Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

50 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

HIV wtNDK, HIV m7NDK

ABSTRACT: Arrays analyses of CEM non infected and CEM infected by HIV wtNDK or HIV m7NDK (mutant). The arrays used were done at AECOM (ET arrays) and by affymetrix. They were hybridized with RNA of the cell lines infected or not. The analyses done as in bourdon et al. Cancer Res. 2002 Nov 1;62(21):6218-23, and with genesis. Keywords: parallel sample

ORGANISM(S): Homo sapiens

SUBMITTER: Alejandra Borjabad

PROVIDER: E-GEOD-1716 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

HIV wtNDK, HIV m7NDK

Project description:Arrays analyses of CEM non infected and CEM infected by HIV wtNDK or HIV m7NDK (mutant). The arrays used were done at AECOM (ET arrays) and by affymetrix. They were hybridized with RNA of the cell lines infected or not. The analyses done as in bourdon et al. Cancer Res. 2002 Nov 1;62(21):6218-23, and with genesis. Keywords: parallel sample

2005-04-13 | GSE1716 | GEO

mCGH of cervical cancer

Project description:Genomic alteration of cervical cancer samples. Analysis by CGH array. Array spotted at AECOM (NY) with human ESTs. Analysis as in Bourdon et al. Cancer Res. 2002 Nov 1;62(21):6218-23

2010-06-10 | E-GEOD-1715 | biostudies-arrayexpress

miRNA profiling in HIV-1 latently infected cells

Project description:Herein expression trends of host miRNA were measured in HIV-1 latently infected and persistent replication cells, as well as the control cells. HIV-1 latency infection was established by infecting CEM-SS lymphocytes with HIV-1 Bru strain. After selection and long-term culture, the chronically infected cell showed the characteristics of latency definition: 1. The provirus was intergrated in to the host genome.2. No viral expression could be detected during culture.3 .Cell stimulators, such as TNFa,PMA, etc, reactivate the viral expression. As expected, miRNA trend was different in HIV-1 latency when compared to the control or HIV-1 replication. A subset of miRNAs is enriched in HIV-1 latency model. The observation reinforces the concept of active HIV-1 interplay with host small RNAs that modulate HIV-1 infection mode.

2012-12-01 | GSE38388 | GEO

miRNA profiling in HIV-1 latently infected cells

2012-12-01 | E-GEOD-38388 | biostudies-arrayexpress

Functional proteomic atlas of HIV-infection in primary human CD4+ T cells

Project description:Viruses manipulate host cells to enhance their replication, and the identification of host factors targeted by viruses has led to key insights in both viral pathogenesis and cellular physiology. We previously described global changes in cellular protein levels during human immunodeficiency virus (HIV) infection using transformed CEM-T4 T cells as a model. In this study, we develop an HIV reporter virus displaying a streptavidin-binding affinity tag at the surface of infected cells, allowing facile one-step selection with streptavidin-conjugated magnetic beads. We use this system to obtain pure populations of HIV-infected primary human CD4+ T cells for detailed proteomic analysis, including quantitation of >9,000 proteins across 4 different donors, and temporal profiling during T cell activation. Remarkably, amongst 650 cellular proteins significantly perturbed during HIV infection of primary T cells (q<0.05), almost 50% are regulated directly or indirectly by the viral accessory proteins Vpr, Vif, Nef and Vpu. The remainder have not been previously characterised, but include novel Vif-dependent targets FMR1 and DPH7, and 192 targets not identified and/or regulated in T cell lines, such as AIRD5A and PTPN22. We therefore provide a high-coverage functional proteomic atlas of HIV infection, and a mechanistic account of HIV-dependent changes in its natural target cell.

2019-03-08 | PXD012263 | Pride

Mapping of m6A and m5C on HIV with PA-antibody-seq

Project description:In this GEO submission we include the PA-m6A-seq and PA-m5C-seq datasets for HIV in CEM & 293T cells

2019-07-01 | GSE130972 | GEO

HIV-1 SortSeq identifies HIV-1-infected cells from HIV-1-infected individuals

Project description:Using HIV-1 SortSeq, we identified HIV-1-infected cells containing inducible HIV-1 for RNAseq from resting CD4+ T cells treated with PMA/ionomycin for 16 hours from HIV-1-infected, antiretroviral therapy treated, virally suppressed individuals. Using custom bioinformatic pipeline, we identified HIV-1 genomic RNA, host RNA and HIV-1-host chimeric RNA junctions.

2020-05-15 | GSE126230 | GEO

HIV-1 SortSeq identifies HIV-1-infected cells from HIV-1-infected individuals

Project description:HIV-1 SortSeq identifies HIV-1-infected cells from HIV-1-infected individuals

| PRJNA521359 | ENA

HIV-1-driven aberrant host gene expression may contribute to HIV-1 persistence

Project description:Using HIV-1 RNASortSeq, we identified HIV-1-infected cells containing inducible HIV-1 for RNAseq from resting CD4+ T cells treated with PMA/ionomycin for 16 hours from eight antiretroviral therapy treated, virally suppressed, HIV-1-infected individuals. Using custom bioinformatic pipeline, we identified HIV-1 genomic RNA, host RNA and HIV-1-host chimeric RNA junctions.

2021-04-01 | GSE112576 | GEO

DNA methylation analysis of PBMC from HIV and HIV/TB co-infected patients

Project description:Genome wide DNA methylation profiling of PBMC from South African patients either infected with HIV only or coinfected with HIV and tuberculosis (TB). The Illumina Infinium 27k Human DNA methylation Beadchip was used to obtain DNA methylation profiles from PBMC samples. Samples included 19 HIV patients and 20 HIV/TB co-infected patients.

2014-03-05 | GSE50835 | GEO

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