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Transcription factor profiling of T cells containing stably integrated or transiently transfected HTLV-1 LTR.

ABSTRACT: Transcription factor profiling of T cells containing stably integrated or transiently transfected HTLV-1 LTR.

ORGANISM(S): Homo sapiens

PROVIDER: GSE33628 | GEO | 2011/11/12

SECONDARY ACCESSION(S): PRJNA148621

REPOSITORIES: GEO

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Transcription factor profiling of T cells containing stably integrated or transiently transfected HTLV-1 LTR.

Project description:Transcription factor profiling of T cells containing stably integrated or transiently transfected HTLV-1 LTR. Nuclear extract from one million stably or transiently transfected Jurkat (CD4 T cell) cell line was extracted and labeled with TransSignal Probe mix (Panomics) and then hybridized to the array.

2011-11-12 | E-GEOD-33628 | biostudies-arrayexpress

miRNA profiling of Jurkat with stably integrated HTLV1-LTR in the presence of HTLV-1 Tax

Project description:RNA interference (RNAi) is a natural cellular mechanism to silence gene expression and is predominantly mediated by microRNAs (miRNAs) that target messenger RNA. Viruses can manipulate the cellular processes necessary for their replication by targeting the host RNAi machinery. This study explores the effect of human T-cell leukemia virus type 1 (HTLV-1) transactivating protein Tax on the RNAi pathway in the context of a chromosomally integrated viral long terminal repeat (LTR) using a CD4(+) T-cell line, Jurkat. Jurkat cells with stably integrated HTLV1-LTR were transfected with either pCMV-Tax or pCMV. Total miRNA was isolated, labeled and hybridized to the miRNA microarray as described by the manufacturer (Invitrogen). The hybridized slides were then analyzed on a GenePix scanner.

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miRNA profiling of Jurkat with stably integrated HTLV1-LTR in the presence of HTLV-1 Tax

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Complexity of expression from transiently transfected plasmids

Project description:Transient plasmid transfection is common approach for studies in cultured mammalian cells. To examine behavior of transfected plasmids, we analyzed their transcriptional landscape by deep sequencing. We found that plasmids generate different levels of transcripts virtually everywhere. Spurious transcription may have undesirable effects as some co-transfected plasmids inhibited expression of luciferase reporters in a dose-dependent manner. In one case, we attributed this effect to kan/neo resistance cassette, which generated a unique population of edited sense and antisense small RNAs. The unexpected complexity of expression of transiently transfected plasmids highlights the importance of appropriate experimental controls. HEK293 cells (human origin) transiently transfected with 4 various plasmids

2012-08-17 | E-GEOD-36062 | biostudies-arrayexpress

Transcript profiling in LTR mutants

Project description:STN7-dependent phosphorylation of an as yet unknown thylakoid protein triggers the signaling events associated with the long-term acclimatory response (LTR). The LTR-associated signaling events regulate the expression of photosynthesis-related genes on the post-transcriptional level (nucleus), as indicated by transcript profiling in LTR mutants.

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Expression data from CD4-positive HTLV-positive cell lines and from CD4-positive HTLV-negative primary cells.

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Expression data from Human Tax transfected HeLa cell

Project description:Human T cell leukemia virus type 1 (HTLV-1) Tax is potent activator of viral and cellular gene expression that interacts with a number of cellular proteins. In this study, a large-scale host cell signaling events related to cellular proliferation were used to identify genes involved in Tax-mediated cell signaling events related to cellular proliferation and apoptosis. HeLa cell transiently transfected with with pCAGGS vector for control sample was compared with HeLa cell transiently transfected with with pCAGGS-Tax-FLAG vector. These cells were incubated for 30h after transfection and were used for total RNA isolation.

2013-03-21 | E-GEOD-34750 | biostudies-arrayexpress

Complexity of expression from transiently transfected plasmids

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Homo sapiens

Project description:Transcription factor profiling of T cells containing stably integrated or transiently transfected HTLV-1 LTR.

| PRJNA148621 | ENA

Expression data from CD4-positive HTLV-positive cell lines and from CD4-positive HTLV-negative primary cells.

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2009-08-20 | E-GEOD-17718 | biostudies-arrayexpress

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