Hello, I wanted to do single cell RNA seq on a very rare cytokine population. Which means I will have to do intracellular staining and then sort the cytokine producing cells. Inorder to detect cytokines, I will have to fix my cells and I read the fixing kills the cells and there is no RNA. is there a way to do single cell RNA seq on fixed cells ?? My single cell RNa seq system is by a company called Fluidgm (C1 system). Thanks !
•
written
by
shrish03 •
2 answers
In addition to the question of the quality of the RNA-seq libraries, I recommend to verify that your fixed cells can be efficiently captured in the C1 flow cells.
Sounds like a rather tricky experiment to me, perhaps the following paper is of interest for you: http://science.sciencemag.org/content/353/6294/78
Is there something else that characterizes your cells of interest? How rare is the population?
Log in to answer this question.
-
Psuedobulk analysis of single cell RNA-Seq data
written by evocanres •
-
single cell RNA-seq sequencing depth
written by samane.kh •
-
Any reason for scRNA data of mouse lung samples to fail to capture epithelial cells?
written by 윤여가(대학원 바이오정보학) •
-
Surat object UMAP - highlight cells based on Citeseq data
written by chi.delta •
-
Rare cell population in single cell ATAC-Seq
written by ahmad mousavi
-
single cell RNA-seq
written by nancy
-
Question about Fluidigm C1 System in Single Cell RNA seq
written by crystalize123 •
-
Reference list of cytokines/growth factors
written by sadeghdavoudi •
-
DEG detection with datasets generated with different sequencing protocol
written by Vanilla
-
comparing single cell RNA-seq and bulk RNA-seq results
written by saba.valadkhan •
You should ask this on seqanswers, as it is slightly off-topic for Biostars.