KIN: a method to infer relatedness from low-coverage ancient DNA [0.03%]
KIN：一种从低覆盖率的古代DNA中推断亲缘关系的方法
Divyaratan Popli,Stéphane Peyrégne,Benjamin M Peter
Divyaratan Popli
Genetic kinship of ancient individuals can provide insights into their culture and social hierarchy, and is relevant for downstream genetic analyses. However, estimating relatedness from ancient DNA is difficult due to low-coverage, ascerta...
Doxycycline-dependent Cas9-expressing pig resources for conditional in vivo gene nullification and activation [0.03%]
用于条件性基因失活和激活的四环素依赖型Cas9表达猪资源研究
Qin Jin,Xiaoyi Liu,Zhenpeng Zhuang et al.
Qin Jin et al.
Background: CRISPR-based toolkits have dramatically increased the ease of genome and epigenome editing. SpCas9 is the most widely used nuclease. However, the difficulty of delivering SpCas9 and inability to modulate its e...
Systematic optimization of Cas12a base editors in wheat and maize using the ITER platform [0.03%]
使用ITER平台系统优化小麦和玉米中的Cas12a碱基编辑器
Christophe Gaillochet,Alexandra Peña Fernández,Vera Goossens et al.
Christophe Gaillochet et al.
Background: Testing an ever-increasing number of CRISPR components is challenging when developing new genome engineering tools. Plant biotechnology has few high-throughput options to perform iterative design-build-test-le...
Dynamic chromatin regulatory programs during embryogenesis of hexaploid wheat [0.03%]
六倍体小麦胚胎发生过程中的动态染色质调控程序
Long Zhao,Yiman Yang,Jinchao Chen et al.
Long Zhao et al.
Background: Plant and animal embryogenesis have conserved and distinct features. Cell fate transitions occur during embryogenesis in both plants and animals. The epigenomic processes regulating plant embryogenesis remain ...
Sequre: a high-performance framework for secure multiparty computation enables biomedical data sharing [0.03%]
Sequre：一个高性能的可用于生物医学数据共享的安全多方计算框架
Haris Smajlović,Ariya Shajii,Bonnie Berger et al.
Haris Smajlović et al.
Secure multiparty computation (MPC) is a cryptographic tool that allows computation on top of sensitive biomedical data without revealing private information to the involved entities. Here, we introduce Sequre, an easy-to-use, high-performa...
Systemic interindividual epigenetic variation in humans is associated with transposable elements and under strong genetic control [0.03%]
人类系统性个体表观遗传变异与可转座元件关系密切且受强遗传控制
Chathura J Gunasekara,Harry MacKay,C Anthony Scott et al.
Chathura J Gunasekara et al.
Background: Genetic variants can modulate phenotypic outcomes via epigenetic intermediates, for example at methylation quantitative trait loci (mQTL). We present the first large-scale assessment of mQTL at human genomic r...
Extru-seq: a method for predicting genome-wide Cas9 off-target sites with advantages of both cell-based and in vitro approaches [0.03%]
Extru-seq：一种兼具细胞和体外方法优势的预测Cas9广泛脱靶位点的方法
Jeonghun Kwon,Minyoung Kim,Woochang Hwang et al.
Jeonghun Kwon et al.
We present a novel genome-wide off-target prediction method named Extru-seq and compare it with cell-based (GUIDE-seq), in vitro (Digenome-seq), and in silico methods using promiscuous guide RNAs with large numbers of valid off-target sites...
Single-cell transcriptomics unveils xylem cell development and evolution [0.03%]
单细胞转录组学揭示了木质部细胞的发育和进化
Chia-Chun Tung,Shang-Che Kuo,Chia-Ling Yang et al.
Chia-Chun Tung et al.
Background: Xylem, the most abundant tissue on Earth, is responsible for lateral growth in plants. Typical xylem has a radial system composed of ray parenchyma cells and an axial system of fusiform cells. In most angiospe...
MetaBinner: a high-performance and stand-alone ensemble binning method to recover individual genomes from complex microbial communities [0.03%]
MetaBinner: 从复杂微生物群落中恢复单个基因组的高性能独立集成分箱方法
Ziye Wang,Pingqin Huang,Ronghui You et al.
Ziye Wang et al.
Binning aims to recover microbial genomes from metagenomic data. For complex metagenomic communities, the available binning methods are far from satisfactory, which usually do not fully use different types of features and important biologic...
Biology-inspired data-driven quality control for scientific discovery in single-cell transcriptomics [0.03%]
单细胞转录组学中受生物学启发的数据驱动质量控制以促进科学发现
Ayshwarya Subramanian,Mikhail Alperovich,Yiming Yang et al.
Ayshwarya Subramanian et al.
Background: Quality control (QC) of cells, a critical first step in single-cell RNA sequencing data analysis, has largely relied on arbitrarily fixed data-agnostic thresholds applied to QC metrics such as gene complexity ...