ICD) is a set of classification codes for medical records. Automated ICD coding, which assigns unique International Classification of Diseases codes with each medical record, is widely used recently…

The process of identifying and characterizing B-cell epitopes, which are the portions of antigens recognized by antibodies, is important for our understanding of the immune system, and for many applications including vaccine development,…

Quantum reservoir computing is a computing approach which aims at utilising the complexity and high-dimensionality of small quantum systems, together with the fast trainability of reservoir computing, in order to solve complex tasks. The…

Deep Learning Recommendation Models (DLRMs) play a crucial role in delivering personalized content across web applications such as social networking and video streaming. However, with improvements in performance, the parameter size of DLRMs…

Adequate read filtering is critical when processing high-throughput data in marker-gene-based studies. Sequencing errors can cause the mis-clustering of otherwise similar reads, artificially increasing the number of retrieved Operational…

The immune response to an acute primary infection is a coupled process of antigen proliferation, molecular recognition by naive B cells, and their subsequent proliferation and antibody shedding. This process contains a fundamental problem:…

Many biological high-throughput data sets, such as targeted amplicon-based and metagenomic sequencing data, are compositional in nature. A common exploratory data analysis task is to infer statistical associations between the…

Genome sequence analysis, which examines the DNA sequences of organisms, drives advances in many critical medical and biotechnological fields. Given its importance and the exponentially growing volumes of genomic sequence data, there are…

Sequence alignments are fundamental to bioinformatics which has resulted in a variety of optimized implementations. Unfortunately, the vast majority of them are hand-tuned and specific to certain architectures and execution models. This not…

Building test collections for Information Retrieval evaluation has traditionally been a resource-intensive and time-consuming task, primarily due to the dependence on manual relevance judgments. While various cost-effective strategies have…

This paper introduces ISAC, an invertible and stable, perceptually-motivated filter bank that is specifically designed to be integrated into machine learning paradigms. More precisely, the center frequencies and bandwidths of the filters…

How to extract meaningful information in user historical behavior plays a crucial role in recommendation. User behavior sequence often contains multiple conceptually distinct items that belong to different item groups and the number of the…

Efficient reproduction of research papers is pivotal to accelerating scientific progress. However, the increasing complexity of proposed methods often renders reproduction a labor-intensive endeavor, necessitating profound domain expertise.…