Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

FFPEcap-seq: a method for sequencing capped RNAs in formalin-fixed paraffin-embedded samples

ABSTRACT: FFPEcap-seq: a method for sequencing capped RNAs in formalin-fixed paraffin-embedded samples

PROVIDER: PRJNA521661 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

FFPEcap-seq: a method for sequencing capped RNAs in formalin-fixed paraffin-embedded samples

Project description:The majority of clinical cancer specimens are preserved as formalin-fixed paraffin-embedded (FFPE) samples. In order for clinical molecular tests to have wide reaching impact, they must be applicable to FFPE material. Accurate quantitative measurements of RNA derived from FFPE specimens is challenging due to low yields and high amounts of degradation. Here we present FFPEcap-seq, a method specifically designed for sequencing capped 5’ ends of RNA derived from FFPE samples. FFPEcap-seq combines enzymatic enrichment of 5’ capped RNAs with template switching to create sequencing libraries. We find that FFPEcap-seq can faithfully capture mRNA expression levels in FFPE specimens while also detecting enhancer RNAs that arise from distal regulatory regions. FFPEcap-seq is a fast and straightforward method for making high quality 5’ end RNA-seq libraries from FFPE-derived RNA.

2019-10-04 | GSE126346 | GEO

Formalin-fixed paraffin-embedded (FFPE) ring trial

Project description:Formalin-fixed paraffin-embedded (FFPE) ring trial

| PRJEB32144 | ENA

Gene-expression profiles of formalin-fixed, paraffin-embedded human hepatocellular carcinoma

Project description:Gene-expression profiles of formalin-fixed, paraffin-embedded human hepatocellular carcinoma tissues obtained at the time of surgical resection.

2011-02-17 | GSE19977 | GEO

Gene-expression profiles of formalin-fixed, paraffin-embedded human hepatocellular carcinoma

Project description:Gene-expression profiles of formalin-fixed, paraffin-embedded human hepatocellular carcinoma tissues obtained at the time of surgical resection. Gene-expression profiling was performed using formalin-fixed, paraffin-embedded hepatocellular carcinoma tissues obtained at the time of surgical resection.

2011-02-17 | E-GEOD-19977 | biostudies-arrayexpress

Epigenome analysis of formalin-fixed paraffin-embedded (FFPE) meningioma samples

Project description:Genome wide DNA methylation profiling of formalin-fixed paraffin-embedded (FFPE) meningioma samples. The Illumina Infinium MethylationEPIC BeadChip was used to obtain DNA methylation profiles across approximately 850,000 methylation sites across the genome at single-nucleotide resolution.

2022-04-27 | GSE200321 | GEO

Whole-Genome Gene Expression Profiling of Formalin-Fixed, Paraffin-Embedded Ovarian Tumor Tissue Samples: Dilutions

Project description:Performance assayed with formalin-fixed, paraffin-embedded (FFPE) ovarian tumor tissues.

2010-01-13 | GSE18769 | GEO

Whole-Genome Gene Expression Profiling of Formalin-Fixed, Paraffin-Embedded Ovarian Tumor Tissue Samples: Ratios

Project description:Performance assayed with formalin-fixed, paraffin-embedded (FFPE) ovarian tumor tissues.

2010-01-13 | GSE18767 | GEO

Analysis of microarray data reliability and pathway networks using experimental formalin-fixed paraffin-embedded tissue

Project description:We assessed the usability of microarrays, which base on formalin-fixed paraffin-embedded (FFPE) tissue.

2018-04-13 | GSE104634 | GEO

Transcription profiling by array of formalin-fixed and paraffin-embedded (FFPE) tumor samples.

Project description:Transcription profiling by array of formalin-fixed and paraffin-embedded (FFPE) tumor samples.

2013-06-21 | E-MTAB-990 | biostudies-arrayexpress

Microarray data generated from formalin-fixed, paraffin-embedded (FFPE) uninvolved small bowel (SB) ileal tissue.

Project description:Transcriptomic data was generated on uninvolved SB tissue from formalin-fixed paraffin-embedded (FFPE) small bowel resection margins of subjects requiring surgery at Cedars-Sinai Medical Center for Crohn’s disease.

2019-12-23 | GSE120782 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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