Moreover, using single-nuclei RNA sequencing, we provide the first comprehensive characterization of alterations in the adipose tissue microenvironment occurring ... K Carly M.,R Zachary,Dalia,BarayanSarah,RehouAbdikarim,AbdullahiLauar,de Brito MonteiroMarc G.,Jeschke - 《Annals of Surgery》 被引...
Here, we introduce a generic procedure for plant nuclei isolation combined with nanowell-based library preparation. Our method enables the transcriptome analysis of thousands of individual plant nuclei. It serves as alternative to the use of protoplast isolation, which is currently a standard ...
Furthermore, our sNucRNA-seq results uncovered the transcriptomes of additional cell subtypes not identified by single-cell RNA-seq. Similar to our transcriptomic approach, the sNucATAC-seq approach led to the distribution of the Arabidopsis nuclei into distinct clusters, suggesting the differential ...
J. Combining ATAC-seq with nuclei sorting for discovery of cis-regulatory regions in plant genomes. Nucleic Acids Res. 45, e41 (2017). Article PubMed CAS Google Scholar Ricci, W. A. et al. Widespread long-range cis-regulatory elements in the maize genome. Nat. Plants 5, 1237–1249 (...
Encountering Rhizobium, rapid changes of gene expression levels in host plants occur in the first few hours, which prepare the plants to turn off defence and form a symbiotic relationship with the microbes. Here, we applied single-nucleus RNA sequencing to characterize the roots of Medicago ...
Single-cell RNA-sequencing Spatial transcriptomics Plants scRNA-seq ST Single-nucleus RNA-sequencing snRNA-seq Introduction Plants, like all other multicellular organisms on earth, can be regarded as structured information. The information unit is the cell [1], whereas the information product is the ...
Single-cell RNA sequencing analysis identified 12 B-cell subtypes and characterized the transcriptomic heterogeneity of B cells in muscle-invasive bladder cancer (MIBC). The interferon-stimulated B-cell subtype (B-ISG15) and germinal center-associated B-cell subtypes (B-LMO2, B-STMN1) were signi...
Single-nuclei RNA-seq cleaning The gene expression matrices from all samples were combined in R independently for further processing using the Seurat (version 2.20, 2.30) pipeline. We processed the gene expression quantified for the pre-mRNA and mRNA references in parallel. We removed most of the...
Single-nuclei RNA sequencing characterizes cell types at the gene level. However, compared to single-cell approaches, many single-nuclei cDNAs are purely intronic, lack barcodes and hinder the study of isoforms. Here we present single-nuclei isoform RNA sequencing (SnISOr-Seq). Using microfluidics...
Seedlings were grown on petri dishes and those of the exosome mutants pooled together. Nuclei were prepared from leaves of 5-week-old plants. RNA extraction and library construction For the majority of samples, RNA was isolated with the RNeasy plant mini kit (QIAGEN – including on-column ...