What is scRNA-seq used for?

scRNA-Seq is a very powerful method that allows transcriptomic analysis of heterogeneous tissue, or dynamic processes in one single experiment. Without microdissection or FACS-sorting, samples can be directly prepared for the scRNA-Seq protocol.

What is smart seq?

Smart-Seq and Smart-Seq2: Switch Mechanism at the 5′ End of RNA Templates Smart-Seq was developed as a single-cell sequencing protocol with improved read coverage across transcripts. Complete coverage across the genome allows the detection of alternative transcript isoforms and SNPs.

What is Mars seq?

MARS-seq is an automated scRNA-seq method in which single cells from the target population are FACS-sorted into 384-well plates that contain lysis buffer (21). The 384-well plates can be stored for long periods prior to sample processing, which allows considerable flexibility with regards to time management.

What is microwell seq?

Here, we describe Microwell-seq, a simple method to profile thousands of single cells by transcriptome analysis utilizing an agarose-constructed microwell array and barcoded beads. Microwell-seq has advantages in convenience and simplicity, which should make the method widely accessible.

Is scRNA-seq expensive?

Cost is $3050 for a run (of up to 15 samples combined) and typically results in 400 million reads. $6600 for 4 samples (can handle 4 at a time on the 10X machine) we typically plan to capture 1000 cells per sample with library prep through the BU core.

What is bulk RNA-seq?

Bulk RNA-sequencing is the method of choice for transcriptomics analysis of pooled cell populations, tissue sections or biopsies. This method has been instrumental in the development of many single-cell RNA sequencing methods.

How expensive is single cell RNA-seq?

Library preparation

Assay Type	Cost for first sample	Cost per Additional Sample (up to 8 total)
3’/5′ Gene Expression	$2,916	$1610
Additional TCR, BCR or Feature Barcode additions	$242	$30
Single Cell ATAC-seq	$2,916	$1610
Combined Single Cell RNA-seq and ATAC-seq	$5,001	$2,676

Is 10X drop-seq?

Drop-seq performs only slightly worse than 10X Genomics, but is substantially cheaper, making it an attractive choice for labs. The largely open-source nature of Drop-seq (except for the beads), also enables technical modification and development.

What SPLiT seq?

Identifying single-cell types in the mouse brain describe a strategy called split-pool ligation-based transcriptome sequencing, or SPLiT-seq, which uses combinatorial barcoding to profile single-cell transcriptomes without requiring the physical isolation of each cell.

What is smart SEQ 2?

Method Category: Transcriptome > RNA Low-Level Detection. Description: For Smart-Seq2, single cells are lysed in a buffer that contains free dNTPs and oligo(dT)-tailed oligonucleotides with a universal 5′-anchor sequence. RT is performed, which adds 2–5 untemplated nucleotides to the cDNA 3′ end.

What is scRNA-seq?

Sensitive and powerful single-cell RNA sequencing using mcSCRB-seq Single-cell RNA sequencing (scRNA-seq) has emerged as a central genome-wide method to characterize cellular identities and processes. Consequently, improving its sensitivity, flexibility, and cost-efficiency can advance many research questions.

What is the difference between SCRB-seq and mcscrb-seq?

mcSCRB-seq is an improvement over the original SCRB-seq by using a crowding reagent during RT and other stuff. Check the manuscripts for more details. The libray construction strategy is the same.

Who provided the SCRB-seq protocol?

We are grateful to Magali Soumillon and Tarjei Mikkelsen for providing the original SCRB-seq protocol and to Stefan Krebs and Helmut Blum for sequencing. We would like to thank Elena Winheim for the PBMC sample.

What is single-cell RNA sequencing (scRNA-seq)?

… Single-cell RNA sequencing (scRNA-seq) has emerged as a central genome-wide method to characterize cellular identities and processes. Consequently, improving its sensitivity, flexibility, and cost-efficiency can advance many research questions.