Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Null

ABSTRACT: Stool and oropharyngeal swabs metagenome raw sequence reads

PROVIDER: PRJEB72433 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR12661000_1.fastq.gz	Fastqsanger.gz
	ERR12661000_2.fastq.gz	Fastqsanger.gz
	ERR12661100_1.fastq.gz	Fastqsanger.gz
	ERR12661100_2.fastq.gz	Fastqsanger.gz
	ERR12661200_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 590

Similar Datasets

Project description:Metagenomes from DNA isolated from oropharyngeal swabs, stool samples, rectal swabs and vaginal secretions. Raw sequence reads

| PRJNA718445 | ENA

Morus alba Raw protein sequence reads

Project description:Morus alba L. Raw protein sequence reads and sequence

2024-02-08 | PXD049451 |

Stool Metagenome

Project description:Stool Metagenome Raw sequence reads

| PRJNA855128 | ENA

Bovine nasal swabs viral metagenome

Project description:Bovine nasal swabs viral metagenome Raw sequence reads

| PRJNA634678 | ENA

CRISPR-mediated detection of Pneumocystis transcripts in bronchoalveolar, oropharyngeal, and serum specimens for Pneumocystis pneumonia diagnosis

Project description:Background. Pneumocystis jirovecii pneumonia (PCP) is a leading cause of fungal pneumonia, but its diagnosis primarily relies on invasive bronchoalveolar lavage (BAL) specimens that are difficult to obtain. Oropharyngeal swabs and serum could improve the PCP diagnostic workflow, and we hypothesized that CRISPR could enhance assay sensitivity to allow robust P. jirovecii diagnosis using swabs and serum. Herein we describe the development of an ultrasensitive RT-PCR-coupled CRISPR assay with high active-infection specificity in infant swabs and adult BAL and serum. Methods. Mouse analyses employed an RT-PCR CRISPR assay to analyze P. murina transcripts in wild-type and Rag2-/- mouse lung RNA, BAL, and serum at 2-, 4-, and 6-weeks post-infection. Human studies used an optimized RT-PCR CRISPR assay to detect P. jirovecii transcripts in infant oropharyngeal swab samples, adult serum, and adult BAL specimens from P. jirovecii-infected and P. jirovecii-non-infected patients. Results. The P. murina assays sensitively detected Pneumocystis RNA in the serum of infected mice throughout infection. Oropharyngeal swab CRISPR assay results identified infants infected with P. jirovecii with greater sensitivity (96.3% vs. 66.7%) and specificity (100% vs. 90.6%) than RT-qPCR compared to mtLSU standard marker, and CRISPR results achieved higher sensitivity than RT-qPCR results (93.3% vs. 26.7%) in adult serum specimens. Conclusion. Since swabs are routinely collected in pediatric pneumonia patients, serum is easier to obtain than BAL, and RT-PCR CRISPR results may not detect P. jirovecii colonization, this assay approach could improve pediatric Pneumocystis diagnosis by achieving specificity for active infection and avoiding the requirement for BAL specimens.

2025-03-17 | GSE289324 | GEO

human nasopharyngeal metagenome

Project description:Oropharyngeal microbiota Raw sequence reads

| PRJNA274720 | ENA

Vaginal Swabs

Project description:Vaginal Swabs Raw sequence reads

| PRJNA814210 | ENA

Oral swabs

Project description:Oral swabs Raw sequence reads

| PRJNA714139 | ENA

Nasopharyngeal swab samples

Project description:Nasopharyngeal swabs Raw sequence reads