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BEAF-32 insulator regulates gene expression of genes involved in cell polarity and neoplastic growth.

ABSTRACT: This SuperSeries is composed of the following subset Series: GSE36735: Distribution of Drosophila insulator protein BEAF-32 in Wing imaginal tissue (Wildtype) [ChIP-seq] GSE36736: Genome wide transcriptional profiling of BEAF-32 in wing imaginal tissues of wildtype and mutants [expresion array] Refer to individual Series

ORGANISM(S): Drosophila melanogaster

SUBMITTER: Gurudatta Baraka Vishwanathan

PROVIDER: E-GEOD-36737 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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The BEAF insulator regulates genes involved in cell polarity and neoplastic growth.

Gurudatta B V BV Ramos Edward E Corces Victor G VG

Developmental biology 20120626 1

Boundary Element Associated Factor-32 (BEAF-32) is an insulator protein predominantly found near gene promoters and thought to play a role in gene expression. We find that mutations in BEAF-32 are lethal, show loss of epithelial morphology in imaginal discs and cause neoplastic growth defects. To investigate the molecular mechanisms underlying this phenotype, we carried out a genome-wide analysis of BEAF-32 localization in wing imaginal disc cells. Mutation of BEAF-32 results in miss-regulation ...[more]

PMID: 22743648

Similar Datasets

Genome wide transcriptional profiling of BEAF-32 in wing imaginal tissues of wildtype and mutants [expresion array]

Project description:The mutants in BEAF-32 gene in Drosophila caused the Neoplastic growth. In order to understand the rold of BEAF-32 insulator function in regualtion of gene expression we used the imagial tissue as a model to assay the transcriptional changes. The Imagianl tissues were disected in the icecold PBS and Total RNA was prepared using RNaeasy ( qiagen ) kit. This is followed by cDNA synthesis using Oligo dT. Transcriptional changes assayed with two biological replicates and two experimental replicates Two biologial replicates and two experimental replicates were prepared in an independent experiments. Each cDNA samples were labeled with Cy3 due and hybridised and scaned as per manufactures instructions at Florida state university Nimblegen fecility.

2012-07-05 | E-GEOD-36736 | biostudies-arrayexpress

Distribution of Drosophila insulator protein BEAF-32 in Wing imaginal tissue (Wildtype) [ChIP-seq]

Project description:Chromatin insulators are DNA protein complexes that mediate inter and intra chromosomal interactions. Boundary Element Associated Factor- 32 (BEAF-32) is an insulator protein predominantly found near gene promoters and thought to play a role in gene expression. We find that mutations in BEAF-32 are lethal, show loss of epithelial morphology in imaginal discs and cause neoplastic growth defects. To investigate the molecular mechanisms underlying this phenotype, we carried out a genome-wide analysis of BEAF-32 localization in wing imaginal disc cells. Mutation of BEAF-32 results in miss-regulation of 3850 genes by at least 1.5-fold, 647 of which are bound by this protein in wing imaginal cells. Up-regulated genes encode proteins such as Bazooka, a determinant of cell polarity; the Insulin receptor-1 and the p70-S6 kinase, involved in the insulin growth factor pathway that can activate various pathways involved in cell proliferation; and the Unpaired 3 ligand of the Janus kinase (JNK) pathway, and its target gene Socs35, which can also activate cell proliferation. The expression of genes involved in DNA homologous end repair and oxidative stress pathways is also increased in BEAF-32 mutants. Among the down-regulated genes are those encoding components of the Wingless pathway, which is required for cell differentiation, and amino acid metabolism. Miss-regulation of these genes explains the unregulated cell growth and neoplastic phenotypes observed in imaginal tissues of BEAF-32 mutants. Here we examine mapping the genomic binding sites and its distribution of BEAF-32, a Drosophila insulator proteins in wing imaginal tissue. We performed ChIP-seq analysis using BEAF-32B.

