Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Metagenomic characterization of transfusion transmitted infections (TTIs).

PROVIDER: PRJNA1134214 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR29779650_1.fastq.gz	Fastqsanger.gz
	SRR29779651_1.fastq.gz	Fastqsanger.gz
	SRR29779652_1.fastq.gz	Fastqsanger.gz
	SRR29779653_1.fastq.gz	Fastqsanger.gz
	SRR29779654_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 29

Similar Datasets

IBTT_HMN_Sureilyticus

Project description:Staphylococcus ureilyticus Transfusion-Transmitted Bacterial Infection

| PRJEB100835 | ENA

Genotypic and phenotypic characteristics of Escherichia coli involved in transfusion transmitted bacterial infections:implications for preventive strategies

Project description:Genotypic and phenotypic characteristics of Escherichia coli involved in transfusion transmitted bacterial infections:implications for preventive strategies

| PRJEB28300 | ENA

Project description:Characterization of vaginal prokaryotes and eukaryotes microbiota and its link to Sexually Transmitted Infections

| PRJNA1215533 | ENA

Metagenomic regulatory sequence library characterized in RpoD ortholog strains

Project description:Characterization of a metagenomic regulatory sequence library derived from M. xanthus, E. coli, and O. urethralis genomes in strains expressing different RpoD ortholog variants. Targeted DNA and RNA seq used to profile relative DNA and RNA abundances, respectively of each regulatory sequence construct in the library.

2022-06-07 | E-MTAB-9111 | biostudies-arrayexpress

Transfusion transmitted hepatitis E

Project description:Risk of transfusion-transmitted hepatitis E virus infection by pool tested platelet and plasma transfusions

| PRJEB46178 | ENA

The rectal microbiome and incident rectal sexually transmitted infections

Project description:The rectal microbiome and incident rectal sexually transmitted infections

| PRJNA1227188 | ENA

The rectal microbiome and incident rectal sexually transmitted infections

Project description:The rectal microbiome and incident rectal sexually transmitted infections

| PRJNA1227187 | ENA

Comparative transcriptional analysis of Staphylococcus epidermidis biofilm matrix variants in human platelet concentrates

Project description:This study is focused on understanding the molecular basis of protein- and polysaccharide intercellular adhesin (PIA)- mediated biofilm formation by S. epidermidis in PCs. Comparative transcriptomic analysis of S. epidermidis PIA- biofilm positive (AZ22, AZ39) and PIA+ biofilm positive (ST02) strains was performed using a RNAseq approach. Pathway enrichment analysis revealed cellular component GO term (AZ22), two KEGG pathways (AZ39), and two molecular function GO term and 8 KEGG pathways (ST02) were enriched. Remarkably, glutamate biosynthesis and tricarboxylic acid cycle (TCA) genes were upregulated in AZ22 and AZ39, respectively whereas arginine deiminase (ADI) pathway genes were downregulated in ST02. Moreover, genes conferring resistance against antimicrobial peptides (AMPs) and antibiotics such as lysostaphin, fusidic acid and tetracycline were upregulated, thus implying their increased resistance in S. epidermidis grown in PCs. Notably, expression of genes conferring resistance against aminoglycoside (in AZ22) and methicillin (in AZ39 and ST02) were downregulated. This study provided an overview, how biofilm-mediated virulence, antibiotic resistance and metabolic pathways are interlinked and reprogrammed during biofilm maturation in PCs which will be intriguing in development of novel preventive strategies against S. epidermidis transfusion-transmitted infections.

2020-07-14 | GSE154352 | GEO

Biologic correlates of COVID-19 resolution using single cell RNA sequecing

Project description:We report a case of full resolution of severe COVID-19 due to convalescent plasma transfusion. Following transfusion, the patient showed fever remission, improved respiratory status, and rapidly decreased viral burden in respiratory fluids and SARS-CoV-2 RNAemia. Longitudinal single-cell transcriptomics of peripheral blood cells conducted prior to and at multiple times after convalescent plasma transfusion identified the key biological processes associated with the transition from severe disease to disease-free state. This included post-transfusion disappearance of a subset of monocytes characterized by hyperactivated Interferon responses and decreased TNF-α signaling.

2022-04-18 | GSE200896 | GEO

HOME-BIO (sHOtgun MEtagenomic analysis of BIOlogical entities): from reads to pathogens. A specific and exhaustive pipeline for handling metagenomic shotgun sequencing data.

Project description:Next-Generation-Sequencing (NGS) technologies have led to important improvement in the detection of new or unrecognized infective agents, related to infectious diseases. In this context, NGS high-throughput technology can be used to achieve a comprehensive and unbiased sequencing of the nucleic acids present in a clinical sample (i.e. tissues). Metagenomic shotgun sequencing has emerged as powerful high-throughput approaches to analyze and survey microbial composition in the field of infectious diseases. By directly sequencing millions of nucleic acid molecules in a sample and matching the sequences to those available in databases, pathogens of an infectious disease can be inferred. Despite the large amount of metagenomic shotgun data produced, there is a lack of a comprehensive and easy-use pipeline for data analysis that avoid annoying and complicated bioinformatics steps. Here we present HOME-BIO, a modular and exhaustive pipeline for analysis of biological entity estimation, specific designed for shotgun sequenced clinical samples. HOME-BIO analysis provides comprehensive taxonomy classification by querying different source database and carry out main steps in metagenomic investigation. HOME-BIO is a powerful tool in the hand of biologist without computational experience, which are focused on metagenomic analysis. Its easy-to-use intrinsic characteristic allows users to simply import raw sequenced reads file and obtain taxonomy profile of their samples.

2021-07-26 | E-MTAB-9189 | 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