Genome-wide profiling of unmodified DNA using methyltransferase-directed tagging and enrichment [0.03%]
甲基转移酶导向的DNA未修饰碱基全基因组测序新技术
Luca Tosti,Calum Mould,Imogen Gatehouse et al.
Luca Tosti et al.
We present "Active-Seq" (azide click tagging for in vitro epigenomic sequencing), a base-conversion-free technology that enables the isolation of DNA containing unmodified CpG sites using a mutated bacterial methyltransferase enzyme and a s...
Tu Luan,Victoria P Cepeda-Espinoza,Bo Liu et al.
Tu Luan et al.
Metagenomic studies have primarily relied on de novo assembly for reconstructing genes and genomes from microbial mixtures. While reference-guided approaches have been employed in the assembly of single organisms, they have not been used in...
Metabolic profiling of antigen-specific CD8+ T cells by spectral flow cytometry [0.03%]
采用谱流式细胞术对特异性抗原的CD8⁺T细胞进行代谢轮廓分析
Nils Mülling,J Fréderique de Graaf,Graham A Heieis et al.
Nils Mülling et al.
Cytotoxic CD8+ T cells are essential mediators of immune responses against viral infections and tumors. Upon antigen encounter, antigen-specific CD8+ T cells undergo clonal expansion and produce effector cytokines, processes that require dy...
Xiaoqing Ru,Lifeng Xu,Wu Han et al.
Xiaoqing Ru et al.
Drug-target interaction (DTI) prediction is a crucial component of drug discovery. In recent years, in silico approaches have attracted attention for DTI prediction, primarily because of their potential to mitigate the high costs, low succe...
A statistical physics approach to integrating multi-omics data for disease-module detection [0.03%]
利用统计物理学方法整合多组学数据检测疾病模块
Xu-Wen Wang,Min Hyung Ryu,Michael H Cho et al.
Xu-Wen Wang et al.
Genes associated with the same disease frequently engage in mutual biological interactions, e.g., perturbation within a specific neighborhood in the molecular interactome, often referred to as the disease module. This has propelled the adva...
The Brownian dynamics simulator PyRID for reacting and interacting particles written in Python [0.03%]
一个用Python编写的关于反应和相互作用粒子的布朗动力学模拟器PyRID
Moritz Becker,Nahid Safari,Christian Tetzlaff
Moritz Becker
Recent advances in molecular biology have led to large-scale datasets providing new insights into the molecular organization of cells. To fully exploit their potential, computer simulations are essential to gain in-depth understanding of mo...
A real-time all-optical interface for dynamic perturbation of neural activity during behavior [0.03%]
一种在行为过程中动态扰动神经活动的实时全光界面
Zihui Zhang,Patrycja Dzialecka,Lloyd E Russell et al.
Zihui Zhang et al.
We developed a strategy for implementing a dream experiment in systems neuroscience, where circuit manipulation is guided by the real-time readout of neural activity in behaving mice. The system integrates a state-of-the-art calcium imaging...
A deep learning pipeline for accurate and automated restoration, segmentation, and quantification of dendritic spines [0.03%]
一种用于精确和自动恢复、分割和量化树突棘的深度学习流水线
Sergio Bernal-Garcia,Alexa P Schlotter,Daniela B Pereira et al.
Sergio Bernal-Garcia et al.
Quantification of dendritic spines is essential for studying synaptic connectivity, yet most current approaches require manual adjustments or the combination of multiple software tools for optimal results. Here, we present restoration enhan...
SpliPath enhances disease gene discovery in case-control analyses of rare splice-altering genetic variants [0.03%]
改进罕见剪接改变基因变异的病例对照分析中的疾病基因发现能力
Yan Wang,Charlotte van Dijk,Ilia Timpanaro et al.
Yan Wang et al.
We developed SpliPath as a generalizable framework to discover disease associations mediated by rare variants that induce experimentally supported mRNA splicing defects. Our approach integrates components of burden tests (BTs), traditional ...
Comprehensive noise reduction in single-cell data with the RECODE platform [0.03%]
基于RECODE平台的单细胞数据全面降噪方法
Yusuke Imoto
Yusuke Imoto
Single-cell sequencing enables genome- and epigenome-wide profiling of thousands of individual cells, offering unprecedented biological insights. However, technical noise and batch effects obscure high-resolution structures, hindering rare-...