Yuxuan Song,Chengxin Zhang,Gilbert S Omenn et al.
Yuxuan Song et al.
Background: Protein structure prediction with neural networks is a powerful new method for linking protein sequence, structure, and function, but structures have generally been predicted for only a single isoform of each ...
A comprehensive benchmarking of adaptive sampling tools for nanopore sequencing [0.03%]
纳米孔测序自适应采样工具的全面基准测试
Lang Yang,Yanfeng Lin,Peihan Li et al.
Lang Yang et al.
Background: Adaptive sampling is an emerging technology to enrich target reads while depleting unwanted reads during real-time nanopore sequencing. The application of different algorithms has spawned various tools for the...
A hierarchical, count-based model highlights challenges in scATAC-seq data analysis and points to opportunities to extract finer-resolution information [0.03%]
分层计数模型揭示了单细胞ATAC测序数据中的挑战，并指出提取更精细分辨率信息的机会
Aaron Wing Cheung Kwok,Heejung Shim,Davis J McCarthy
Aaron Wing Cheung Kwok
Background: Data from Single-cell Assay for Transposase Accessible Chromatin with Sequencing (scATAC-seq) is highly sparse. While current computational methods feature a range of transformation procedures to extract meani...
Author Correction: cuteFC: regenotyping structural variants through an accurate and efficient force-calling method [0.03%]
作者更正：cuteFC：通过准确且高效的强制调用方法对结构变异进行再分型
Tao Jiang,Shuqi Cao,Yadong Liu et al.
Tao Jiang et al.
Published Erratum
Genome biology. 2025 Sep 15;26(1):280. DOI:10.1186/s13059-025-03726-z 2025
Diverse short tandem repeat sequences influence gene regulation in human populations [0.03%]
多种串联重复序列影响人类种群中的基因表达调控
Aleksandra Mitina,Worrawat Engchuan,Brett Trost et al.
Aleksandra Mitina et al.
Background: Short tandem repeat (STR) length is a known determinant of pathogenicity in a variety of human disorders. The repeat sequence itself can modulate disease severity and penetrance; however, the broader impact of...
Author Correction: Engineering novel CRISPRi repressors for highly efficient mammalian gene regulation [0.03%]
作者更正：工程化新型CRISPR干扰抑制物以实现高效的哺乳动物基因调控
Andrew Kristof,Krithika Karunakaran,Christopher Allen et al.
Andrew Kristof et al.
Published Erratum
Genome biology. 2025 Sep 12;26(1):278. DOI:10.1186/s13059-025-03746-9 2025
Single-cell atlas in the living fossil Yangtze sturgeon provides insight into the evolution of fish [0.03%]
活化石长江鲟单细胞图谱揭示鱼类进化历程
Yeyu Chen,Xiaoyun Wu,Jiansheng Lai et al.
Yeyu Chen et al.
Background: Fish are the largest group of vertebrates. Studying the characteristics, functions, and interactions of different fish cells is important for understanding their roles in disease and evolution. However, most s...
MAGdb: a comprehensive high quality MAGs repository for exploring microbial metagenome-assemble genomes [0.03%]
MAGdb：一个全面且高质量的宏基因组拼接微生物基因组存储库以探索微生物群落
Guo Ye,Hao Hong,Ting Li et al.
Guo Ye et al.
Metagenomic analyses of microbial communities have unveiled a substantial level of interspecies and intraspecies genetic diversity by reconstructing metagenome-assembled genomes (MAGs). The MAG database (MAGdb) boasts an impressive collecti...
High-resolution time-series transcriptomic and metabolomic profiling reveals the regulatory mechanism underlying salt tolerance in maize [0.03%]
高通量时间序列转录组和代谢组揭示了玉米耐盐的调控机制
Fei Zhang,Boming Ji,Si Wu et al.
Fei Zhang et al.
Background: Soil salinization represents a critical global challenge to agricultural productivity, profoundly impacting crop yields and threatening food security. Plant salt-responsive is complex and dynamic, making it ch...
The systematic assessment of completeness of public metadata accompanying omics studies in the Gene Expression Omnibus data repository [0.03%]
系统评估基因表达数据仓库中组学研究的公共元数据的完备性
Yu-Ning Huang,Pooja Vinod Jaiswal,Anushka Rajes et al.
Yu-Ning Huang et al.
Background: Recent advances in high-throughput sequencing technologies have enabled the collection and sharing of a massive amount of omics data, along with its associated metadata-descriptive information that contextuali...