Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

High-Throughput Microdissection for Next-Generation Sequencing

ABSTRACT: High-Throughput Microdissection for Next-Generation Sequencing

PROVIDER: PRJEB12687 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR1254533.fastq.gz	Fastqsanger.gz
	ERR1254534.fastq.gz	Fastqsanger.gz
	ERR1254535.fastq.gz	Fastqsanger.gz
	ERR1254536.fastq.gz	Fastqsanger.gz
	ERR1254537.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

High-Throughput Microdissection for Next-Generation Sequencing.

Project description:Precision medicine promises to enhance patient treatment through the use of emerging molecular technologies, including genomics, transcriptomics, and proteomics. However, current tools in surgical pathology lack the capability to efficiently isolate specific cell populations in complex tissues/tumors, which can confound molecular results. Expression microdissection (xMD) is an immuno-based cell/subcellular isolation tool that procures targets of interest from a cytological or histological specimen. In this study, we demonstrate the accuracy and precision of xMD by rapidly isolating immunostained targets, including cytokeratin AE1/AE3, p53, and estrogen receptor (ER) positive cells and nuclei from tissue sections. Other targets procured included green fluorescent protein (GFP) expressing fibroblasts, in situ hybridization positive Epstein-Barr virus nuclei, and silver stained fungi. In order to assess the effect on molecular data, xMD was utilized to isolate specific targets from a mixed population of cells where the targets constituted only 5% of the sample. Target enrichment from this admixed cell population prior to next-generation sequencing (NGS) produced a minimum 13-fold increase in mutation allele frequency detection. These data suggest a role for xMD in a wide range of molecular pathology studies, as well as in the clinical workflow for samples where tumor cell enrichment is needed, or for those with a relative paucity of target cells.

| S-EPMC4801357 | biostudies-literature

High-throughput SuperSAGE for digital gene expression analysis of multiple samples using Next Generation Sequencing

Project description:We established a protocol of the SuperSAGE technology combined with next-generation sequencing, coined “High-Throughput (HT-) SuperSAGE”. SuperSAGE is a method of digital gene expression profiling that allows isolation of 26-bp tag fragments from expressed transcripts. In the present protocol, index (barcode) sequences are employed to discriminate tags from different samples. Such barcodes permit to enable researchers to analyze digital tags from many transcriptomes of many samples in a single sequencing run by simply pooling the libraries. Here, we demonstrated that HT-SuperSAGE provided highly sensitive, reproducible and accurate digital gene expression data. By increasing throughput for analysis in HT-SuperSAGE, various applications were expected and several examples of its applications were introduced in the present study, including analyses of laser-microdissected cells, biological replicates or tag extraction using different anchoring enzymes. 27 different tissue samples from three different life organisms were analyzed. About 2 samples, three different anchoring enzymes were employed.

2010-09-30 | E-GEOD-20682 | biostudies-arrayexpress

A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2

Project description:A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2

| PRJNA671674 | ENA

High-throughput SuperSAGE for digital gene expression analysis of multiple samples using Next Generation Sequencing

Project description:High-throughput SuperSAGE for digital gene expression analysis of multiple samples using Next Generation Sequencing

| PRJNA124943 | ENA

High-throughput SuperSAGE for digital gene expression analysis of multiple samples using Next Generation Sequencing

2010-10-01 | GSE20682 | GEO

A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [test cohort]

Project description:A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [test cohort]

| PRJNA671682 | ENA

A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [pilot cohort]

Project description:A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [pilot cohort]

| PRJNA671689 | ENA

A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [PoC cohort]

Project description:A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [PoC cohort]

| PRJNA671680 | ENA

A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [extended cohort]

Project description:A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [extended cohort]

| PRJNA671693 | ENA

Next Generation Sequencing samples from mouse liver tumor

Project description:We report the application of next generation sequencing technology for high-throughput profiling of transcriptome in HCC murine cells treated by anti-PD-1 or IFN-α or anti-PD-1 combined with IFN-α

2021-07-06 | GSE179352 | GEO

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