Ke Cao,Bin Wang,Weichao Fang et al.
Ke Cao et al.
Background: Plant metabolites reshaped by nature and human beings are crucial for both their lives and human health. However, which metabolites respond most strongly to selection pressure at different evolutionary stages ...
Population-genomic analyses reveal bottlenecks and asymmetric introgression from Persian into iron walnut during domestication [0.03%]
群体基因组分析揭示了在铁核桃 Domestication 过程中波斯核桃导致的种群瓶颈和不对称杂交入侵现象
Ya-Mei Ding,Yu Cao,Wei-Ping Zhang et al.
Ya-Mei Ding et al.
Background: Persian walnut, Juglans regia, occurs naturally from Greece to western China, while its closest relative, the iron walnut, Juglans sigillata, is endemic in southwest China; both species are cultivated for thei...
Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples [0.03%]
深度肿瘤面板测序揭示了在福马林固定石蜡包埋处理样品中同一倒位依赖的品质下降
Yifan Zhang,Thomas M Blomquist,Rebecca Kusko et al.
Yifan Zhang et al.
Background: Clinical laboratories routinely use formalin-fixed paraffin-embedded (FFPE) tissue or cell block cytology samples in oncology panel sequencing to identify mutations that can predict patient response to targete...
Dynamic rewiring of biological activity across genotype and lineage revealed by context-dependent functional interactions [0.03%]
基于上下文依赖的功能相互作用揭示了跨基因型和系谱的生物活性的动态重组现象
Eiru Kim,Lance C Novak,Chenchu Lin et al.
Eiru Kim et al.
Background: Coessentiality networks derived from CRISPR screens in cell lines provide a powerful framework for identifying functional modules in the cell and for inferring the roles of uncharacterized genes. However, thes...
Author Correction: Susceptibility to hormone-mediated cancer is reflected by different tick rates of the epithelial and general epigenetic clock [0.03%]
作者更正：激素介导的癌症的易感性由上皮和一般表观遗传钟不同的滴答声反映
J James E Barrett,Chiara Herzog,Yoo-Na Kim et al.
J James E Barrett et al.
Published Erratum
Genome biology. 2022 Jun 29;23(1):142. DOI:10.1186/s13059-022-02704-z 2022
Bookend: precise transcript reconstruction with end-guided assembly [0.03%]
基于端指导的精准转录组从头组装算法BOOKEND
Michael A Schon,Stefan Lutzmayer,Falko Hofmann et al.
Michael A Schon et al.
We developed Bookend, a package for transcript assembly that incorporates data from different RNA-seq techniques, with a focus on identifying and utilizing RNA 5' and 3' ends. We demonstrate that correct identification of transcript start a...
Gamze Gürsoy,Charlotte M Brannon,Eric Ni et al.
Gamze Gürsoy et al.
There are major efforts underway to make genome sequencing a routine part of clinical practice. A critical barrier to these is achieving practical solutions for data ownership and integrity. Blockchain provides solutions to these challenges...
scDART: integrating unmatched scRNA-seq and scATAC-seq data and learning cross-modality relationship simultaneously [0.03%]
scDART：同时集成未匹配的单细胞RNA测序和单细胞ATAC测序数据以及学习跨模式关系
Ziqi Zhang,Chengkai Yang,Xiuwei Zhang
Ziqi Zhang
It is a challenging task to integrate scRNA-seq and scATAC-seq data obtained from different batches. Existing methods tend to use a pre-defined gene activity matrix to convert the scATAC-seq data into scRNA-seq data. The pre-defined gene ac...
A theory-based practical solution to correct for sex-differential participation bias [0.03%]
基于理论的实际解决方案纠正性别差异参与偏差
Hanbin Lee,Buhm Han
Hanbin Lee
Most genomic cohorts are retrospective where the exposures and outcomes are predetermined prior to sample collection. Therefore, a spurious association between an exposure and an outcome can arise if both variables affect study participatio...
Jake Crawford,Brock C Christensen,Maria Chikina et al.
Jake Crawford et al.
Background: In studies of cellular function in cancer, researchers are increasingly able to choose from many -omics assays as functional readouts. Choosing the correct readout for a given study can be difficult, and which...