之前我们探讨了Bulk RNA-seq的价值和学习成本(第1期. 快2024年了,还有必要学习Bulk RNA-seq?),并一起零基础完成了主成分分析(PCA)图(第2期. 零基础画PCA图)。今天我们穿插一个在转录组测序中常用的知识点与技能:不同基因ID的转换。本文将从3个方面分享:有哪些常见的基因ID类型、为什么要进行基因ID转换、如...
RNA-SeqAlzheimer’s diseaseBiomarkerDrug discoveryAlzheimer's disease (AD) poses a major challenge due to its impact on the elderly population and the lack of effective early diagnosis and treatment options. In an effort to address this issue, a study focused on identifying potential biomarkers ...
We have analyzed two blood RNA-seq datasets (BLUEPRINT and GTEx whole blood) and three brain RNA-seq datasets (CMC schizophrenia (SCZ), CMC control, and GTEx brain). It is interesting to study the consistency of eQTL results across datasets. Overall, CSeQTL results showed a higher level of...
The human bulk RNA-seq datasets GSE130174 and GSE123968 were combined for primary analysis. Consensus clustering analysis was performed with “ConsensusClusterPlus” package. Based on the expression levels of CRGs, CCMs were stratified into clusters through consensus clustering involving 50 iterations, ...
an integrative analysis of 34 scRNA-Seq datasets, which consisted of 345 patients and 663,760 cells across 17 cancer types 作者使用的都是已发表数据 Sth to learn: 利用一种细胞干性去和免疫治疗联合分析,主要在于用单细胞发现这个现象,剩下用bulk数据验证。
第三步,Genes present in both the scRNA-seq and the bulk RNA-seq data were retained and both datasets were merged(merge数据)。 第四步,ed. Using Seurat each scRNA-seq donor or bulk RNA-seq run was processed separately during normalization, with highly variable gene selection, data scaling and...
Validation was further performed by using a series of bulk RNA-seq data (GSE207422, GSE126044 and PRJEB23709; Fig. 4G–I). In another two RNA-seq datasets for advanced non-small cell lung cancer (NSCLC) patients who were treated with immunotherapy ± chemotherapy (GSE135222 and Orient...
Rapid analysis and visualisation for bulk RNA-seq, psuedo-bulk RNA-seq, GeoMx and Proteomic datasets. - Searchlight2/Searchlight2
We downloaded bulk RNA-seq datasets associated with DFU from the GEO database, and datasets that matched the following criteria were included in the present study: Firstly, the dataset is expected to contain unbiased gene expression data, complete annotation information. Second, the DFU patients inc...
We downloaded bulk RNA-seq datasets associated with DFU from the GEO database, and datasets that matched the following criteria were included in the present study: Firstly, the dataset is expected to contain unbiased gene expression data, complete annotation information. Second, the DFU patients inc...