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SelT knockdown mouse fibroblast cells vs control cells

ABSTRACT: Analysis of gene expression in NIH 3T3 cells stably knockdown for Selt (GenBank accession number NM_001040396) using vector based siRNA technique in comparison to gene expression of vector transfected NIH 3T3 cells.

ORGANISM(S): Mus musculus

PROVIDER: GSE17087 | GEO | 2009/11/01

SECONDARY ACCESSION(S): PRJNA117827

REPOSITORIES: GEO

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SelT knockdown mouse fibroblast cells vs control cells

Project description:Analysis of gene expression in NIH 3T3 cells stably knockdown for Selt (GenBank accession number NM_001040396) using vector based siRNA technique in comparison to gene expression of vector transfected NIH 3T3 cells. siSelT-1 construct (spanning nucleotides 205-224 of Selt, GenBank accession number NM_001040396) vs vector control; siSelT-5 construct (spanning nucleotides 971-989 of Selt, GenBank accession number NM_001040396) vs vector control; Two replicates per array for each oligos were carried out at different time points using RNA from different cultures of knockdown cells.

2010-06-20 | E-GEOD-17087 | biostudies-arrayexpress

US28-expressing and mock-transfected stable NIH-3T3 cell lines

Project description:The human cytomegalovirus (HCMV) encodes the chemokine receptor US28 that exhibits constitutive activity. NIH-3T3 cells stably transfected with US28 present a pro-angiogenic and transformed phenotype both in vitro and in vivo. We used gene expression profiling to determine how US28 constitutive activity modulates expression of genes compared to mock-transfected cells. Keywords: Comparison of stably transfected cell lines

2009-03-30 | GSE13567 | GEO

Proteomics analysis of JOSD2-overexpression in NIH/3T3 cells

Project description:DUBs exert their biological functions through specific substrates. Theoretically, as a substrate protein of JOSD2, its ubiquitination will be cut by JOSD2. In this regard, an analysis of ubiquitinome assay was performed to identify the potential substrates of JOSD2 in NIH/3T3 cells transfected with Flag-vector or Flag-JOSD2 plasmids.

2023-06-30 | PXD043382 | Pride

Transcription profiling of human NIH-3T3 US28-expressing and mock-transfected stablecell lines

Project description:The human cytomegalovirus (HCMV) encodes the chemokine receptor US28 that exhibits constitutive activity. NIH-3T3 cells stably transfected with US28 present a pro-angiogenic and transformed phenotype both in vitro and in vivo. We used gene expression profiling to determine how US28 constitutive activity modulates expression of genes compared to mock-transfected cells. Experiment Overall Design: We isolated RNA from two different clonal stable cell lines of NIH-3T3 cells transfected either either mock or US28-WT and analysed these 4 RNA samples using Affymetrix mouse genome arrays.

2009-04-04 | E-GEOD-13567 | biostudies-arrayexpress

Transcription profiling of mouse 3T3 cells transfected with pCMV-HA-ATCE1-C-del plasmid, driving the expression the nuclear form of ATCE1 vs. controls reveals gene upregulation by the ATCE1 transcription factor

Project description:ATCE1 is a transcription factor that belongs to the CREB3 subtype of the ATF/CREB transcription factor family. In order to get an indication of the potential promoters ATCE1 targets, a nuclear form was expressed in NIH 3T3 fibroblasts via transfection and upregulated genes were sought after. Experiment Overall Design: NIH 3T3 cells were transfected with either a pCMV-HA-ATCE1-C-del plasmid, driving the expression the nuclear form of ATCE1, or an empty pCMV-HA vector. Experiment Overall Design: The expression level of transcripts isolated from ATCE1 expressing cells was compared to transcripts obtained from cells transfected with an empty vector that was used as a control.

2008-06-12 | E-GEOD-2747 | biostudies-arrayexpress

Examination of the function of NtMYBGR1 and NtDC1B in tobacco BY-2 cells.

