CHESS 3: an improved, comprehensive catalog of human genes and transcripts based on large-scale expression data, phylogenetic analysis, and protein structure [0.03%]
CHESS 3：基于大规模表达数据、谱系分析和蛋白质结构的改进型人类基因和转录本综合目录
Ales Varabyou,Markus J Sommer,Beril Erdogdu et al.
Ales Varabyou et al.
CHESS 3 represents an improved human gene catalog based on nearly 10,000 RNA-seq experiments across 54 body sites. It significantly improves current genome annotation by integrating the latest reference data and algorithms, machine learning...
Comparison of gene clustering criteria reveals intrinsic uncertainty in pangenome analyses [0.03%]
比较基因聚类标准揭示了泛基因组分析的内在不确定性
Saioa Manzano-Morales,Yang Liu,Sara González-Bodí et al.
Saioa Manzano-Morales et al.
Background: A key step for comparative genomics is to group open reading frames into functionally and evolutionarily meaningful gene clusters. Gene clustering is complicated by intraspecific duplications and horizontal ge...
MGA-seq: robust identification of extrachromosomal DNA and genetic variants using multiple genetic abnormality sequencing [0.03%]
MGA-seq：使用多重基因异常测序 robustly识别细胞遗传DNA和变异
Da Lin,Yanyan Zou,Xinyu Li et al.
Da Lin et al.
Genomic abnormalities are strongly associated with cancer and infertility. In this study, we develop a simple and efficient method - multiple genetic abnormality sequencing (MGA-Seq) - to simultaneously detect structural variation, copy num...
Landscape of enhancer disruption and functional screen in melanoma cells [0.03%]
黑色素瘤细胞中增强子破坏的景观及其功能筛选
Zhao Wang,Menghan Luo,Qian Liang et al.
Zhao Wang et al.
Background: The high mutation rate throughout the entire melanoma genome presents a major challenge in stratifying true driver events from the background mutations. Numerous recurrent non-coding alterations, such as those...
Pumping the brakes on RNA velocity by understanding and interpreting RNA velocity estimates [0.03%]
通过理解和解释RNA速度估算来控制RNA速度
Shijie C Zheng,Genevieve Stein-O&#x;Brien,Leandros Boukas et al.
Shijie C Zheng et al.
Background: RNA velocity analysis of single cells offers the potential to predict temporal dynamics from gene expression. In many systems, RNA velocity has been observed to produce a vector field that qualitatively reflec...
The Quartet Data Portal: integration of community-wide resources for multiomics quality control [0.03%]
quartet数据门户：社区资源的整合以实现多组学质量控制
Jingcheng Yang,Yaqing Liu,Jun Shang et al.
Jingcheng Yang et al.
The Quartet Data Portal facilitates community access to well-characterized reference materials, reference datasets, and related resources established based on a family of four individuals with identical twins from the Quartet Project. Users...
Benchmarking algorithms for joint integration of unpaired and paired single-cell RNA-seq and ATAC-seq data [0.03%]
单细胞RNA和ATAC测序数据联合整合算法的基准测试
Michelle Y Y Lee,Klaus H Kaestner,Mingyao Li
Michelle Y Y Lee
Background: Single-cell RNA-sequencing (scRNA-seq) measures gene expression in single cells, while single-nucleus ATAC-sequencing (snATAC-seq) quantifies chromatin accessibility in single nuclei. These two data types prov...
Utilizing AAV-mediated LEAPER 2.0 for programmable RNA editing in non-human primates and nonsense mutation correction in humanized Hurler syndrome mice [0.03%]
利用AAV载体介导的LEAPER 2.0在非人灵长类动物中进行程序化RNA编辑以及在人类黏多糖贮积症I型模型小鼠中进行无义突变纠正
Zongyi Yi,Yanxia Zhao,Zexuan Yi et al.
Zongyi Yi et al.
Background: The endogenous adenosine deaminases acting on RNA (ADAR) have been harnessed to facilitate precise adenosine-to-inosine editing on RNAs. However, the practicability of this approach for therapeutic purposes is...
aMeta: an accurate and memory-efficient ancient metagenomic profiling workflow [0.03%]
Ameta：一种准确且高效的记忆古代元基因组档案工作流程
Zoé Pochon,Nora Bergfeldt,Emrah Kırdök et al.
Zoé Pochon et al.
Analysis of microbial data from archaeological samples is a growing field with great potential for understanding ancient environments, lifestyles, and diseases. However, high error rates have been a challenge in ancient metagenomics, and th...
Performance of computational algorithms to deconvolve heterogeneous bulk ovarian tumor tissue depends on experimental factors [0.03%]
计算算法去卷积异质性批量卵巢肿瘤组织的表现取决于实验因素
Ariel A Hippen,Dalia K Omran,Lukas M Weber et al.
Ariel A Hippen et al.
Background: Single-cell gene expression profiling provides unique opportunities to understand tumor heterogeneity and the tumor microenvironment. Because of cost and feasibility, profiling bulk tumors remains the primary ...