The challenges of single cell transcriptomics on difficult human tissue: the placenta [0.03%]
单细胞转录组在棘手的人体组织中的挑战：胎盘研究案例
Theodoros Xenakis,George T Hall,Jose J Moreno-Villena et al.
Theodoros Xenakis et al.
Demand for the application of single cell transcriptomics on difficult tissues, processed and stored in disparate conditions, has led to the development of various single cell modalities. We focus on the placenta, a challenging tissue to tr...
Sarand: exploring antimicrobial resistance gene neighbourhoods in complex metagenomic assembly graphs [0.03%]
Sarand：在复杂宏基因组装配图中探索抗菌药物抗性基因邻域
Somayeh Kafaie,Shahlla Naseri,David B J Mahoney et al.
Somayeh Kafaie et al.
Antimicrobial resistance (AMR) is a major global challenge to human and animal health. The genomic element (e.g. chromosome, plasmid, and genomic islands) and neighbouring genes associated with an AMR gene play a major role in its function,...
ProteoMeter: a pipeline for integrating multi-PTM and limited proteolysis data to reveal modification-structure coupling at the residue level [0.03%]
基于多磷酸化位点及有限蛋白酶解的蛋白质修饰结构解析方法Protetometer：揭示修饰与结构关联性
Jordan C Rozum,Amy C Sims,Xiaolu Li et al.
Jordan C Rozum et al.
Systemic perturbations trigger extensive changes across the proteome-altering protein abundance, post-translational modifications (PTMs), conformational states, and complex assembly. Interpreting these effects demands computational pipeline...
A systematic benchmark of bioinformatics methods for single-cell and spatial RNA-seq nanopore long reads data [0.03%]
单细胞和空间rna测序纳米孔长读数据的生物信息学方法系统基准测试
Ali Hamraoui,Audrey Onfroy,Catherine Sénamaud-Beaufort et al.
Ali Hamraoui et al.
Alternative splicing plays a crucial role in transcriptomic complexity, yet remains difficult to resolve at the single-cell level due to the limitations of short-read technologies. Coupling single-cell with long-read sequencing offers full-...
RdRpCATCH: a unified resource for RNA virus discovery using viral RNA-dependent RNA polymerase profile Hidden Markov models [0.03%]
基于依赖RNA的RNA聚合酶谱系隐马尔可夫模型的RNA病毒发现统一资源(RdRpCATCH)
Dimitris Karapliafis,Uri Neri,Ingrida Olendraite et al.
Dimitris Karapliafis et al.
Recent advances in large-scale sequence mining have expanded our knowledge of RNA virus diversity. Most genome mining approaches for detecting RNA viruses rely on identifying the conserved RNA-dependent RNA polymerase (RdRp) by scanning seq...
A multiperspective evaluation framework of spatial transcriptomics clustering methods [0.03%]
空间转录组学聚类方法的多视角评估框架
Gospel Ozioma Nnadi,Vincenzo Bonnici,Simone Avesani et al.
Gospel Ozioma Nnadi et al.
Spatial transcriptomics (ST) allows the exploration of gene expression within tissue microenvironments, driving the development of multiple computational approaches for spatial domain identification. Evaluating these methods typically relie...
QutRNA2: robust tRNA modification discovery from Nanopore direct tRNA sequencing [0.03%]
QutRNA2：从纳米孔tRNA直接测序中稳健地发现tRNA修饰
Michael Piechotta,Wei Guo,Isabel S Naarmann-de Vries et al.
Michael Piechotta et al.
Transfer RNAs (tRNAs) are essential for protein synthesis and are extensively modified to ensure their structure and function. Direct RNA sequencing with Oxford Nanopore Technologies enables positional modification analysis but is challenge...
Correction to 'SyMetrics: an integrated machine learning model for evaluating the pathogenicity of synonymous variants in the human genome' [0.03%]
关于“SyMetrics：一种综合机器学习模型，用于评估人类基因组同义变异致病性的文章”的更正
[This corrects the article DOI: 10.1093/nargab/lqaf211.]. © The Author(s) 2026. Published by Oxford University Press.
Published Erratum
NAR genomics and bioinformatics. 2026 Jul 3;8(3):lqag077. DOI:10.1093/nargab/lqag077 2026
asms: finding allele-specific methylation in human genomes without phasing [0.03%]
ASMS：无需相位查找人类基因组中的等位特异性甲基化
Emanuele Raineri,Miguel Ángel Esteve Marco,Eloi Casals et al.
Emanuele Raineri et al.
Allele-specific methylation (ASM) refers to the differential DNA methylation between two alleles at a specific locus. This phenomenon can be driven by genomic imprinting (where gene expression depends on the parent of origin) or by genetic ...
An epigenetic clock for chronological age estimation in East Asian populations [0.03%]
东亚人群的表观遗传学时钟用于估算实际年龄
Kuan Chen Lu,Po-Hsiu Kuo,Amrita Chattopadhyay et al.
Kuan Chen Lu et al.
Population aging is increasing the burden of age-related disease, highlighting the need for accurate molecular tools to estimate aging. DNA methylation, a heritable epigenetic mark linked to development and age-related disease, can capture ...