Genomic prediction with kinship-based multiple kernel learning produces hypothesis on the underlying inheritance mechanisms of phenotypic traits [0.03%]
基于亲缘关系的多核学习基因组预测产生表型性状潜在遗传机制的假设
Daniele Raimondi,Nora Verplaetse,Antoine Passemiers et al.
Daniele Raimondi et al.
Background: Genomic prediction encompasses the techniques used in agricultural technology to predict the genetic merit of individuals towards valuable phenotypic traits. It is related to Genome Interpretation in humans, w...
Integrative omics analysis reveals the genetic basis of fatty acid composition in Brassica napus seeds [0.03%]
整合组学分析揭示了油菜籽中脂肪酸组成变化的遗传基础
Yuting Zhang,Yunhao Liu,Zhanxiang Zong et al.
Yuting Zhang et al.
Background: The fatty acid content represents a crucial quality trait in Brassica napus or rapeseed. Improvements in fatty acid composition markedly enhance the quality of rapeseed oil. ...
Chromosome-level genome assembly and single-cell analysis unveil molecular mechanisms of arm regeneration in the ophiuroid Ophiura sarsii vadicola [0.03%]
染色体水平基因组组装和单细胞分析揭示了Ophiura sarsii vadicola海星臂再生的分子机制
Qin-Zeng Xu,Yi-Xuan Li,Wen-Ge Shi et al.
Qin-Zeng Xu et al.
Background: Ophiuroids, belonging to Ophiuroidea in Echinodermata, possess remarkable regenerative capacities in their arms, relying on cellular recruitment and de-differentiation. However, limited high-quality genomic re...
Genotype inference from aggregated chromatin accessibility data reveals genetic regulatory mechanisms [0.03%]
从聚合染色质可及性数据中推断基因型揭示了遗传调控机制
Brandon M Wenz,Yuan He,Nae-Chyun Chen et al.
Brandon M Wenz et al.
Background: Understanding the genetic causes underlying variability in chromatin accessibility can shed light on the molecular mechanisms through which genetic variants may affect complex traits. Thousands of ATAC-seq sam...
SOAPy: a Python package to dissect spatial architecture, dynamics, and communication [0.03%]
SOAPy：用于解析空间架构、动力学和通信的Python包
Heqi Wang,Jiarong Li,Siyu Jing et al.
Heqi Wang et al.
Advances in spatial omics enable deeper insights into tissue microenvironments while posing computational challenges. Therefore, we developed SOAPy, a comprehensive tool for analyzing spatial omics data, which offers methods for spatial dom...
Publisher Correction: The haplotype-resolved genome assembly of an ancient citrus variety provides insights into the domestication history and fruit trait formation of loose-skin mandarins [0.03%]
古柑橘品种的单倍型解析基因组组装为了解松皮柑橘的驯化历史和果实性状形成提供了见解：出版更正
Minqiang Yin,Xiaochan Song,Chao He et al.
Minqiang Yin et al.
Published Erratum
Genome biology. 2025 Mar 28;26(1):78. DOI:10.1186/s13059-025-03551-4 2025
Benchmarking spatial transcriptomics technologies with the multi-sample SpatialBenchVisium dataset [0.03%]
使用多样本SpatialBenchVisium数据集评估空间转录组学技术
Mei R M Du,Changqing Wang,Charity W Law et al.
Mei R M Du et al.
Background: Spatial transcriptomics allows gene expression to be measured within complex tissue contexts. Among the array of spatial capture technologies available is 10x Genomics' Visium platform, a popular method which ...
Pamoic acid and carbenoxolone specifically inhibit CRISPR/Cas9 in bacteria, mammalian cells, and mice in a DNA topology-specific manner [0.03%]
帕莫酸和卡贝胆碱以DNA拓扑结构特异性方式特异抑制细菌、哺乳动物细胞和小鼠中的CRISPR / Cas9系统
Yuxuan Zhang,Wentao Zou,Yueyang Zhou et al.
Yuxuan Zhang et al.
Background: Regulation of the target DNA cleavage activity of CRISPR/Cas has naturally evolved in a few bacteria or bacteriophages but is lacking in higher species. Thus, identification of bioactive agents and mechanisms ...
MACAW: a method for semi-automatic detection of errors in genome-scale metabolic models [0.03%]
MACAW：一种用于基因组规模代谢模型中半自动检测误差的方法
Devlin C Moyer,Justin Reimertz,Daniel Segrè et al.
Devlin C Moyer et al.
Genome-scale metabolic models (GSMMs) are used to predict metabolic fluxes, with applications ranging from identifying novel drug targets to engineering microbial metabolism. Erroneous or missing reactions, scattered throughout densely inte...
DEMINERS enables clinical metagenomics and comparative transcriptomic analysis by increasing throughput and accuracy of nanopore direct RNA sequencing [0.03%]
DEMINERS通过提高纳米孔直接RNA测序的吞吐量和准确性，使临床元转录组学和比较转录组学分析成为可能
Junwei Song,Li-An Lin,Chao Tang et al.
Junwei Song et al.
Nanopore direct RNA sequencing (DRS) is a powerful tool for RNA biology but suffers from low basecalling accuracy, low throughput, and high input requirements. We present DEMINERS, a novel DRS toolkit combining an RNA multiplexing workflow,...