2012-07-05 | E-GEOD-36735 | biostudies-arrayexpress

Distribution of Drosophila insulator proteins during interphase and mitosis

Project description:Here we compare the distribution of insulator proteins during interphase and mitosis. We performed ChIP-seq analysis on purified populations of interphase and mitotic Kc cells, using antibodies against CP190, dCTCF, BEAF, and Su(Hw). Examination of 4 different insulator proteins during interphase and mitosis

2013-01-21 | E-GEOD-32584 | biostudies-arrayexpress

Kc cells from Drosophila melanogaster during ecdysone treatment and CP190 knockdown

Project description:This SuperSeries is composed of the following subset Series: GSE30686: Gene expression analysis of Kc cells from Drosophila melanogaster during ecdysone treatment and CP190 knockdown GSE30740: Distribution of Drosophila insulator proteins after ecdysone treatment in Kc cells Refer to individual Series

2011-10-13 | E-GEOD-30741 | biostudies-arrayexpress

Distribution of Drosophila insulator proteins after ecdysone treatment in Kc cells

Project description:Here we examine changes in the distribution of Drosophila insulator proteins during the ecdysone response. We performed ChIP-seq analysis in Kc cells at 0, 3, and 48 hours of ecdysone treatment with antibodies against CP190, Su(Hw), dCTCF, and BEAF-32B. Examination of 4 different insulator proteins at 3 time points of ecdysone treatment.

2011-10-13 | E-GEOD-30740 | biostudies-arrayexpress

Distribution of insulator proteins CP190, dCTCF, Su(Hw) and Mod(mdg4)2.2 in Drosophila S2 cells in the presence or absence of dPARP inhibitor 3AB

Project description:We mapped the localization of insulator proteins in Drosophila S2 cells in the presence or absence of 12mM of 3AB. We found that inhibition of PARylation affects DNA binding of insulator proteins only at a small subsets of genomic sites. Examination of genomic occupancy for insulator proteins in S2 cells with or without 3AB inhibition.

2013-09-15 | E-GEOD-41354 | biostudies-arrayexpress

Distribution of histone modificiation H3K27me3 in Drosophila Kc cells, comparison with dCTCF knockdown

Project description:Here we map the localization of H3K27me3 in Drosophila Kc cells, as well as in Drosophila Kc cells wherein dCTCF is knock down. examination of genomic occupancy for H3K27me3, control samples used for Drosophila Kc were previously described (Wood, Van Bortle et al., 2011 GSE30740)

2012-06-18 | E-GEOD-37444 | biostudies-arrayexpress

Distribution of Drosophila insulator proteins Mod(mdg4) and L(3)mbt in Kc cells

Project description:Here we map the localization of Mod(mdg4), including Mod(mdg4)2.2 specific and Mod(mdg4) common to all isoforms, to chromatin insulators, as well as the lethal-3 malignant brain tumor protein in Drosophila Kc cells. examination of genomic occupancy for Mod(mdg4)2.2, Mod(mdg4)BTB (all isoforms), and L(3)mbt, control samples used for Drosophila Kc were previously described (Wood, Van Bortle et al., 2011 GSE30740)

2012-06-18 | E-GEOD-36393 | biostudies-arrayexpress

Chromatin immunoprecipitation of BEAF-32A and BEAF-32B in Drosophila embryos

Project description:ChIP-chip analysis of BEAF binding sites in Drosophila embryos using three antibodies: one that recognize both BEAF-32A and BEAF-32B, one specific for BEAF-32A and one specific for BEAF-32B

2009-06-26 | E-TABM-597 | biostudies-arrayexpress

Histone Phosphoacetylation ChIP-seq of Kc167 cells from Drosophila

Project description:ChIP-seq was performed using Drosophila Kc167 cells using antibodies against H3K4me3 to identify active promoters and H3K4me1 to identify active enhancers. H3K27ac ChIPseq was performed to identify active promoters and enhancers. Once enhancers and promoters were identified, JIL-1 and histone phosphorylation, H3K9acS10ph and H3K27acS28ph, ChIP-seq was performed to look at binding trends. JIL-1 and phosphoacetlation is found at low levels at inactive enhancers and shows increase at active enhancers and promoters. Here we examine histone phosphorylation by JIL-1 and acetylation of H3K27ac by CBP at transcriptionally active vs. inactive promoters and enhancers. ChIP-seq is performed in Kc167 Drosophila cells using antibodies against JIL-1, H3K27acS28ph, H3K9acS10ph, H3K4me3, H3K4me1, and H3K27ac.

2012-03-29 | E-GEOD-36374 | biostudies-arrayexpress

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