Disentangling cell-intrinsic and cell-extrinsic factors underlying evolution [0.03%]
解开进化中内在和外在细胞因素的复杂关系
Alexander L Starr,Toshiya Nishimura,Kyomi J Igarashi et al.
Alexander L Starr et al.
A long-standing question in biology is the extent to which cells function autonomously as opposed to requiring interactions with other cells or environmental factors. Here, we develop a framework to use interspecies chimeras to precisely de...
Unraveling an enhancer-silencer regulatory element showing epistatic interaction with a variant that escaped genome-wide association studies [0.03%]
揭示与全基因组关联研究中未发现的变异位点互作的增强子-沉默子元件
Mathieu Adjemout,Samia Nisar,Amélie Escandell et al.
Mathieu Adjemout et al.
Regulation of gene expression has recently been complicated by identifying Epromoters, a subset of promoters with enhancer function. Here, we uncovered a dual cis-regulatory element, "ESpromoter," exhibiting both enhancer and silencer funct...
Early establishment and life course stability of sex biases in the human brain transcriptome [0.03%]
人类大脑转录组的性别差异的早期建立及一生性的稳定性
Clara Benoit-Pilven,Juho V Asteljoki,Jaakko T Leinonen et al.
Clara Benoit-Pilven et al.
To elaborate on the origins of the established male-female differences in several brain-related phenotypes, we assessed the patterns of transcriptomic sex biases in the developing and adult human forebrain. We find an abundance of sex diffe...
Single-cell profiling of bone metastasis ecosystems from multiple cancer types reveals convergent and divergent mechanisms of bone colonization [0.03%]
多种癌症骨转移生态系统的单细胞测序揭示了骨转移的同源和自主机制
Fengshuo Liu,Yunfeng Ding,Zhan Xu et al.
Fengshuo Liu et al.
Bone is a common site for metastasis of solid cancers. The diversity of histological and molecular characteristics of bone metastases (BMs) remains poorly studied. Here, we performed single-cell RNA sequencing on 42 BMs from eight cancer ty...
Sequential activation of transcription factors promotes liver regeneration through specific and developmental enhancers [0.03%]
转录因子的连续激活通过特定和发育性增强子促进肝再生
Palmira Llorens-Giralt,Marina Ruiz-Romero,Ramil Nurtdinov et al.
Palmira Llorens-Giralt et al.
The mammalian liver exhibits remarkable regenerative capabilities after injury or resection. Central to this process is the precise modulation of gene expression, driven by changes in chromatin structure and the temporal activation of dista...
CellWalker2: Multi-omic discovery using hierarchical cell type relationships [0.03%]
细胞图谱的层次关系引导的多组学分析框架CELLWALKER2
Zhirui Hu,Pawel F Przytycki,Katherine S Pollard
Zhirui Hu
Tissues are composed of cells with a wide range of similarities to each other, yet existing methods for single-cell genomics treat cell types as discrete labels. To address this gap, we developed CellWalker2, a graph diffusion-based model f...
An ancient regulatory variant of ACSF3 influences the coevolution of increased human height and basal metabolic rate via metabolic homeostasis [0.03%]
一个古老的ACSF3调控型变体通过代谢稳态影响人类身高的增加和基础代谢率的协同共进化
Yufeng Zhang,Jie Wang,Chuanyou Yi et al.
Yufeng Zhang et al.
Anatomically modern humans (AMHs) exhibit a significant increase in basal metabolic rate (BMR) and height compared to non-human apes. This study investigates the genetic basis underlying these traits. Our analyses reveal a strong genetic co...
Evaluating methods for the prediction of cell-type-specific enhancers in the mammalian cortex [0.03%]
评价预测哺乳动物皮层细胞类型特异性增强子的方法
Nelson J Johansen,Niklas Kempynck,Nathan R Zemke et al.
Nelson J Johansen et al.
Identifying cell-type-specific enhancers is critical for developing genetic tools to study the mammalian brain. We organized the "Brain Initiative Cell Census Network (BICCN) Challenge: Predicting Functional Cell Type-Specific Enhancers fro...
Systematic analysis of nonsense variants uncovers peptide release rate as a novel modifier of nonsense-mediated mRNA decay [0.03%]
系统分析无意义变异揭示多肽释放速率是无意义介导的mRNA降解的新调节因子
Divya Kolakada,Rui Fu,Nikita Biziaev et al.
Divya Kolakada et al.
The phenotypic impact of nonsense variants is determined by nonsense-mediated mRNA decay (NMD), which degrades transcripts with premature termination codons (PTCs). Despite the clinical importance of nonsense variants, transcript-specific a...
Samuel Ogden,Nasrine Metic,Ozen Leylek et al.
Samuel Ogden et al.
Phenotypic heterogeneity and plasticity in colorectal cancer (CRC) has a crucial role in tumor progression, metastasis, and therapy resistance. However, the regulatory factors and the extrinsic signals driving phenotypic heterogeneity remai...