Project description:Overexpression lines for each of NtMYBGR1 (Genbank accession No. AB279612) and NtDC1B (Genbank accession No. AB279614) were used to characterize the function of NtMYBGR1 and NtDC1B in tobacco BY-2 cells. We then analyzed the effect of overexpression of these genes on the expression of other genes, using the tobacco microarray. As control sample, tobacco cells transformed with empty vector pMAT137 vector were used. Two control and two transgenic cell lines were analyzed at day 4 after subculture into fresh media. Keywords: Genetic modification

2007-10-16 | GSE6949 | GEO

Chromatin profiling of normal and HNF4A KO liver and NIH 3T3 mouse fibroblast cells

Project description:We analyzed the effect on HNF4A loss on Histone modifications (H3K4me1, H3K27ac) by ChIP-seq and CUT&Tag using control and HNF4A KO livers samples. We also examined chromatin accessibility by ATAC-seq in control and HNF4A KO livers. We also performed CUT&Tag and ATAC-seq of mouse fibroblast cells (NIH 3T3) treated with control or HNF4A expression vector.

2024-01-15 | GSE211123 | GEO

Differentiation of NIH-3T3 cells to adipocytes by PPARg or EBF1 over-expression.

Project description:NIH-3T3 cells transduced with either EBF1-, PPARg2- or empty vector were stimulated with hormones to initiate adipocyte differentiation. RNA extraction was done using TriZol at d0, d2, d4 and d10 after stimulation. Samples were handled according to standard affymetrix protocols. Keywords = Adipogenesis Keywords = adipocyte Keywords = early B-cell factor 1 (EBF1) Keywords = commitment Keywords = differentiation Keywords = NIH-3T3 Keywords = pparg Keywords: time-course

2005-01-28 | GSE2192 | GEO

Wild-type p53 enhances efficiency of simian virus 40 large-T-antigen-induced cellular transformation

Project description:To measure on a global scale the SV40 large T antigen-mediated changes in gene transcription in mouse embryo fibroblasts differing in the expression of p53. Samples of total RNA from 3T3 (wt p53) and 10-1 (p53-null) mouse embryo fibroblasts stably transfected with SV40 large T-antigen expressing pMYcLT vector (3T3 LT and 10-1 LT cells) or empty pMYsIG vector (3T3 IG and 10-1 IG cells) were subjected to gene expression analysis.

2009-07-18 | E-GEOD-17178 | biostudies-arrayexpress

Transcription profiling of mouse fibroblast cells transfected with zinc-inducible C/EBP expression vectors identifies Per2 as a gene implicated in myeloid leukemia

Project description:The zinc-inducible C/EBP expression vectors pMTa, pMTb, pMTd and pMTe were constructed by cloning the human C/EBPa, C/EBPb, C/EBPd and C/EBPe cDNAs, respectively, into the pMTCB6+ vector. NIH 3T3 cells were transfected with zinc-inducible C/EBP vectors as well as control empty vector using the GenePORTERâ¢ transfection Reagent (GTS Inc.). Multiple polyclonal clones were obtained by selection with G418 (700 mg/ml). Clones were screened by Western blot analysis for C/EBP protein expression following induction for 16 h with ZnSO4 (100 mM). Triplicate clones of NIH 3T3 cells were induced by addition of ZnSO4 (100 mM) for 16 h to the medium. Total RNA was isolated using TRIzol reagent (Invitrogen, Carlsbad, CA). Biotinylated cRNAs were prepared and hybridized to murine MG_74Av2 microarrays (Affymetrix, Santa Clara, CA, USA), which contains >12 000 genes. The probed arrays were scanned with a Hewlett Packard Gene Array scanner. The scanned output image files were analyzed using Affymetrix Microarray Suite version 5.0. To identify genes that were differently expressed between the five-sample sets (empty vector, C/EBPa, C/EBPb, C/EBPd and C/EBPe) class compression analysis were performed using BRBArray Tools (developed by Richard Simon and Amy Peng Lam; http://linus.nci.nih.gov/BRB-ArrayTools.html). Medium normalization was applied to the arrays and the percent absent filter was set at 80% to exclude probe sets that were unreliable. A list of 158 genes with probability of 95% that contain no more then 10% false discoveries was generated. Of these genes, 117 were significant at the 0.001 level of univariate F-test used and the remaining 41 were significant at the 0.027 level.

2007-12-04 | E-GEOD-2188 | biostudies-arrayexpress

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