Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Nanopore sequences of polioviruses from DRC

ABSTRACT: Nanopore sequences of polioviruses from DRC

PROVIDER: PRJEB61181 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR11778000.fastq.gz	Fastqsanger.gz
	ERR11778001.fastq.gz	Fastqsanger.gz
	ERR11778002.fastq.gz	Fastqsanger.gz
	ERR11778003.fastq.gz	Fastqsanger.gz
	ERR11778004.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 32

Similar Datasets

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

Salmonella Typhimurium Rats DRC

Project description:Salmonella Typhimurium Rats DRC

| PRJEB54047 | ENA

Loa loa isolate:DRC

Project description:Loa loa isolate:DRC Genome sequencing

| PRJNA479826 | ENA

Genomic sequences of Vibrio cholerae strains linked to cholera outbreak in Kamituga, South Kivu, DRC

Project description:Genomic sequences of Vibrio cholerae strains linked to cholera outbreak in Kamituga, South Kivu, DRC

| PRJEB79129 | ENA

Lactococcus lactis strain:DRC 2505

Project description:Lactococcus lactis strain:DRC 2505 Genome sequencing

| PRJNA1287261 | ENA

Protein response of lncRNA-DRC to HU treatment

Project description:protein response of lncRNA-DRC overexpression (mec1Δ sml1Δ-lncRNA-DRC-OE) to HU treatment

2024-10-10 | PXD056715 |

Nanopore sequencing of B. thetaiotaomicron hankyphages

Project description:We identified hankyphage prophages within B. thetaiotaomicron isolates gathered from French hospitals. We extracted genomic DNA from an overnight culture from a single colony of each strain and sequenced them using Nanopore sequencing using the Plasmidsaurus platform. This long-read approach helped the assembly of the phages and determination of the hankyphage ends. We also improved the annotation of the reference hankyphage (hankyphage p00 from P. dorei HM719) using a structural prediction approach and annotated our B. thetaiotaomicron hankyphages using this new annotation. In this project we upload the genomic raw reads of nanopore sequencing of our hankyphage-bearing B. thetaiotaomicron collection (jmh strains) and the processed assembled hankyphages.

2025-01-24 | E-MTAB-14724 | biostudies-arrayexpress

Snapper: a high-sensitive algorithm to detect methylation motifs based on Oxford Nanopore reads

Project description:The Oxford Nanopore technology has a great potential for the analysis of genome methylation, including full-genome methylome profiling. However, there are certain issues while identifying methylation motif sequences caused by low sensitivity of the currently available motif enrichment algorithms. Here, we present Snapper, a new highly-sensitive approach to extract methylation motif sequences based on a greedy motif selection algorithm. Snapper has shown higher enrichment sensitivity compared with the MEME tool coupled with Tombo or Nanodisco instruments, which was demonstrated on H. pylori strain J99 studied earlier using the PacBio technology. In addition, we used Snapper to characterize the total methylome of a new H.pylori strain A45. The analysis revealed the presence of at least 4 methylation sites that have not been described for H. pylori earlier. We experimentally confirmed a new CCAG-specific methyltransferase and indirectly inferred a new CCAAK-specific methyltransferase.

2024-01-26 | PXD038899 | Pride

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

Identifying crossover locations in an Arabidopsis thaliana Col x Ler F2 population using Nanopore-seq and COmapper

Project description:Genomic DNA from 55 wild type Col x Ler F2 individuals was extracted using the CTAB method. Equal amounts of DNA from these 55 plants were pooled into two groups (pool 1 = 4 plants; pool 2 = 51 plants), and nine micrograms of gDNA from each pool was used to generate Nanopore sequencing libraries with the Ligation Sequencing Kit V14 (Nanopore, SQK-LSK114). The libraries were sequenced independently using PromethION (BGI, Hong Kong).

2024-09-02 | E-MTAB-14367 | 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