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Study of the functional implication of altered nuclear morphology on global gene expression profile in Drosophila S2R+ cells

ABSTRACT: A probe of the coupling of gene expression and nuclear structure in Drosophila S2R+ cells was undertaken by a study of altered expression profile following a 6 day RNAi mediated genetic perturbation of Klaroid (CG18584), Lamin (CG6944) and Msp-300 (CG33715).

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE32525 | GEO | 2012/10/01

SECONDARY ACCESSION(S): PRJNA147825

REPOSITORIES: GEO

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Study of the functional implication of altered nuclear morphology on global gene expression profile in Drosophila S2R+ cells

Project description:A probe of the coupling of gene expression and nuclear structure in Drosophila S2R+ cells was undertaken by a study of altered expression profile following a 6 day RNAi mediated genetic perturbation of Klaroid (CG18584), Lamin (CG6944) and Msp-300 (CG33715). Genotypic Technology designed Custom Gene Expression Drosophila 8x15k array ( Agilent-AMADID:020441)

2012-10-01 | E-GEOD-32525 | biostudies-arrayexpress

ChIP-seq analysis of M1BP in Drosophila S2R+ cells

Project description:The genomic distribution of a novel transcription factor called M1BP was determined in Drosophila S2R+ cells

2013-08-13 | GSE49842 | GEO

Time series RNA-seq analyses of Drosophila S2R+ cells after insulin stimulation

Project description:Purpose: identifying genes responding to insulin stimulation in S2R+ cells through whole transcriptome RNA-seq analyses Methods: Total RNA was extracted from S2R+ cells using TRIzol® reagent (Invitrogen). After assessing RNA quality with an Agilent Bioanalyzer, libraries were constructed with Illumina TruSeq mRNA Library Prep Kit , libraries were sequenced using an Illumina HiSeq 4000 at the Columbia Genome Center (http://systemsbiology.columbia.edu/genome-center). Results: Using an time series data analysis workflow incorporating polynormials , we identified 1254 temproally differentially expressed genes responding to insulin stimulation in the S2R+ cells.

2019-04-04 | GSE129292 | GEO

High-throughput sequencing of Drosophila melanogaster small RNAs from S2R+ cells

Project description:High-throughput sequencing of Drosophila melanogaster small RNAs from S2R+ cells. total RNA, ~18-26nt RNAs isolated using PAGE, ligation to adapters requires 5' monophosphate and 3' OH For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Small RNAs were sequenced from D. melanogaster S2R+ cells. Raw sequences were clipped by 3' linker sequences recognition, and select clipped sequences longer than 18 nt.

2008-12-04 | E-GEOD-13679 | biostudies-arrayexpress

ChIP-seq using a Dp1 antibody in Drosophila S2R+ cells

Project description:Here we report the identification of genomic regions of DNA bound by Dp1 in Drosophila S2R+ cells. Dp1 is a dimerization partner of several E2F transcription factors and is needed for E2F target promoter binding. We find that Dp1 binds the promoter regions of genes important for oxidative phosphorylation. This result is important since our data demonstrates that expression of several oxidative phosphorylation genes is down-regulated in dDP mutant Drosophila 3rd instar larval eye imaginal discs. These ChIP-seq results suggest that the mechanism by which dDP regulates expression of these genes is direct. In addition, we have confirmed a number of these Dp1 bound gene promoters by conventional Chromatin Immunoprecipitation. Examination of Dp1 bound regions of genomic DNA in S2R+ cells.

2013-11-25 | E-GEOD-39393 | biostudies-arrayexpress

ChIP-seq analysis of M1BP in Drosophila S2R+ cells

Project description:The genomic distribution of a novel transcription factor called M1BP was determined in Drosophila S2R+ cells Polyclonal antibody raised against M1BP was used to immunoprecipitate M1BP-DNA adducts generated by treating Drosophila cells with formaldehyde, lysing the cells, and shearing DNA by sonication. Immunoprecipitated DNA was sequenced using the AB SOLiD system.

2013-08-13 | E-GEOD-49842 | biostudies-arrayexpress

A comparison of transcriptome between Drosophila S2R+ cell line cultured in M3 media supplemented with fly extract and S2R+ cell line cultured in M3 + BPYE + 10% FCS

Project description:We report the transcriptome analysis of Drosophila S2R+ cells cultured in media lacking vertebrate fetal bovine serum during log-phase of growth. The three media conditions are: (1) M3 BPYE 10% FCS (2) M3 + 10% Fex and (3) M3 + 2.5% Fex.

2020-12-22 | GSE154485 | GEO

High-throughput sequencing of Drosophila melanogaster small RNAs from S2R+ cells

2008-12-04 | GSE13679 | GEO

Expression analysis of Drosophila S2R+ cells depleted of M1BP by RNAi

Project description:Microarray analysis of gene expression profiles in control and M1BP-depleted Drosophila S2R+ cells. The results of this analyses are reported in Li, J. and D.S. Gilmour (2013) The newly identified transcription factor M1BP ad GAGA factor orchestrate distinct mechanisms of transcriptional regulation on paused genes. The EMBO J, in press.

2013-08-13 | GSE46629 | GEO

Expression analysis of Drosophila S2R+ cells depleted of M1BP by RNAi

2013-08-13 | E-GEOD-46629 | biostudies-arrayexpress

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