David Navarro-Payá,Antonio Santiago,Amandine Velt et al.
David Navarro-Payá et al.
Motivation: Genome annotation files (GFF3/GTF) are the standard for storing genomic feature data, yet their flexibility often results in formatting inconsistencies that create bottlenecks for downstream bioinformatics ana...
BioMedGraphica: An All-in-One Platform for Joint Textual Biomedical Prior Knowledge and Numeric Graph Generation [0.03%]
BioMedGraphica：一个用于联合生成文本生物医学先验知识和数字图的一站式平台
Heming Zhang,Shunning Liang,Tim Xu et al.
Heming Zhang et al.
Motivation: Multi-omics data analysis is essential for scientific discovery in precision medicine. However, translating analysis results of omics data analysis into novel scientific hypotheses remains a significant challe...
A unified multimodal model for generalizable zero-shot and supervised protein function prediction [0.03%]
一种通用的多模态模型，用于零样本和监督蛋白质功能预测
Frimpong Boadu,Yanli Wang,Jianlin Cheng
Frimpong Boadu
Motivation: Predicting protein function is a fundamental and challenging task that requires integrating diverse biological data modalities to capture complex functional relationships. Traditional machine learning methods ...
A computational analysis of the glycoprotein LRP1 structure and the role of glycans as quaternary glue [0.03%]
LRP1糖蛋白结构的计算分析及聚糖作为四级粘合剂的作用
Gian Marco Tuveri,Marco Basile,Silvia Acosta Gutiérrez et al.
Gian Marco Tuveri et al.
Motivation: The low-density lipoprotein receptor-related protein 1 (LRP1) plays a critical role in development and transport across the blood-brain barrier (BBB), yet its molecular architecture has remained unresolved due...
Andreas A Sparre,Ole N Jensen
Andreas A Sparre
Summary: We assess batch correction methods for MALDI mass spectrometry imaging experiments. ComBAT reduced batch-related technical variance, maintained biological variation, and improved the overall score by 19.4%. ...
Predicting Enhancer-Promoter Interactions Using a Stacking-Based Ensemble Strategy [0.03%]
基于堆叠的集成策略预测增强子-启动子相互作用
Zhichao Xiao,Haibo Ji,Quan Zou et al.
Zhichao Xiao et al.
Motivation: Enhancer-promoter interactions (EPIs) are essential for gene regulation and disease progression. Recent studies have shown that distal enhancers can regulate target genes through interactions with nearby promo...
scTACL: A multitask topology-aware contrastive learning approach for single-cell transcriptomics analysis [0.03%]
单细胞转录组学分析的多任务拓扑感知对比学习方法
Murong Zhou,Xin Lu,Yingjian Liang et al.
Murong Zhou et al.
Motivation: The advent of single-cell RNA sequencing (scRNA-seq) technology has allowed researchers to measure gene expression profiles at the single-cell level, providing valuable insights into cellular heterogeneity. Ho...
EPIC: Multi-objective Guided Diffusion for Epitope Design in TCR-pMHC Complexes [0.03%]
基于TCR-pMHC复合物的表位设计的多目标引导扩散方法
Yueshan Huang,Gufeng Yu,Letian Chen et al.
Yueshan Huang et al.
Motivation: T cell receptor (TCR) recognition of peptide-MHC (pMHC) complexes is central to adaptive immunity, yet rational design of immunogenic epitopes remains elusive due to complex triplet binding constraints and dat...
Stanislav Listopad,Gauri Renjith,Qian Peng
Stanislav Listopad
Motivation: Epistasis, or genetic interaction, plays a crucial role in shaping complex traits and has been increasingly recognized for its widespread influence in genetic architectures. While epistasis detection has been ...
Adrien Rougny,Marek Ostaszewski,Venkata Sagatopam;COMMUTE consortium
Adrien Rougny
Motivation: Molecular maps are graphical representations of the molecular mechanisms underlying biological systems. They are a valuable tool for curating, exchanging, and understanding biological knowledge, and may serve ...