txci-ATAC-seq: a massive-scale single-cell technique to profile chromatin accessibility [0.03%]
txci-ATAC-seq：一种大规模单细胞染色质可及性表型技术
Hao Zhang,Ryan M Mulqueen,Natalie Iannuzo et al.
Hao Zhang et al.
We develop a large-scale single-cell ATAC-seq method by combining Tn5-based pre-indexing with 10× Genomics barcoding, enabling the indexing of up to 200,000 nuclei across multiple samples in a single reaction. We profile 449,953 nuclei acr...
Cataloging the phylogenetic diversity of human bladder bacterial isolates [0.03%]
人类膀胱细菌分离株的系统发育多样性的目录索引
Jingjie Du,Mark Khemmani,Thomas Halverson et al.
Jingjie Du et al.
Background: Although the human bladder is reported to harbor unique microbiota, our understanding of how these microbial communities interact with their human hosts is limited, mostly owing to the lack of isolates to test...
DANCE: a deep learning library and benchmark platform for single-cell analysis [0.03%]
基于单细胞分析的深度学习库和基准平台DANCE
Jiayuan Ding,Renming Liu,Hongzhi Wen et al.
Jiayuan Ding et al.
DANCE is the first standard, generic, and extensible benchmark platform for accessing and evaluating computational methods across the spectrum of benchmark datasets for numerous single-cell analysis tasks. Currently, DANCE supports 3 module...
Bin Duan,Shaoqi Chen,Xiaojie Cheng et al.
Bin Duan et al.
With the rapid advancements in spatial transcriptome sequencing, multiple tissue slices are now available, enabling the integration and interpretation of spatial cellular landscapes. Herein, we introduce SpaDo, a tool for multi-slice spatia...
Danielson Baia Amaral,Rhonda Egidy,Anoja Perera et al.
Danielson Baia Amaral et al.
Background: Early embryonic developmental programs are guided by the coordinated interplay between maternally inherited and zygotically manufactured RNAs and proteins. Although these processes happen concomitantly and aff...
Multiplex DNA fluorescence in situ hybridization to analyze maternal vs. paternal C. elegans chromosomes [0.03%]
用于分析母系与父系C. elegans染色体的多路DNA荧光原位杂交技术
Silvia Gutnik,Jia Emil You,Ahilya N Sawh et al.
Silvia Gutnik et al.
Recent advances in microscopy have enabled studying chromosome organization at the single-molecule level, yet little is known about inherited chromosome organization. Here we adapt single-molecule chromosome tracing to distinguish two C. el...
Multi-omics provide insights into the regulation of DNA methylation in pear fruit metabolism [0.03%]
多组学提供了对梨果实代谢中DNA甲基化的调控的见解
Chao Gu,Mao-Song Pei,Zhi-Hua Guo et al.
Chao Gu et al.
Background: Extensive research has been conducted on fruit development in crops, but the metabolic regulatory networks underlying perennial fruit trees remain poorly understood. To address this knowledge gap, we conduct a...
Liquid-liquid phase separation of H3K27me3 reader BP1 regulates transcriptional repression [0.03%]
H3K27me3阅读蛋白BP1的液-液相分离调节转录抑制
Guangfei Tang,Haoxue Xia,Yufei Huang et al.
Guangfei Tang et al.
Background: Bromo-adjacent homology-plant homeodomain domain containing protein 1 (BP1) is a reader of histone post-translational modifications in fungi. BP1 recognizes trimethylation of lysine 27 in histone H3 (H3K27me3)...
Prediction of metabolites associated with somatic mutations in cancers by using genome-scale metabolic models and mutation data [0.03%]
通过使用基因组规模的代谢模型和突变数据预测与癌症体细胞突变相关的代谢物
GaRyoung Lee,Sang Mi Lee,Sungyoung Lee et al.
GaRyoung Lee et al.
Background: Oncometabolites, often generated as a result of a gene mutation, show pro-oncogenic function when abnormally accumulated in cancer cells. Identification of such mutation-associated metabolites will facilitate ...
Seven-chain adaptive immune receptor repertoire analysis in rheumatoid arthritis reveals novel features associated with disease and clinically relevant phenotypes [0.03%]
七链适应性免疫受体库在类风湿关节炎中的分析揭示了与疾病和临床相关表型有关的新特征
Adrià Aterido,María López-Lasanta,Francisco Blanco et al.
Adrià Aterido et al.
Background: In rheumatoid arthritis (RA), the activation of T and B cell clones specific for self-antigens leads to the chronic inflammation of the synovium. Here, we perform an in-depth quantitative analysis of the seven...