In this tutorial, we demonstrate how to:
(t-SNE, classify cells, pool cells, PCA, GSA, heatmap, GO, KEGG)
The tutorial is based on the work published by Venteicher and co-workers, focusing on the role of microenvironemnt in the biology of two types of isocitrate dehydrogenase-mutant gliomas: astrocytoma and oligodendorglyoma. Single cells were processed by flow cytometry and the libraries were prepared by Smart-seq2 protocol. The tutorial data set consists of eight expression matrix files, one per patient (four patients with astrocytoma and four patients with oligodendroglyoma). The matrix files contain gene expression values normalized by the following transformation log2[(TPM/10)+1]
|