A resource for whole-body gene expression map of human tissues based on integration of single cell and bulk transcriptomics [0.03%]
基于单细胞和批量转录组学整合的人类组织全基因表达图谱资源
Mengnan Shi,Loren Méar,Max Karlsson et al.
Mengnan Shi et al.
New technologies enable single-cell transcriptome analysis, mapping genome-wide expression across the human body. Here, we present an extended analysis of protein-coding genes in all major human tissues and organs, combining single-cell and...
DeepGFT: identifying spatial domains in spatial transcriptomics of complex and 3D tissue using deep learning and graph Fourier transform [0.03%]
基于深度学习和图傅里叶变换的复杂及三维组织空间转录组学区域识别
Shuli Sun,Jixin Liu,Guojun Li et al.
Shuli Sun et al.
The rapid advancements in spatially resolved transcriptomics (SRT) enable the characterization of gene expressions while preserving spatial information. However, high dropout rates and noise hinder accurate spatial domain identification for...
Publisher Correction: Analyzing the relationship of RNA and DNA methylation with gene expression [0.03%]
出版更正：分析RNA和DNA甲基化与基因表达之间的关系
Shangqian Xie,Darren Hagen,Gabrielle M Becker et al.
Shangqian Xie et al.
Published Erratum
Genome biology. 2025 Jun 3;26(1):151. DOI:10.1186/s13059-025-03632-4 2025
Yi Wang,Kyla Woyshner,Chaichontat Sriworarat et al.
Yi Wang et al.
Analyzing multi-sample spatial transcriptomics data requires accounting for biological variation. We present multi-sample non-negative spatial factorization (mNSF), an alignment-free framework extending single-sample spatial factorization t...
Differential epigenetic regulation by blue and UV-A light reveals the key role of CsSDG36-mediated H3K4 methylation in leaf development and secondary metabolism in Camellia sinensis [0.03%]
蓝光和UV-A光的差异表观调控揭示了CsSDG36介导的H3K4甲基化在茶树叶片发育及次生代谢中的关键作用
Pu Wang,Hong Zhang,Yongli Yin et al.
Pu Wang et al.
Background: There is a Chinese proverb that good tea comes from high mountains with clouds and mists, suggesting the important impact of environmental factors on the development and secondary metabolism in tea plants. How...
Microbial inoculants modulate the rhizosphere microbiome, alleviate plant stress responses, and enhance maize growth at field scale [0.03%]
微生物制剂可以调节根际微生态系统，缓解植物应对逆境的生理反应，并在田间尺度上增加玉米产量
Davide Francioli,Ioannis D Kampouris,Theresa Kuhl-Nagel et al.
Davide Francioli et al.
Background: Field inoculation of crops with beneficial microbes is a promising sustainable strategy to enhance plant fitness and nutrient acquisition. However, effectiveness can vary due to environmental factors, microbia...
The impact of PCR duplication on RNAseq data generated using NovaSeq 6000, NovaSeq X, AVITI, and G4 sequencers [0.03%]
PCR复制对使用NovaSeq 6000、NovaSeq X、AVITI和G4测序仪生成的RNAseq数据的影响
Natalia Zajac,Ioannis S Vlachos,Sija Sajibu et al.
Natalia Zajac et al.
Background: Transcriptome sequencing (RNA-seq) is a powerful technology for gene expression profiling. Selection of optimal parameters for cDNA library generation is crucial for acquisition of high-quality data. In this s...
Rapid reprogramming and stabilization of homoeolog expression bias in hexaploid wheat biparental populations [0.03%]
六倍体小麦杂种群体中的基因表达偏向快速重塑及稳定化现象研究
Marek Glombik,Ramesh Arunkumar,Samuel Burrows et al.
Marek Glombik et al.
Background: Differences in the relative level of expression of homoeologs, known as homoeolog expression bias, are widely observed in allopolyploids. While the evolution of homoeolog expression bias through hybridization ...
Non-cyanobacterial diazotrophs support the survival of marine microalgae in nitrogen-depleted environment [0.03%]
固氮非蓝藻菌在氮耗尽的环境中支持海洋微藻的存活
Udita Chandola,Marinna Gaudin,Camille Trottier et al.
Udita Chandola et al.
Background: Non-cyanobacteria diazotrophs (NCDs) are shown to dominate in surface waters shifting the long-held paradigm of cyanobacteria dominance. This raises fundamental questions on how these putative heterotrophic ba...
Linda Shearwin-Whyatt,Jane Fenelon,Hongshi Yu et al.
Linda Shearwin-Whyatt et al.
Background: Egg-laying mammals (monotremes) evolved multiple sex chromosomes independently of therian mammals and lack the sex-determining gene SRY. The Y-localized anti-Müllerian hormone gene (AMHY) is the candidate sex...