Resolving clonal evolution and selection of extrachromosomal DNA at single-cell resolution [0.03%]
单细胞分辨率下解决染色体外DNA的克隆演化和选择问题
Josephine Deleuran Hendriksen,Alessio Locallo,Balthasar Clemens Schlotmann et al.
Josephine Deleuran Hendriksen et al.
Background: Genomic alterations are a hallmark of cancer, and extrachromosomal DNA (ecDNA) has emerged as a key source of oncogene selection, tumor growth, and drug resistance. The intratumor heterogeneity and clonal sele...
stGCL: a versatile cross-modality fusion method based on multi-modal graph contrastive learning for spatial transcriptomics [0.03%]
基于多模态图对比学习的空间转录组学跨模性融合方法stGCL
Na Yu,Daoliang Zhang,Wei Zhang et al.
Na Yu et al.
3D epigenome architecture orchestrates cis and trans regulation of flowering time in rice [0.03%]
三维表观基因组架构调控水稻开花时间的顺式和反式调节
Yue Li,Zhanyi Zhang,Leilei Qiu et al.
Yue Li et al.
Background: Trimethylation of histone H3 lysine 27 (H3K27me3) confers a repressive chromatin state and is dynamically deposited and removed to regulate gene expression throughout plant growth and development. Nevertheless...
Paige Steppe,Katherine O&#x;Connor,Jeff Hasty
Paige Steppe
Engineered bacteria are emerging as a transformative class of cancer therapeutics. Recent advances in synthetic biology have expanded the genetic circuit toolbox, enabling the programmable control of attenuation, payload release, and immuno...
SCITO-seq2: ultra-high-throughput single-cell transcriptome and epitope sequencing [0.03%]
SCITO-seq2：超大规模单细胞转录组和表位测序
Su-Hyeon Lee,Bo-Yeong Jin,Cho-Rong Lee et al.
Su-Hyeon Lee et al.
We introduce SCITO-seq2, an enhanced successor to SCITO-seq that integrates probe-based RNA detection with the established ultra-high-throughput protein profiling. SCITO-seq2 achieves robust quantification of transcripts and surface protein...
Benpeng Miao,Xinlong Luo,Amina Ademovic et al.
Benpeng Miao et al.
Genome-resolved metagenomics uncovers diversity and functional landscapes of the gastrointestinal epithelium-associated microbiome in cattle [0.03%]
基因组解析宏基因组揭示了牛胃肠黏膜相关微生物群的多样性和功能景观
Limei Lin,Xinyi Zheng,Ye Tao et al.
Limei Lin et al.
Background: The ruminant gastrointestinal epithelium harbors a diverse and functionally critical remains poorly characterized microbial community due to persistent host-derived DNA contamination in metagenomic studies. ...
Accurate variant effect estimation in FACS-based deep mutational scanning data with Lilace [0.03%]
基于FACS的深度突变扫描数据中使用Lilace进行精确的变异效应估计
Jerome Freudenberg,Jingyou Rao,Matthew K Howard et al.
Jerome Freudenberg et al.
Deep mutational scanning (DMS) coupled with fluorescence-activated cell sorting (FACS) provides a high-throughput method to link genetic variants with quantitative molecular phenotypes. Analysis of these experiments is challenging due to me...
Unveiling the early defense response dynamics in grapevines against Plasmopara viticola by single-cell transcriptomics [0.03%]
基于单细胞转录组测序揭示葡萄对葡萄霜霉菌的早期抗病动态响应机制
Xiukun Yao,Zhizhuo Xu,Yasheng Xi et al.
Xiukun Yao et al.
Background: The viticulture has long suffered from the downy mildew caused by Plasmopara viticola, a strictly obligate biotrophic oomycete. Numerous studies have been performed to reveal how grapevine defends against Plas...
Campolina: a deep neural framework for accurate segmentation of nanopore signals [0.03%]
基于深度神经网络的纳米孔信号精准分割框架-Campolina
Sara Bakić,Krešimir Friganović,Bryan Hooi et al.
Sara Bakić et al.
Nanopore sequencing enables real-time, long-read analysis by processing raw signals as they are produced. A key step, segmentation of signals into events, is typically handled algorithmically, struggling in noisy regions. We present Campoli...