Comprehensive profiling of CRISPR/dCas9 epigenome editors indicates a complex link between on and off target effects [0.03%]
全面剖析CRISPR/dCas9表观基因组编辑系统表明靶效应和脱靶效应之间关系复杂
Majid Pahlevan Kakhki,Fatemeh Rangani,Ewoud Ewing et al.
Majid Pahlevan Kakhki et al.
Background: CRISPR/dCas9-based epigenome editing systems, including DNA methylation epimodifiers, have greatly advanced molecular functional studies, revolutionizing their precision and applicability. Despite their promis...
An integrated multi-omics and network analysis of neutrophil differentiation from initial- to late-stage [0.03%]
中性粒细胞从初始阶段到晚期分化过程的整合多组学和网络分析
Qing Chen,Tianchang Yang,Yingping Hou et al.
Qing Chen et al.
Background: Neutrophil differentiation is a well-orchestrated process that involves coordinated changes in the chromatin accessibility, transcription factor (TF) binding, 3D genome-structure and transcription. However, de...
Resolving sampling and population-size biases in domestication genomics supports a South Asian origin of walnuts [0.03%]
解决驯化基因组学中的取样和种群大小偏差支持核桃的南亚起源
Cai-Jin Chen,Xiao-Xu Pang,Ya-Mei Ding et al.
Cai-Jin Chen et al.
Background: The inference of population structure in domestication studies is prone to biases whenever sampling is unbalanced and effective population sizes (Ne) differ across populations. Such biases can lead to the misc...
Parameter-efficient fine-tuning enables scalable transfer of regulatory sequence models to novel contexts [0.03%]
参数高效微调使调节序列模型在新情境下的可扩展转移成为可能
Han Yuan,Johannes Linder,David R Kelley
Han Yuan
Background: DNA sequence deep learning models can accurately predict epigenetic and transcriptional profiles, enabling analysis of gene regulation and genetic variant effects. While large-scale models like Enformer and Bo...
Benchmarking alignment strategies for Hi-C reads in metagenomic Hi-C data [0.03%]
宏基因组Hi-C数据分析中Hi-C读段比对策略的评估与优化
Yuqiu Wang,Wenxuan Zuo,Jiawei Huang et al.
Yuqiu Wang et al.
Background: Metagenomics combined with High-throughput Chromosome Conformation Capture (Hi-C) provides a powerful approach to study microbial communities by linking genomic content with spatial interactions. Hi-C compleme...
RNA2seg: a generalist model for cell segmentation in image-based spatial transcriptomics [0.03%]
RNA2seg：基于图像的空间转录组学中通用细胞分割模型
Thomas Defard,Alice Blondel,Sebastien Bellow et al.
Thomas Defard et al.
Imaging-based spatial transcriptomics enables high-resolution spatial mapping of RNA species. A key challenge in imaging-based spatial transcriptomics is accurate cell segmentation to assign each RNA molecule to the right cell. Here, we pre...
Understanding liquid-liquid phase separation through TDP-43: fundamental principles, subcellular compartmentalisation, and role of solid inclusion formation [0.03%]
通过TDP-43理解液-液相分离：基本原理、亚细胞区室化及固体包涵体形成的作用
Alessandra Bigi,Fabrizio Chiti
Alessandra Bigi
Phase separation is an important process in biology associated with formation of membraneless organelles but possibly related to the emergence of solid inclusions. TDP-43 is a largely studied paradigmatic case, as it forms neuronal cytoplas...
Chengxiu Wu,Zedong Geng,Weikun Li et al.
Chengxiu Wu et al.
Background: Phenotypic diversity arises from the process of development and is shaped by genomic variation in plants. However, the genetic basis of growth dynamics remains poorly understood in maize. ...
Cosmopolitanism in the depths of Barbaricum evidenced by archaeogenomic data from the Late Iron Age Goth community of the Masłomęcz group [0.03%]
马尔索梅奇集团晚铁器时代哥特社区的考古基因组数据揭示了野蛮之地深处的文化世界主义现象
Michał Golubiński,Mateusz Baca,Danijela Popović et al.
Michał Golubiński et al.
Background: High mobility and extensive trade and military interactions are well recognized throughout the Late Iron Age Europe. The extremely rich archaeological record for the Masłomęcz group - a Goth-associated assem...
Genetic associations of circulating plasma proteins with cardiometabolic diseases [0.03%]
循环血浆蛋白与心血管代谢性疾病的遗传关联研究
Ruixin Zhou,Jun Qiao,Xiuzhen Zhang et al.
Ruixin Zhou et al.
Background: Cardiovascular disease is the leading cause of death worldwide, and its risk is closely linked to metabolic abnormalities. Through summary-data-based mendelian randomization and colocalization analysis, we inv...