Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Small RNA sequencing of plasma extracellular vesicles from HIV/HCV coinfected patients

ABSTRACT: Small RNA sequencing of plasma extracellular vesicles from HIV/HCV coinfected patients

PROVIDER: PRJEB34008 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR3481950.fastq.gz	Fastqsanger.gz
	ERR3481951.fastq.gz	Fastqsanger.gz
	ERR3481942.fastq.gz	Fastqsanger.gz
	ERR3481952.fastq.gz	Fastqsanger.gz
	ERR3481943.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Small RNA sequencing of plasma extracellular vesicles from HIV/HCV coinfected patients

Project description:We have analyzed six different extracelular vesicles isolation protocols from plasma of patients coinfected with human immunodeficiency virus and hepatitis C virus (HIV/HCV). In addition, two different RNA isolation kit were used for each protocol, one phenol-based and another pehenol-free kit. Same library kit was used for all samples. Small RNA, including miRNAs, piwiRNA, and sncRNAs were detected.

2020-08-14 | E-MTAB-8246 | biostudies-arrayexpress

Small RNA sequencing of plasma extracellular vesicles from HCV and HIV/HCV coinfected patients

Project description:A total of 52 patients were analyzed: 21 of them monoinfected with HCV and 31 coinfected with HIV (HCV/HIV). HCV patients were recruited from Hospital Italiano and Hospital José María Ramos Mejía from Buenos Aires, Argentina, and HCV/HIV patients from Hospital Universitario La Paz, Hospital Infanta Leonor, Hospital Universitario La Princesa, Hospital Puerta de Hierro, from Madrid, Spain. All samples were processed at the National Center for Microbiology (Madrid). Patients were naıve of treatment for HCV. CHC infection was defined by the presence of anti-HCV antibodies in serum and detectable HCV RNA in plasma samples in at least 2 separate occasions. All HIV+ patients had HIV antibodies, CD4+ T-cells counts ≥ 500 cel/mm3 for at least one year before sample collection, and undetectable HIV viral load since they received suppressive antiretroviral treatment (ART) for at least one year. Plasma extracellular vesicles isolation and RNA purification was performed using the ExoRNeasy Serum/Plasma Midi kit (QIAGEN, Cat #77044). EVs were phenol-lysed and total RNA was purified by ethanol-based membrane binding into spin columns. Quality and integrity were evaluated by the Bioanalyzer 2100 with Agilent RNA 6000 Nano kit (Agilent). Small RNA library synthesis and sequencing were performed at Centre for Genomic Regulation (CRG) at Barcelona (Spain). Small RNA libraries were constructed with Illumina’s TruSeq Small RNA kit v.4 (Illumina) and 50nts (1x50) were sequenced in an Illumina HiSeq2500, with a single read approach.

2023-02-27 | E-MTAB-11811 | biostudies-arrayexpress

Small RNA sequencing of plasma extracellular vesicles from HCV and HIV/HCV coinfected patients

Project description:Small RNA sequencing of plasma extracellular vesicles from HCV and HIV/HCV coinfected patients

| PRJEB53428 | ENA

Peripheral blood genetic signature of severe cirrhosis in HIV/HCV coinfected patients

Project description:PolyA-RNA sequencing on Peripheral Blood Mononuclear Cells of HIV/HCV coinfected patients with different cirrhosis states.

2023-02-28 | E-MTAB-12251 | biostudies-arrayexpress

RNA-seq to investigate gene expression after HCV eradication with IFN therapy in HIV/HCV-coinfected patients

Project description:We conducted a prospective study in 28 HIV/HCV-coinfected patients receiving IFN-based therapy at baseline (HIV/HCV-b) and week 24 after the sustained virological response (HIV/HCV-f). Twenty-seven HIV-monoinfected patients (HIV-group) were included as a control group, which were effectively treated with cART (virological controlled and CD4+ T-cell counts over 500) for an extended period. RNA-seq analysis was performed on peripheral blood mononuclear cells (PBMCs).

2021-05-05 | E-MTAB-10232 | biostudies-arrayexpress

HIV/HCV coinfection activates a type 1 interferon response in monocytes that correlates with cognitive impairment

Project description:Chronic immune activation is a hallmark of human immunodeficiency virus (HIV) infection and the best prognostic indicator of disease progression. Suppressing HIV viremia by antiretroviral therapy (ART) restores normal immune response and effectively prolongs life. In HIV-infected individuals who are coinfected with hepatitis C virus (HCV) the immune system is activated despite effective HIV antiretroviral therapy controlling viral load. Here we examined CD14+ monocyte gene expression by high-density microarray analysis and T cell subsets, CD4 and CD8, by flow cytometry to characterize immune activation in monoinfected HCV, monoinfected HIV and HIV/HCV coinfected subjects with undetected HIV viral load. To determine the impact of coinfection on cognition, subjects were evaluated in 7 domains for neuropsychological (NP) performance, which was summarized as global deficit scores (GDS). Gene expression analysis of CD14+ monocytes from coinfected subjects revealed an elevated type 1 interferon (IFN) response profile unique to coinfection. For both CD4 and CD8 T cells, coinfection triggered significantly increased expression of activation markers CD38 and HLA-DR. In the coinfected group, mild cognitive impairment was associated with a type 1 IFN monocyte response but not plasma lipopolysaccharide. These observations raise the possibility that cognitive impairment evident in the HIV/HCV population is associated with the IFN response detected in coinfected individuals.

2012-06-07 | GSE38542 | GEO

High throughput sequencing of polyA-RNAs in HIV/HCV coinfected patients before and after treatment with with direct-acting antivirals

Project description:We conducted a prospective study in 33 HIV/HCV-coinfected patients receiving IFN-based therapy at baseline (HIV+/HCV+) and week 36 after the sustained virological response (HIV+/HCV-). Twenty-six HIV-monoinfected patients (HIV+) and 9 patients that achieved the sustained virological response 36 weeks before (HCV-) were included as a control group. The HIV+ patients were effectively treated with cART (virological controlled and CD4+ T-cell counts over 500) for an extended period. RNA-seq analysis was performed on peripheral blood mononuclear cells (PBMCs).

2022-01-04 | E-MTAB-10703 | biostudies-arrayexpress

Human plasma extracellular vesicles

Project description:Human Plasma Extracellular Vesicles Parkinsons Disease

| PRJNA1234656 | ENA

Gene expression profiles of peripheral blood mononuclear cells from HIV and HCV coinfected patients before and after 24 weeks of combined antiretroviral therapy.

Project description:We aim to characterize HIV and HCV coinfected patient response to combined antiretroviral therapy through genome-wide expression profiling of patients' periperhal blood mononuclear cells before and after treatment initiation (baseline and 24 weeks). Individuals with frank cirrhosis were excluded from the study. We used Affymetrix PrimeView arrays to quantify baseline transcriptomic characteristics and changes in the transcriptome following treatment. Gene expression changes were analyzed based on the change in expression of each transcript per patient.

2014-10-07 | GSE56619 | GEO

Peripheral blood genetic signature of severe cirrhosis in HIV/HCV coinfected patients

Project description:Peripheral blood genetic signature of severe cirrhosis in HIV/HCV coinfected patients

| PRJEB56510 | ENA