Genetic affinities between the ancient Greek colony of Amvrakia and its metropolis [0.03%]
古代希腊殖民地阿姆布拉克与它的母城之间的遗传亲缘关系
Nikolaos Psonis,Eugenia Tabakaki,Despoina Vassou et al.
Nikolaos Psonis et al.
Background: The complex historical phenomenon known as Greek colonization refers to the strategic establishment of new settlements (colonies) from the 8th to the early fourth century BCE. Unlike earlier migrations, this p...
Genetic impacts on within-pair DNA methylation variance in monozygotic twins capture gene-environment interactions and cell-type effects [0.03%]
单卵双胞胎内对DNA甲基化方差的遗传影响揭示基因-环境互作及细胞类型效应
Xiaopu Zhang,Idil Yet,Sergio Villicaña et al.
Xiaopu Zhang et al.
Background: Genetic variants that are associated with phenotypic variability, or variance quantitative trait loci (vQTLs), have been detected for multiple human traits. Gene-environment interactions can lead to differenti...
A reference-free pipeline for detecting shared transposable elements from pan-genomes to retrace their dynamics in a species [0.03%]
无需参考基因组的从头检测泛基因组中重复内容的流水线以追踪物种中共有序列的动态变化
Somia Saidi,Mathieu Blaison,María Del Pilar Rodríguez-Ordóñez et al.
Somia Saidi et al.
Background: The role of transposable elements (TEs) in host adaptation has gained interest in recent years. Individuals of the same species undergo independent TE insertions, providing genetic variability within populatio...
PlasRAG: comprehensive plasmid characterization and retrieval through sequence-text alignment [0.03%]
通过序列-文本比对进行全面的质粒表征和检索
Yongxin Ji,Jiaojiao Guan,Herui Liao et al.
Yongxin Ji et al.
Plasmids play a pivotal role in the emergence of multidrug-resistant and pathogenic bacteria, posing significant clinical challenges. However, the rapidly growing number of unannotated plasmids necessitates comprehensive characterization of...
FungiGuard: identification of plant antifungal peptides with artificial intelligence [0.03%]
基于人工智能的植物抗真菌肽识别方法FungiGuard
Xiang Li,Yitian Fang,You Wu et al.
Xiang Li et al.
Antifungal peptides (AFPs) are crucial for plant defense against biotic stress. Yet, no artificial intelligence tool specifically classifies plant AFPs. To fill this gap, we develop FungiGuard, which integrates Random Forest, Long Short-Ter...
Quantitative proteomics and phosphoproteomics reveal glucocorticoid stimulation of TLR and Rho GTPase signaling in neutrophil-like cells [0.03%]
定量蛋白组学和磷酸化蛋白质组学揭示糖皮质激素对中性粒细胞样细胞TLR和Rho GTP酶信号的刺激作用
Hayoung Cho,Michael L Nielsen,Jesper V Olsen
Hayoung Cho
Background: Glucocorticoids are corticosteroid hormones that are commonly used for treating systemic inflammatory diseases and acute infections. Immunosuppressive effects of glucocorticoids have been studied in many cell ...
UniSyn: a multi-modal framework with knowledge transfer for anti-cancer drug synergy prediction [0.03%]
UniSyn：一种具有知识转移的多模态框架，用于抗癌药物协同作用预测
Yaojia Chen,Yumeng Zhang,Mengting Niu et al.
Yaojia Chen et al.
Drug combinations can improve cancer therapy by boosting efficacy, limiting dose-related toxicity, and delaying resistance. We present UniSyn, an interpretable multi-modal deep learning framework that transfers knowledge from monotherapy re...
SAKURA: a knowledge-guided approach to recovering important, rare signals from single-cell data [0.03%]
SAKURA：一种知识引导的方法，从单细胞数据中恢复重要且稀有的信号
Zhenghao Zhang,Jiamin Chen,Haoran Wu et al.
Zhenghao Zhang et al.
Dimensionality reduction is routinely applied to single-cell transcriptomic data to improve interpretability, remove noise and redundancy, and enable visualization. Most existing methods aim at preserving the most prominent data properties,...
Haplotype-resolved and near telomere-to-telomere assembly of the autotetraploid potato genome [0.03%]
基于单倍体型的自四倍体马铃薯基因组高解析度全端到端完整组装
Pei-Xuan Xiao,Lei Tan,Jianke Dong et al.
Pei-Xuan Xiao et al.
Background: Potato (Solanum tuberosum) breeding is severely hindered by its highly heterozygous autotetraploid genome, where complex allelic interactions impede precise trait selection. Reconstructing complete haplotype-r...
Self-supervised pretraining with NuSPIRe unlocks nuclear morphology-driven insights in spatial omics [0.03%]
基于NuSPIRe的自监督预训练解锁空间组学中的核形态驱动见解
Yuwei Hua,Shiyu Li,Yong Zhang
Yuwei Hua
Nuclear morphology encodes rich phenotypic information critical for understanding cellular states, yet its full potential remains untapped in biomedical analysis. This study introduces NuSPIRe, a self-supervised deep learning model designed...