Results 281 to 290 of about 861,603 (331)

ChromInSight: Revealing DNA Double‐Strand Breaks Through Chromatin Structural Insights With an Interpretable Graph Neural Network Framework

Advanced Science, EarlyView.
DSBs are the most critical genomic lesions. Using the ChromInSight framework, It is revealed that 3D chromatin structure, rather than linear distance, shapes cluster‐scene between hub‐Nodes and DSB loci. The “spatial isolation–damage containment” hypothesis is proposed to illustrate how the genome responds to genomic damage and offer a powerful tool ...
Kang Xu, Zongyuan Yu, Canzhuang Sun, Conglin Gou, Jiangyue Zhu, Jun Wang, Xiaochen Bo, Guoxian Yu, Hao Li, Hebing Chen   +9 more
wiley   +1 more source

Altered X-chromosome inactivation of the TLR7/8 locus and heterogeneity of pDCs in systemic sclerosis. [PDF]

J Exp Med
Du Y, Faz-Lopez B, Ah Kioon MD, Cenac C, Pierides M, Lakin KS, Spiera RF, Chaumeil J, Truchetet ME, Gordon JK, Guéry JC, Barrat FJ.   +11 more
europepmc   +1 more source

FemXpress: Systematic Analysis of X Chromosome Inactivation Heterogeneity in Female Single‐Cell RNA‐Seq Samples

Advanced Science, EarlyView.
FemXpress is a computational tool that leverages X‐linked single nucleotide polymorphisms (SNPs) to group cells by the origin of the inactivated X chromosome in female single‐cell RNA sequencing (scRNA‐Seq) data. It demonstrates strong performance on both simulated and real datasets without requiring parental genomic information, and can also identify ...
Xin Wang, Yingke Ma, Fan Li, Wentao Cui, Tianshi Pan, Siqi Wang, Sinan Ma, Qingtong Shan, Chao Liu, Yukai Wang, Ying Zhang, Yuanchun Zhou, Wei Li, Pengfei Wang, Qi Zhou, Guihai Feng   +15 more
wiley   +1 more source

Measuring X-Chromosome inactivation skew for X-linked diseases with adaptive nanopore sequencing. [PDF]

Genome Res
Gocuk SA, Lancaster J, Su S, Jolly JK, Edwards TL, Hickey DG, Ritchie ME, Blewitt ME, Ayton LN, Gouil Q.   +9 more
europepmc   +1 more source

UTX Responds to Nanotopography to Suppress Macrophage Inflammatory Response by Remodeling H3K27me3 Modification

Advanced Science, EarlyView.
Compared with those on the pTi surface, macrophages on the TNTs surface present reduced myosin II contractility, which facilitates the nuclear translocation of the UTX. This reduction decreases the enrichment of the repressive H3K27me3 histone modification at the Abca1 gene locus, which promotes the transcription and protein expression of ABCA1 ...
Hengji Jia, He Zhang, Dingqiang Mo, Bo Xie, Hongdou Qiao, Tao Chen, Haoyue Song, Xinxin Xu, Sheng Yang   +8 more
wiley   +1 more source

Author Correction: Dissection of X chromosome dosage compensation for quantitative traits in sheep using different statistical models. [PDF]

Sci Rep
Ghafouri-Kesbi F, Eskandarinasab M.
europepmc   +1 more source

YTHDC1 Is Essential for Postnatal Liver Development and Homeostasis

Advanced Science, EarlyView.
This study identifies YTHDC1 as a key regulator of postnatal liver development and disease. Hepatocyte‐specific deletion of Ythdc1 impairs hepatocyte maturation, causing liver injury, contributing to nonalcoholic steatohepatitis and hepatocellular carcinoma.
Xinzhi Li, Xueying Li, Chunhong Liu, Zhenzhi Li, Kaixin Ding, Yuxin Wang, Ning Gu, Liwei Xie, Zheng Chen   +8 more
wiley   +1 more source

Dissection of X chromosome dosage compensation for quantitative traits in sheep using different statistical models. [PDF]

Sci Rep
Ghafouri-Kesbi F, Eskandarinasab M.
europepmc   +1 more source

Mitigating Cell Cycle Effects in Multi‐Omics Data: Solutions and Analytical Frameworks

Advanced Science, EarlyView.
The study highlights the cell‐cycle effects on multi‐omics analysis attributed to varying cell cycle compositions across cell types. To minimize the influence, we propose RTD correction in CNV calling with a high S‐phase ratio, and phase comparison in chromatin accessibility, DNA methylation, and transcriptomics.
Rui Nie, Caihong Zheng, Likun Ren, Yue Teng, Yaoyu Sun, Lifei Wang, Junya Li, Jun Cai   +7 more
wiley   +1 more source