Engineered circular guide RNAs boost CRISPR/Cas12a- and CRISPR/Cas13d-based DNA and RNA editing [0.03%]
工程化的环状向导RNA能够增强CRISPR/Cas12a和CRISPR/Cas13d介导的DNA与RNA编辑功能
Xin Zhang,Xinlong Wang,Jie Lv et al.
Xin Zhang et al.
Background: The CRISPR/Cas12a and CRISPR/Cas13d systems are widely used for fundamental research and hold great potential for future clinical applications. However, the short half-life of guide RNAs (gRNAs), particularly ...
CATI: an efficient gene integration method for rodent and primate embryos by MMEJ suppression [0.03%]
通过抑制MMEJ有效整合外源基因的啮齿类和灵长类胚胎的方法CATI
Hongyu Chen,Xingchen Liu,Lanxin Li et al.
Hongyu Chen et al.
The efficiency of homology-directed repair (HDR) plays a crucial role in the development of animal models and gene therapy. We demonstrate that microhomology-mediated end-joining (MMEJ) constitutes a substantial proportion of DNA repair dur...
VarID2 quantifies gene expression noise dynamics and unveils functional heterogeneity of ageing hematopoietic stem cells [0.03%]
VarID2 量化基因表达噪声动力学并揭示衰老造血干细胞的功能异质性
Reyna Edith Rosales-Alvarez,Jasmin Rettkowski,Josip Stefan Herman et al.
Reyna Edith Rosales-Alvarez et al.
Variability of gene expression due to stochasticity of transcription or variation of extrinsic signals, termed biological noise, is a potential driving force of cellular differentiation. Utilizing single-cell RNA-sequencing, we develop VarI...
CNETML: maximum likelihood inference of phylogeny from copy number profiles of multiple samples [0.03%]
利用多例样本拷贝数谱型进行系谱推断的极大似然法研究(CNETML)
Bingxin Lu,Kit Curtius,Trevor A Graham et al.
Bingxin Lu et al.
Phylogenetic trees based on copy number profiles from multiple samples of a patient are helpful to understand cancer evolution. Here, we develop a new maximum likelihood method, CNETML, to infer phylogenies from such data. CNETML is the fir...
A benchmark of computational pipelines for single-cell histone modification data [0.03%]
单细胞组蛋白修饰数据计算流程的基准测试
Félix Raimundo,Pacôme Prompsy,Jean-Philippe Vert et al.
Félix Raimundo et al.
Background: Single-cell histone post translational modification (scHPTM) assays such as scCUT&Tag or scChIP-seq allow single-cell mapping of diverse epigenomic landscapes within complex tissues and are likely to unlock ou...
The effect of background noise and its removal on the analysis of single-cell expression data [0.03%]
背景噪声及其消除对单细胞表达数据的影响分析
Philipp Janssen,Zane Kliesmete,Beate Vieth et al.
Philipp Janssen et al.
Background: In droplet-based single-cell and single-nucleus RNA-seq experiments, not all reads associated with one cell barcode originate from the encapsulated cell. Such background noise is attributed to spillage from ce...
The Bovine Pangenome Consortium: democratizing production and accessibility of genome assemblies for global cattle breeds and other bovine species [0.03%]
奶牛泛基因组联盟：在全球奶牛品种及其他反刍动物种类中实现基因组组装的民主化和普及性
Timothy P L Smith,Derek M Bickhart,Didier Boichard et al.
Timothy P L Smith et al.
The Bovine Pangenome Consortium (BPC) is an international collaboration dedicated to the assembly of cattle genomes to develop a more complete representation of cattle genomic diversity. The goal of the BPC is to provide genome assemblies a...
Characterization of novel loci controlling seed oil content in Brassica napus by marker metabolite-based multi-omics analysis [0.03%]
基于标记代谢组多组学分析的大豆油分含量新位点的鉴定
Long Li,Zhitao Tian,Jie Chen et al.
Long Li et al.
Background: Seed oil content is an important agronomic trait of Brassica napus (B. napus), and metabolites are considered as the bridge between genotype and phenotype for physical traits. ...
Synergising single-cell resolution and 4sU labelling boosts inference of transcriptional bursting [0.03%]
单细胞分辨率和4sU标记的协同作用可提升转录爆发推断能力
David M Edwards,Philip Davies,Daniel Hebenstreit
David M Edwards
Despite the recent rise of RNA-seq datasets combining single-cell (sc) resolution with 4-thiouridine (4sU) labelling, analytical methods exploiting their power to dissect transcriptional bursting are lacking. Here, we present a mathematical...
Sebastian Schmidt,Shahbaz Khan,Jarno N Alanko et al.
Sebastian Schmidt et al.
We propose a polynomial algorithm computing a minimum plain-text representation of k-mer sets, as well as an efficient near-minimum greedy heuristic. When compressing read sets of large model organisms or bacterial pangenomes, with only a m...