Determining the functional relationship between epigenetic and physical chromatin domains in Drosophila [0.03%]
利用果蝇确定表观遗传和物理染色质区域之间的功能关系
Sandrine Denaud,Gonzalo Sabarís,Marco Di Stefano et al.
Sandrine Denaud et al.
The tight correlation between topologically associating domains (TADs) and epigenetic domains in Drosophila suggests that the epigenome contributes to define TADs. However, it is still unknown whether histone modifications are essential for...
ONTraC characterizes spatially continuous variations of tissue microenvironment through niche trajectory analysis [0.03%]
基于生态位轨迹分析的组织微环境连续空间变异表征方法 OntraC
Wen Wang,Shiwei Zheng,Sujung Crystal Shin et al.
Wen Wang et al.
Recent technological advances enable mapping of tissue spatial organization at single-cell resolution, but methods for analyzing spatially continuous microenvironments are still lacking. We introduce ONTraC, a graph neural network-based fra...
Development of a whole-exome sequencing kit to facilitate porcine biomedical research [0.03%]
用于促进猪生物医学研究的外显子组测序检测试剂盒的研发
Vishwaarth Vijayakumar,Tanvi Joshi,Lobna Elkhadragy et al.
Vishwaarth Vijayakumar et al.
Background: It is important for porcine models to replicate gene mutations present in human diseases to improve the translatability of animal studies. In this study, the high efficacy of a whole exome sequencing kit was d...
Four near-complete genome assemblies reveal the landscape and evolution of centromeres in Salicaceae [0.03%]
四个几乎完整的基因组揭示了杨柳科物种的着丝粒景观及其进化规律
Yubo Wang,Lulu Zhao,Deyan Wang et al.
Yubo Wang et al.
Background: Centromeres play a crucial role in maintaining genomic stability during cell division. They are typically composed of large arrays of tandem satellite repeats, which hinder high-quality assembly and complicate...
SlideCNA: spatial copy number alteration detection from Slide-seq-like spatial transcriptomics data [0.03%]
基于Slide-seq_like空间转录组学数据的空间拷贝数变异检测（SlideCNA）
Diane Zhang,Åsa Segerstolpe,Michal Slyper et al.
Diane Zhang et al.
Solid tumors are spatially heterogeneous in their genetic, molecular, and cellular composition, but recent spatial profiling studies have mostly charted genetic and RNA variation in tumors separately. To leverage the potential of RNA to ide...
Agus Salim,Dharmesh D Bhuva,Carissa Chen et al.
Agus Salim et al.
Normalization of spatial transcriptomics data is challenging due to spatial association between region-specific library size and biology. We develop SpaNorm, the first spatially-aware normalization method that concurrently models library si...
Rewiring of SINE-MIR enhancer topology and Esrrb modulation in expanded and naive pluripotency [0.03%]
扩增和初始多能性中的SINE-MIR增强子拓扑结构的重新布线和Esrrb调节
Nadia Omega Cipta,Yingying Zeng,Ka Wai Wong et al.
Nadia Omega Cipta et al.
Background: The interplay between 3D genomic structure and transposable elements (TE) in regulating cell state-specific gene expression program is largely unknown. Here, we explore the utilization of TE-derived enhancers ...
Multi-ancestry whole genome sequencing analysis of lean body mass [0.03%]
多祖先全基因组序列分析 lean body mass
Xiaoyu Zhang,Kuan-Jui Su,Bodhisattwa Banerjee et al.
Xiaoyu Zhang et al.
Background: Lean body mass is a crucial physiological component of body composition. Although lean body mass has a high heritability, studies evaluating the genetic determinants of lean mass (LM) have to date been limited...
Meta-Analysis
Genome biology. 2025 Apr 28;26(1):106. DOI:10.1186/s13059-025-03520-x 2025
Medieval genomes from eastern Iberia illuminate the role of Morisco mass deportations in dismantling a long-standing genetic bridge with North Africa [0.03%]
来自伊比利亚半岛东部的中世纪基因组揭示摩尔人的大规模流放如何拆除了与北非长期存在的遗传联系
Gonzalo Oteo-Garcia,Marina Silva,M George B Foody et al.
Gonzalo Oteo-Garcia et al.
Background: The Islamic influence on the Iberian Peninsula left an enduring cultural and linguistic legacy. However, the demographic impact is less well understood. This study aims to explore the dynamics of gene flow and...
InSituCor: exploring spatially correlated genes conditional on the cell type landscape [0.03%]
基于细胞类型景观探索空间相关的基因(InSituCor)
Patrick Danaher,Dan McGuire,Lidan Wu et al.
Patrick Danaher et al.
In spatial transcriptomics data, spatially correlated genes promise to reveal high-interest phenomena like cell-cell interactions and latent variables. But in practice, most spatial correlations arise from the spatial arrangement of cell ty...