Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

An optimized protocol for retina single-cell RNA sequencing [scRNA-Seq]

ABSTRACT: In this work, we compared different protocols to prepare single-cell suspensions used for scRNAseq and suggest an optimized dissociation protocol for mouse retina, which preserves cell morphology to a higher level leading to an overall increase of gene number per cell. We compared scRNAseq libraries generated with our optimized protocol to publicly available scRNAseq data of mouse retina. We further demonstrate a pipeline to reduce noise in scRNAseq caused by multiplets and ambient RNA.

ORGANISM(S): Mus musculus

PROVIDER: GSE153673 | GEO | 2020/10/23

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

An optimized protocol for retina single-cell RNA sequencing [snRNA-Seq]

Project description:In this work, we compared different protocols to prepare single-cell suspensions used for scRNAseq and suggest an optimized dissociation protocol for mouse retina, which preserves cell morphology to a higher level leading to an overall increase of gene number per cell. We compared scRNAseq libraries generated with our optimized protocol to publicly available scRNAseq data of mouse retina. We further demonstrate a pipeline to reduce noise in scRNAseq caused by multiplets and ambient RNA.

2020-10-23 | GSE153672 | GEO

An optimized protocol for retina single-cell RNA sequencing

Project description:An optimized protocol for retina single-cell RNA sequencing

| PRJNA643586 | ENA

An optimized protocol for retina single-cell RNA sequencing [snRNA-Seq]

Project description:An optimized protocol for retina single-cell RNA sequencing [snRNA-Seq]

| PRJNA643590 | ENA

An optimized protocol for retina single-cell RNA sequencing [scRNA-Seq]

Project description:An optimized protocol for retina single-cell RNA sequencing [scRNA-Seq]

| PRJNA643589 | ENA

An optimized protocol for single cell transcriptional profiling by combinatorial indexing

Project description:Single cell combinatorial indexing RNA sequencing (sci-RNA-seq) is a powerful method for recovering gene expression data from an exponentially scalable number of individual cells or nuclei. However, sci-RNA-seq is a complex protocol that has historically exhibited variable performance on different tissues, as well as lower sensitivity than alternative methods. Here we report a simplified, optimized version of the three-level sci-RNA-seq protocol that is faster, higher yield, more robust, and more sensitive, than the original sci-RNA-seq3 protocol, with reagent costs on the order of 1 cent per cell or less. We showcase the optimized protocol via whole organism analysis of an E16.5 mouse embryo, profiling ~380,000 nuclei in a single experiment. Finally, we introduce a “tiny sci-*” protocol for experiments where input is extremely limited.

2021-11-05 | GSE186824 | GEO

LC-MS/MS Analysis Explored the Gluten Map in beers Combined with Optimized Extraction Protocol

Project description:We optimized the extraction protocol of gluten in beer, investigated the deamidated gluten peptides and gluten fragments in beer, and explored the gluten map of eight commercial beers using optimized gluten extraction protocol followed by LC-MS/MS analysis.

2021-01-04 | PXD023387 |

An optimized protocol for single cell transcriptional profiling by combinatorial indexing

Project description:An optimized protocol for single cell transcriptional profiling by combinatorial indexing

| PRJNA776254 | ENA

Optimized ATAC-seq library preparation from Drosophila neurons

Project description:We optimzed ATAC-seq library preparation for use with Drosophila melanogaster. The protocol addresses factors specific to fruit flies, such as the insect exoskeleton and smaller genome size. The optimized protocol provides guidelines for sample input, nuclei isolation, and enzymatic reaction times. The data included here were generated using our optimized library preparation workflow.

2022-04-20 | GSE197760 | GEO

An optimized protocol for isolation of hepatic leukocytes retrieved from murine and NASH liver biopsies

Project description:An optimized protocol for isolation of hepatic leukocytes retrieved from murine and NASH liver biopsies

| PRJNA957706 | ENA

Optimized CUT&RUN protocol for a non-histone protein in activated primary mouse B cells

Project description:Optimized CUT&RUN protocol for a non-histone protein in activated primary mouse B cells

| PRJNA1130422 | ENA