Platform foR SinglE Cell GenomIcS and Epigenomics (PRECISE)

FLASH-seq is an innovative full-length single-cell RNA sequencing method with high sensitivity that necessitates minimal manual intervention, as the protocol can be performed automation-friendly from lysed cells to pooled cDNA libraries in less than five hours (Hahaut et al., 2021, Nat Biotech). 

Simultaneous electrophysiological, transcriptomic and morphologic profiling of single cells (Cadwell et al., 2016, Nat Biotech) based on the patch clamp technique and SMART-seq2 method.

PRECISE was the only alpha-tester in Europe for this technology, which is based on the CytoSeq method (Fan et al., 2015, Science) and allows the 3´-end sequencing of up to 50K cells/experiment with targeted (partly) customizable gene panels (500 or 1000 genes) or of the whole transcriptome. Rhapsody uses microwell arrays for single-cell capture and is equipped with an imaging system for cell visualization and counting. The price for sequencing of a targeted panel is considerably lower since it does not require the analysis of the entire transcriptome. Rhapsody samples can be multiplexed and/or surface proteins can be simultaneously quantified during RNA-Seq based on the CITE-Seq method (Stoeckius et al., 2017, Nat Methods).

BD Rhapsody enables thanks to its modular approach the simultaneous measurement of: 

- whole transcriptome and targeted mRNA expression

- surface protein expression

- T and B cell receptor profiles (TCR and BCR)

-chromatin accessibility throughout the genome (ATAC)

The commercial emulsion droplet method of 10x Genomics allows to analyze tens of thousands of cells in parallel in a robust and reproducible way (Zilionis et al., 2017, Nat Protoc).

A “split-and-pool”  3´-sequencing method based on an approach that makes use of combinatorial indexing and Tn5 transposase (Cao et al., 2017, Science). SciRNA-seq works on fixed cells, does not require single cell sorting and is easily scalable to thousands of cells, thus reducing the per cell library preparation cost.

A method capable of isolating RNA from fixed, permeabilized, stained, and sorted cells which is later converted to sequencing library with the Smart-seq2 method. Currently the method works with >400 cells (Thomsen et al., 2016, Nat Methods).

High-precision long-read sequencing (also known as HiFi sequencing) enables full-length RNA sequencing and helps to identify RNA isoforms that may be important in the development of neurodegenerative diseases or to elucidate biological functions. HiFi sequencing leads to more information and new applications such as full-length mRNA sequencing, discovery of new isoforms, comprehensive variant detection or targeted sequencing at the single-cell level (Healey et al., 2022, Genetics). 

SHARE-seq is a scalable method to analyse chromatin accessibility and gene expression in the same single cell across tissues. SHARE-seq combines and sequences high-throughput ATAC and RNA expression (Ma et al., 2020, Cell).