2019年的A Single-Cell Immune Atlas of Triple Negative Breast Cancer Reveals Novel Immune Cell Subsets,链接是:https://www.biorxiv.org/content/10.1101/566968v1
2018年的Comprehensive analysis of immune evasion in breast cancer by single-cell RNA-seq,链接是:https://www.biorxiv.org/content/10.1101/368605v2
《Reprogramming roadmap reveals route to human induced trophoblast stem cells》,链接是https://www.nature.com/articles/s41586-020-2734-6
GSE150311 (scRNA-seq experiments of intermediates during human primed and naive reprogramming);
GSE150637 (scRNA-seq experiments of day 21 reprogramming intermediates cultured under fibroblast condition, naive pluripotent and trophoblast stem cell conditions);
GSE147564 (snRNA-seq experiments of intermediates during human primed and naive reprogramming);
GSE147641 (ATAC-seq experiments of intermediates during human primed and naive reprogramming);
GSE150590 (ATAC-seq experiments of iTS cells);
GSE149694 (bulk RNA-seq experiments of intermediates during human primed and naive reprogramming);
GSE150616 (bulk RNA-seq experiments of iTS cells and their derived placenta subtypes).
还得开发网页工具:interactive online tool (http://hrpi.ddnetbio.com/) ,公布全部的代码:Scripts can be found at https://github.com/SGDDNB/hrpi.
Cutoffs of nUMI > 15,000, nGene < 1,200 and nUMI > 50,000, nGene < 1,800, pctMT > 12, pctHK < 10 were applied to discard cells for the snRNA-seq and scRNA-seq, respectively.
单细胞转录组的细胞数量超级大:
After quality control, 36,597 cells and 17,004 genes, and 7,194 cells and 12,246 genes, remained for the snRNA-seq and scRNA-seq, respectively.
其它单细胞组学我已经没有精力去follow了
就像我一直强调的,每个人的时间精力是有限的,如果你的R和Linux基础知识扎实,其实学一个新的组学超级简单。但是太多的初学者总是一上来就问单细胞ATAC-seq怎么做,其实satijalab的seurat官网文档写的清清楚楚,Integrate scRNA-seq data with scATAC-seq data, https://satijalab.org/seurat/v3.1/atacseq_integration_vignette.html
classify scATAC-seq cells based on scRNA-seq clusters
coembed scATAC-seq and scRNA-seq data
就算你各个地方去找教程,最后不都是翻译了它官网的材料吗?何不静下心来,看文档!
如果单细胞多组学数据分析很难
当然了,做多组学单细胞数据分析起来也是难度多多,另外一条路就是实验材料要新颖:https://doi.org/10.1038/s41586-020-2797-4 ,该研究由哈佛医学院、剑桥大学和帝国理工学院等机构的科学家共同进行,并于9月24日发表在**《自然》杂志上,题为“Cells of the adult human heart”。该研究是人类细胞图谱计划(Human Cell Atlas)的一部分,该项目由Chan Zuckerberg Initiative资助**,计划绘制人体中每种细胞的图谱。绘制人类心脏细胞图谱,能够更好地了解心脏疾病,并指导高度个性化治疗方法的发展。