Single cell seqencing service

BEA core facility is introducing service with the 10X Genomics Chromium platforms allowing solutions for single cell genomics, characterization and gene expression profiling. The Chromium controller device, which is used for separating cells and reagent oligos, has been jointly bought by several departments and groups at KI south campus and is placed at ANA Futura.Questions concerning the single cell service at BEA can be answered by Fredrik Fagerstrom-Billai.

10X Genomics single cell gene expression

The 10 X Genomics Chromium single cell system enables the analysis of large cell numbers at the highest capture efficiency. The technology allows for high-throughput single cell transcriptomics of many different cell types. The workflow allows separation and encapsulation of hundreds to thousands of cells per library together with reagent beads into nano-droplets. The single-cell encapsulating process is fast and up to 8 cell populations can be separated in parallel within minutes. After library preparation and sequencing data can be analyzed with the free Cell Ranger and Loupe cell browser software.

Qiagen single cell solutions

QIAseq Ultraplex (UPX) 3' Transcriptome from Qiagen allows preparation of libraries for RNA-seq from single cells, cell pellets and ultralow amounts of purified RNA. During reverse transcription, each cell is tagged with a unique ID and each RNA molecule is tagged with a Unique Molecular Index (UMI). Following reverse transcription with integrated template switching, all individually tagged cDNAs can be combined, which enables all subsequent library construction steps to be performed in a single tube. Reagents are intended for library construction of cell pellets (up to 100 cells) and purified RNA (10 pg to 1 ng). Please contact BEA if you are interested to run a pilot project.

Takara SMRT seq

For ultra low input amounts and single cell scale transcriptomics we provide different solutions for library preparation. At BEA we have used the SMART-Seq cDNA syntheis reagents from Takara with good results. Input material can be of different origin. Purified Total RNA, cells in lysis buffer or degraded FFPE samples can serve as input material in the analysis.