双剑合璧|scRNA-seq与bulk RNA-seq联合分析 - 知乎 - 知乎专栏
网页2020年12月8日 · 该研究使用转录组学（scRNA-seq和bulk RNA-seq）和基于蛋白质组学的质谱分析（mass spectrometry-based proteomics）来量化young和old小鼠肺部30种细胞类型的细胞活性状态变化。. 作者发现，衰老会导致转录噪声增加，并且放松对表观遗传的控制。. 作者还观察了衰老对于细胞 ...
From bulk, single-cell to spatial RNA sequencing
网页2021年11月15日 · Bulk RNAseq studies average global gene expression, scRNAseq investigates single cell RNA biology up to 20,000 individual cells simultaneously, while spRNAseq has ability to dissect RNA...
De novo analysis of bulk RNA-seq data at spatially resolved
网页2022年10月30日 · Nature Communications - Current methods to reanalyze bulk RNA-seq at spatially resolved single-cell resolution have limitations. Here, the authors develop Bulk2Space, a spatial deconvolution ...
kallisto, bustools and kb-python for quantifying bulk, single-cell …
网页2 天之前 · In addition to single-cell and single-nucleus RNA-seq, kb count can be used for bulk RNA-seq. Bulk RNA-seq generally does not have UMIs or cell barcodes (although artificial unique sample-specific ...
Prime-seq, efficient and powerful bulk RNA sequencing
网页2022年3月31日 · Here, we optimize and validate prime-seq, an early barcoding bulk RNA-seq method. We show that it performs equivalently to TruSeq, a standard bulk RNA-seq method, but is fourfold more cost-efficient due to almost 50-fold cheaper library costs.
A combined analysis of bulk RNA-seq and scRNA-seq was
网页2024年10月4日 · Bulk RNA-seq underwent quality control, principal component analysis, and differential expression analysis. Results: In scRNA-seq data, the comparison between MI and sham groups unveiled a reduction in endothelial cell populations, but macrophages and monocytes increased. Within fibroblast subgroups, three …
From bulk, single-cell to spatial RNA sequencing - PubMed
网页2021年11月15日 · Bulk RNAseq studies average global gene expression, scRNAseq investigates single cell RNA biology up to 20,000 individual cells simultaneously, while spRNAseq has ability to dissect RNA activities spatially, representing next generation of RNA sequencing.
Searchlight: automated bulk RNA-seq exploration and visualisation using ...
网页2021年8月19日 · We show that Searchlight offers greater automation than current best tools (VIPER and BioJupies). We demonstrate in a timed re-analysis study, that alongside a standard bulk RNA-seq processing pipeline, Searchlight can be used to complete bulk RNA-seq projects up to the point of manuscript quality figures, in under 3 h.
GitHub - erilu/bulk-rnaseq-analysis: A complete guide for …
网页2020年3月1日 · A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression analysis using DESeq2, using example data from Guo et al. 2019. - erilu/bulk-rnaseq-analysis
Demystifying emerging bulk RNA-Seq applications: the ... - PubMed
网页2021年11月5日 · Practical RNA sequencing (RNA-Seq) applications have evolved in conjunction with sequence technology and bioinformatic tools advances. In most projects, bulk RNA-Seq data is used to measure gene expression patterns, isoform expression, alternative splicing and single-nucleotide polymorphisms.