Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Nanopore sequencing of the USC-MHs panel

ABSTRACT: Nanopore sequencing of the USC-MHs panel

PROVIDER: PRJEB63471 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR11605723.fastq.gz	Fastqsanger.gz
	ERR11605724.fastq.gz	Fastqsanger.gz
	ERR11605725.fastq.gz	Fastqsanger.gz
	ERR11605726.fastq.gz	Fastqsanger.gz
	ERR11605727.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 17

Similar Datasets

Assembly of the Arabidopsis (Col-0) centromeres using Oxford Nanopore Technology long-read DNA sequencing.

Project description:Nanopore long-read sequencing was used to generate a complete assembly of the Arabidopsis centromeres.

2021-04-02 | E-MTAB-10272 | biostudies-arrayexpress

Oxford nanopore sequencing data from the Arabidopsis thaliana accessions Ler-0, Cvi-0 and Tanz-1

Project description:Oxford nanopore sequencing data from the Arabidopsis thaliana accessions Ler-0, Cvi-0 and Tanz-1

2022-08-06 | E-MTAB-12009 | biostudies-arrayexpress

Nanopore sequencing of K562 for DNA cytosine modification detection

Project description:Nanopore sequencing of K562 human cell line using the Oxford Nanopore GridION and R9.4.1 version chemistry

2021-09-20 | GSE173688 | GEO

Targeted nanopore resequencing and methylation analysis of LINE-1 retrotransposons

Project description:We used the nanopore Cas9 targeted sequencing (nCATS) strategy to specifically sequence 125 L1HS-containing loci in parallel and measure their DNA methylation levels using nanopore long-read sequencing. Each targeted locus is sequenced at high coverage (~45X) with unambiguously mapped reads spanning the entire L1 element, as well as its flanking sequences over several kilobases. The genome-wide profile of L1 methylation was also assessed by bs-ATLAS-seq in the same cell lines (E-MTAB-10895).

2023-09-22 | E-MTAB-12247 | biostudies-arrayexpress

Clinical trials verifying the consistency of AmoyDx Essential NGS Panel (Reversible Terminator Sequencing) with local tests

Project description:Interventions: Gold Standard:Histopathological diagnosis;Index test:AmoyDx Essential NGS Panel (Reversible Terminator Sequencing) Primary outcome(s): EGFR 20 insertion mutation;consistency Study Design: Factorial

| 2699936 | ecrin-mdr-crc

Nanopore sequencing of UNC13A from SHSY5Y and patient RNA

Project description:UNC13A contains a novel cryptic exon which is expressed upon TDP-43 knockdown. However, it also features TDP-43 regulated intron retention of a downstream intron. To investigate the correlation of these two events, we performed Nanopore sequencing of amplicons from SHSY5Y cells with inducible TDP-43 knockdown, and FTD patient RNA samples

2022-02-10 | E-MTAB-11244 | biostudies-arrayexpress

Oxford Nanopore sequencing of poly(A)+ RNA from two Trypanosoma brucei strains

Project description:EATRO1125 bloodstream forms grown to about 5 x 10e5 per ml. Lister 427 procyclic forms at no more than 2 million per ml. Direct nanopore sequencing on cells approaching their expiration date.

2020-07-16 | E-MTAB-9319 | biostudies-arrayexpress

Nanopore RNA-seq of chromatin RNA sequencing in human primary Naive CD4+ T cells

Project description:Nanopore RNA sequencing of polyA+ chromatin associated RNA of Naive CD4+ T cells to identify novel chromatin associated RNAs containing TEs.

2021-10-20 | E-MTAB-10797 | biostudies-arrayexpress

Generation of full-length circRNA libraries for Oxford Nanopore long-read sequencing

Project description:Preparation of libraries for circular RNA sequencing with Oxford Nanopore long-read sequencing

2022-08-09 | GSE197872 | GEO

Nanopore sequencing and data analysis for base-resolution genome-wide 5-methylcytosine profiling

Project description:Whole-genome bisulfite sequencing (WGBS) is currently the gold standard for DNA methylation (5-methylcytosine, 5mC) profiling, however the destructive nature of sodium bisulfite results in DNA fragmentation and subsequent biases in sequencing data. Such issues have led to the development of bisulfite-free methods for 5mC detection. Nanopore sequencing is a long read non-destructive approach that directly analyzes DNA and RNA fragments in real time. Recently, computational tools have been developed that enable base-resolution detection of 5mC from Oxford Nanopore sequencing data. In this chapter we provide a detailed protocol for preparation, sequencing, read assembly and analysis of genome-wide 5mC using Nanopore sequencing technologies.

2021-12-03 | GSE179673 | 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