Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Diagnostic metagenomics proficiency test dataset

ABSTRACT: Proficiency testing of metagenomics-based detection of food-borne pathogens using a complex artificial sequencing dataset

PROVIDER: PRJEB37463 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR4298353.fastq.gz	Fastqsanger.gz

Items per page:

1 - 1 of 1

Similar Datasets

Test

Project description:Testing

| PRJEB37534 | ENA

Test

Project description:Testing submission

| PRJEB28081 | ENA

GMI Proficiency Test

Project description:Global Microbial Identifier Proficiency Test

| PRJEB21132 | ENA

Project description:GenomeTrakr Project: 2015 Proficiency Testing

| PRJNA386310 | ENA

Project description:GenomeTrakr - Arizona - 2020 proficiency testing

| PRJNA684629 | ENA

Blood borne pathogen detection in blood and plasma by Microarray

Project description:The Blood Borne Pathogen Resequencing Microarray Expanded (BBP-RMAv.2) is a platform that allows multiplex detection and identification of 80 different blood-borne pathogens in one single test, comprising 60 virus, 5 bacteria and 15 parasites. The objective is to evaluate the lowest concentration detected in blood or plasma, species discrimination and applicability of the microarray platform for testing blood donors. Human blood or plasma spiked with selected pathogens (10,000, 1,000 or 100 cells or copies/ml), including 6 viral, 2 bacterial and 5 protozoan pathogens were each tested on this platform. The nucleic acids were extracted, amplified using multiplexed sets of pooled specific primers, fragmented, labeled, and hybridized to a microarray. Finally, the detected sequences were identified using an automated genomic database alignment algorithm. The performance of the BBP-RMAv.2 demonstrated detection for most spiked protozoan pathogens at 1,000 cells/ml, 10,000 cells/ml for bacterial pathogens and as low as 100 copies/ml for viral pathogens. Coded specimens, including spiked and negative controls, were identified correctly for one blood specimen and for two plasma specimens. One negative plasma resulted in a false positive detection of a virus demonstrating the effectiveness of the platform.

2024-06-08 | E-MTAB-13972 | biostudies-arrayexpress

ChIP-seq for identifying molecules associated with sound vibration in plant

Project description:Plant can perceive and respond natural sound vibration (SV). Artificial SV also served as a novel trigger of induced resistance, although approaches for activating such plant innate immunity intensively studied on the use of biological and chemical agents (BCA). Artificial SV pre-treatment protected Arabidopsis thaliana seedlings against insect pests and fungal pathogens. However, SV-mediated epigenetic modulation remains unexplored while CBA-mediated induced resistance is known as a complicated process involving epigenetic regulation. Here, we performed a ChIP-seq analysis to understand the role of 10 kHz SV-mediated epigenetic modification in induced resistance against a soil-borne pathogenic bacterium Ralstonia solanacearum.

2020-08-03 | GSE133320 | GEO

Gene expression profiling study by RNA-seq for identifying genes associated with sound vibration in plant

Project description:Plant can perceive and respond natural sound vibration (SV). Artificial SV also served as a novel trigger of induced resistance, although approaches for activating such plant innate immunity intensively studied on the use of biological and chemical agents (BCA). Artificial SV pre-treatment protected Arabidopsis thaliana seedlings against insect pests and fungal pathogens. However, SV-mediated epigenetic modulation remains unexplored while CBA-mediated induced resistance is known as a complicated process involving epigenetic regulation. Here, we performed a gene expression profiling basd on RNA-seq experiment to understand the role of 10 kHz SV-mediated epigenetic modification in induced resistance against a soil-borne pathogenic bacterium Ralstonia solanacearum.

2020-08-03 | GSE133324 | GEO

Expression profiling by small RNA-seq for identifying miRNA associated with sound vibration in plant

Project description:Plant can perceive and respond natural sound vibration (SV). Artificial SV also served as a novel trigger of induced resistance, although approaches for activating such plant innate immunity intensively studied on the use of biological and chemical agents (BCA). Artificial SV pre-treatment protected Arabidopsis thaliana seedlings against insect pests and fungal pathogens. However, SV-mediated epigenetic modulation remains unexplored while CBA-mediated induced resistance is known as a complicated process involving epigenetic regulation. Here, we performed an expression profiling basd on small RNA-seq experiment to understand the role of 10 kHz SV-mediated epigenetic modification in induced resistance against a soil-borne pathogenic bacterium Ralstonia solanacearum.

2020-08-03 | GSE133321 | GEO

(NESARCIII) Dataset

Project description:(NESARCIII) Dataset

| PRJNA454756 | ENA