In vivo perturb-seq of cancer and microenvironment cells dissects oncologic drivers and radiotherapy responses in glioblastoma [0.03%]
体内干扰扰序分析胶质母细胞瘤的肿瘤和微环境细胞，解析致癌驱动因素及放疗反应
S John Liu,Christopher Zou,Joanna Pak et al.
S John Liu et al.
Background: Genetic perturbation screens with single-cell readouts have enabled rich phenotyping of gene function and regulatory networks. These approaches have been challenging in vivo, especially in adult disease models...
APC mutations dysregulate alternative polyadenylation in cancer [0.03%]
APC突变通过干扰癌症中的选择性多腺苷酸化重新编程基因表达
Austin M Gabel,Andrea E Belleville,James D Thomas et al.
Austin M Gabel et al.
Background: Alternative polyadenylation (APA) affects most human genes and is recurrently dysregulated in all studied cancers. However, the mechanistic origins of this dysregulation are incompletely understood. ...
Ying Yu,Yuanbang Mai,Yuanting Zheng et al.
Ying Yu et al.
Batch effects in omics data are notoriously common technical variations unrelated to study objectives, and may result in misleading outcomes if uncorrected, or hinder biomedical discovery if over-corrected. Assessing and mitigating batch ef...
Jointly benchmarking small and structural variant calls with vcfdist [0.03%]
联合用vcfdist评估小变异和结构变异calling工具的效果
Tim Dunn,Justin M Zook,James M Holt et al.
Tim Dunn et al.
In this work, we extend vcfdist to be the first variant call benchmarking tool to jointly evaluate phased single-nucleotide polymorphisms (SNPs), small insertions/deletions (INDELs), and structural variants (SVs) for the whole genome. First...
A genome-wide association study reveals molecular mechanism underlying powdery mildew resistance in cucumber [0.03%]
黄瓜白粉病抗性相关的全基因组关联分析及分子机制研究
Xuewen Xu,Yujiao Du,Suhao Li et al.
Xuewen Xu et al.
Background: Powdery mildew is a disease with one of the most substantial impacts on cucumber production globally. The most efficient approach for controlling powdery mildew is the development of genetic resistance; howeve...
Characterization of regeneration initiating cells during Xenopus laevis tail regeneration [0.03%]
非洲爪蟾尾部再生启动细胞的特征研究
Radek Sindelka,Ravindra Naraine,Pavel Abaffy et al.
Radek Sindelka et al.
Background: Embryos are regeneration and wound healing masters. They rapidly close wounds and scarlessly remodel and regenerate injured tissue. Regeneration has been extensively studied in many animal models using new too...
Loss of Lateral suppressor gene is associated with evolution of root nodule symbiosis in Leguminosae [0.03%]
豆科植物共生根瘤形成的进化与LATERAL SUPPRESSOR基因的丢失相关性研究
Tengfei Liu,Zhi Liu,Jingwei Fan et al.
Tengfei Liu et al.
Background: Root nodule symbiosis (RNS) is a fascinating evolutionary event. Given that limited genes conferring the evolution of RNS in Leguminosae have been functionally validated, the genetic basis of the evolution of ...
Massive detection of cryptic recessive genetic defects in dairy cattle mining millions of life histories [0.03%]
揭秘乳用奶牛隐性遗传缺陷大型检测：挖掘千万生命历程大数据
Florian Besnard,Ana Guintard,Cécile Grohs et al.
Florian Besnard et al.
Background: Dairy cattle breeds are populations of limited effective size, subject to recurrent outbreaks of recessive defects that are commonly studied using positional cloning. However, this strategy, based on the obser...
Author Correction: NERD-seq: a novel approach of Nanopore direct RNA sequencing that expands representation of non-coding RNAs [0.03%]
作者更正：NERD-seq：一种新型纳米孔直接RNA测序方法，扩展了非编码RNA的表达范围
Luke Saville,Li Wu,Jemaneh Habtewold et al.
Luke Saville et al.
Published Erratum
Genome biology. 2024 Sep 26;25(1):249. DOI:10.1186/s13059-024-03395-4 2024
A realistic benchmark for differential abundance testing and confounder adjustment in human microbiome studies [0.03%]
人源微生物组研究中差异丰度检验和混淆变量调整的现实基准指标
Jakob Wirbel,Morgan Essex,Sofia Kirke Forslund et al.
Jakob Wirbel et al.
Background: In microbiome disease association studies, it is a fundamental task to test which microbes differ in their abundance between groups. Yet, consensus on suitable or optimal statistical methods for differential a...