Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells

ABSTRACT: We assessed Smart-Seq, a new single-cell RNA-Seq library preparation method, on a variety of mouse and human RNA samples or cells.

ORGANISM(S): Mus musculus Homo sapiens

PROVIDER: GSE38495 | GEO | 2012/07/22

SECONDARY ACCESSION(S): PRJNA170814

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells

Project description:We assessed Smart-Seq, a new single-cell RNA-Seq library preparation method, on a variety of mouse and human RNA samples or cells. We generated RNA-Seq libraries for dilution series of MAQC reference RNA and mouse brain RNA to assess technical reproducibility, and for a variety of individual cells including putative circulating tumour cells.

2012-07-22 | E-GEOD-38495 | biostudies-arrayexpress

Full-length mRNA sequencing reveals principles of poly(A) tail length control

Project description:We report FLAM-seq, a cDNA library preparation method coupled to PacBio single-molecule sequencing for profiling full-length mRNAs including their poly(A) tail.

2019-06-04 | GSE126465 | GEO

Benchmarking full-length transcript single cell mRNA sequencing protocols

Project description:Here we present a performance evaluation of three different plate-based scRNA-seq protocols. Two commercially available kits; NEBNext Single Cell/ Low Input RNA Library Prep Kit (NEB), SMART-seq HT kit (Takara), and non-commercially available protocol Genome & transcriptome sequencing (G&T). We evaluated each kit based upon sensitivity, reproducibility, ease of use and price point per cell. This evaluation is specifically relevant for implementation of scRNA-seq in e.g. diagnostics, requiring high sensitivity in regards of gene detection, high reproducibility between samples, minimum hands on time and smooth sample preparation for technicians, as well as keeping a reasonable price point per patient. G&T protocol delivered the highest detection of genes per single cell, at the absolute lowest price point. Takara's kit delivered likewise high gene detection per single cell, and high reproducibility between sample, however at the absolute highest price points. Here we present pros and cons of each protocol, sequencing breast cancer cell line T47D.

2020-08-01 | GSE155506 | GEO

Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells

Project description: Not available

| S-ECPF-GEOD-38495 | biostudies-other

Improved Smart-Seq for sensitive full-length transcriptome profiling in single cells

Project description:Improved Smart-Seq for sensitive full-length transcriptome profiling in single cells. Cells of four different origins were profiled using commercial SMARTer and compared to five variants of an improved protocol (Smart-Seq2).

2013-09-01 | E-GEOD-49321 | biostudies-arrayexpress

Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells.

Project description: Not available

| S-EPMC3467340 | biostudies-literature

Improved Smart-Seq for sensitive full-length transcriptome profiling in single cells

Project description:Improved Smart-Seq for sensitive full-length transcriptome profiling in single cells.

2013-09-01 | GSE49321 | GEO

Sequencing Universal Human Reference RNA by Smart-seq and early barcoding library preparation methods

Project description:Many library preparation methods are available for gene expression quantification. Here, we sequenced and analysed Universal Human Reference RNA (UHRR) prepared using Smart-Seq2, TruSeq (public data) and a protocol using unique molecular identifiers (UMIs) that all include the ERCC spike-in mRNAs to investigate the effects of amplification bias on expression quantification. UHRR 10 and 12 replicates for Smart-seq2 and UMI-seq library preparation methods, respectively.

2016-05-13 | E-GEOD-75823 | biostudies-arrayexpress

CapTrap-Seq: A platform-agnostic and quantitative approach for high-fidelity full-length RNA transcript sequencing

Project description:Here we describe CapTrap-Seq, an experimental workflow designed to address the problem of reduced transcript end detection by long-read RNA sequencing methods, especially at the 5' ends. We apply CapTrap-Seq to profile transcriptomes of the human heart and brain and we compared the obtained results with other library preparation approaches. CapTrap-Seq is a platform-agnostic method and here tested the method by using 3 different long-read sequencing platforms: MinION (ONT), Sequel (PacBaio) and Sequel II (PacBio).

2023-12-20 | E-MTAB-13063 | biostudies-arrayexpress

Increased circulating full-length betatrophin levels in drug-naive metabolic syndrome.

Project description: Not available

| S-EPMC5392266 | biostudies-literature