Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

SMARTer single cell total RNA sequencing [NGP]

ABSTRACT: SMARTer single cell total RNA sequencing [NGP]

PROVIDER: PRJNA490740 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7826630.fastq.gz	Fastqsanger.gz
	SRR7826640.fastq.gz	Fastqsanger.gz
	SRR7826650.fastq.gz	Fastqsanger.gz
	SRR7826660.fastq.gz	Fastqsanger.gz
	SRR7826670.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 147

Similar Datasets

SMARTer single cell total RNA sequencing [NGP]

Project description:single cell polyA+ and total RNA-seq data was generated for NGP, SK-N-BE-2C and SHSY5Y-MYCN-TR cells

2019-01-01 | GSE119936 | GEO

SMARTer single cell total RNA sequencing

Project description:SMARTer single cell total RNA sequencing

| PRJNA490894 | ENA

SMARTer single cell total RNA sequencing [SHSY5Y-MYCN-TR]

Project description:single cell polyA+ and total RNA-seq data was generated for NGP, SK-N-BE-2C and SHSY5Y-MYCN-TR cells

2019-01-01 | GSE119982 | GEO

SMARTer single cell total RNA sequencing [SK-N-BE-2C]

Project description:single cell polyA+ and total RNA-seq data was generated for NGP, SK-N-BE-2C and SHSY5Y-MYCN-TR cells

2019-01-01 | GSE119983 | GEO

SMARTer single cell total RNA sequencing [FACS sorted cells]

Project description:SMARTer single cell total RNA sequencing [FACS sorted cells]

| PRJNA540673 | ENA

SMARTer single cell total RNA sequencing [SHSY5Y-MYCN-TR]

Project description:SMARTer single cell total RNA sequencing [SHSY5Y-MYCN-TR]

| PRJNA490895 | ENA

SMARTer single cell total RNA sequencing [SK-N-BE-2C]

Project description:SMARTer single cell total RNA sequencing [SK-N-BE-2C]

| PRJNA490896 | ENA

SMARTer single cell total RNA sequencing.

Project description:Single cell RNA sequencing methods have been increasingly used to understand cellular heterogeneity. Nevertheless, most of these methods suffer from one or more limitations, such as focusing only on polyadenylated RNA, sequencing of only the 3' end of the transcript, an exuberant fraction of reads mapping to ribosomal RNA, and the unstranded nature of the sequencing data. Here, we developed a novel single cell strand-specific total RNA library preparation method addressing all the aforementioned shortcomings. Our method was validated on a microfluidics system using three different cancer cell lines undergoing a chemical or genetic perturbation and on two other cancer cell lines sorted in microplates. We demonstrate that our total RNA-seq method detects an equal or higher number of genes compared to classic polyA[+] RNA-seq, including novel and non-polyadenylated genes. The obtained RNA expression patterns also recapitulate the expected biological signal. Inherent to total RNA-seq, our method is also able to detect circular RNAs. Taken together, SMARTer single cell total RNA sequencing is very well suited for any single cell sequencing experiment in which transcript level information is needed beyond polyadenylated genes.

| S-EPMC6895261 | biostudies-literature

Total RNA sequencing in human biofluids and extracellular vesicles using SMARTer technology

Project description:Transcriptome profiling has emerged as a powerful tool to investigate the biomarker potential of human biofluids. However, despite an enormous interest in extracellular nucleic acids, total RNA sequencing methods to quantify RNA content outside cells are rare. Here, we evaluate the performance of the SMARTer Stranded Total RNA-Seq method in human platelet-rich plasma, platelet-poor plasma, urine, conditioned medium, and extracellular vesicles from these biofluids.

2019-09-01 | GSE131689 | GEO

Single cell RNA-sequencing of Spike-ins and mESC using SMARTer on C1 System

Project description:In this study, we assess technical differences between commonly used single-cell RNA-Sequencing (scRNA-Seq) methods. We perform scRNA-seq on a homogenous population of mouse embryonic stem cells along with two kinds of control spike-in molecules to assess sensitivity and accuracy of these specific methods. In this dataset, we perform SMARTer method on Fluidigm C1 system and generate single-cell libraries using Nextera XT kit

2017-03-28 | E-MTAB-5483 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data