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ChIP-Seq analysis of LCOR and mutated variants lacking the nuclear receptor binding domain or the HTH motif in MDA-MB-231 breast cancer cells

ABSTRACT: LCOR is a tumor suppressor that induces differentiation of mammary stem cells and cancer stem cells. LCOR orchestrates and sensitizes cells to interferon in ER-negative breast cancer cells. LCOR can act as a co-repressor of activated nuclear receptors and also as a transcription factor by DNA direct binding through its HTH domain. These domains are the most conserved regions of LCOR across vertebrates, suggesting a conserved regulatory function. Here we performed ChiP-seq analysis of LCOR in MDA-MB-231 cells with ectopic expression of the LCOR wild-type, LCOR without the nuclear receptor binding domain (LSKAA) and LCOR with deleted DNA binding domain (HTH). This analysis allows to compare the genome wide distribution of LCOR depending on these specific protein domains

ORGANISM(S): Homo sapiens

PROVIDER: GSE163408 | GEO | 2022/01/04

REPOSITORIES: GEO

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ChIP-Seq analysis of LCOR and mutated variants lacking the nuclear receptor binding domain or the HTH motif in MDA-MB-231 breast cancer cells

Project description:ChIP-Seq analysis of LCOR and mutated variants lacking the nuclear receptor binding domain or the HTH motif in MDA-MB-231 breast cancer cells

| PRJNA686061 | ENA

LCOR regulates transcription of human mammary epithelial and breast cancer cells

Project description:Normal human mammary epithelial cell (HMLE) and breast cancer MDA-MB-231 cells are engineered to knockdown or enforce expression of variety of LCOR gene products. In addition to wild-type cDNA, functional domain deficient mutants were used to elucidate mechanism of LCOR incorporated transcriptional regulation. The transcriptome profiles were determined and compared.

2017-05-05 | GSE85802 | GEO

Tissue overgrowth induced by coexpression of the progenitor genes hth/MEIS1 and tsh/TSHZ results from an imbalance in the estrogen response pathway in Drosophila [RNA-Seq]

Project description:Analysis of third instar eye-antennal Drosophila imaginal discs with forced expression of hth, tsh or hth+tsh in the eye using an eye-specific GAL4 driver (optix2.3-GAL4). Forced maintenance of hth+tsh expression (but not of any of the two alone) results in overgrowth and aberrant cell differentiation. Results provide insight into new targets of hth+tsh.

2017-08-31 | GSE65251 | GEO

Tissue overgrowth induced by coexpression of the progenitor genes hth/MEIS1 and tsh/TSHZ results from an imbalance in the estrogen response pathway in Drosophila [FAIRE-Seq]

2017-08-31 | GSE65250 | GEO

modENCODE_White Lab: genome-wide ChIP data of Hth from E0-8 on Illumina Genome Analyzer.

2011-12-28 | GSE34604 | GEO

modENCODE_White Lab: genome-wide ChIP data of Hth from E8-16 on Illumina Genome Analyzer.

2011-12-16 | GSE34361 | GEO

A New Family of Vertebrate Specific Polycomb Proteins Encoded by the LCOR and LCORL Gene Loci Reveal Antagonism Between PRC2 Subtypes

Project description:The Polycomb Repressive Complex 2 (PRC2) is composed of core subunits SUZ12, EED, RBBP4/7 and EZH1/2, which together are responsible for all di- and tri- methylation of lysine 27 on Histone H3 (H3K27me2/3) in higher eukaryotes. While two distinct forms, PRC2.1 (containing one Polycomb-like protein) and PRC2.2 (containing AEBP2 and JARID2) exist, little is known about their differential functions or interplay. Here we report the discovery of a new family of vertebrate specific PRC2.1 associated proteins; ‘PRC2 associated LCOR isoform 1’ (PALI1) and PALI2, encoded by the LCOR and LCORL gene loci, respectively. PALI1 promotes PRC2 methyltransferase activity in vitro and in vivo and is essential for mouse development. We uncover an antagonistic relationship between the PALI-PRC2.1 and AEBP2-PRC2.2 subtypes and establish that both are required for balanced regulation of Polycomb target genes during differentiation. This discovery links the Polycomb epigenetic system with co-repressors and nuclear receptors in the regulation of cellular identity.

2018-04-05 | GSE108302 | GEO

A New Family of Vertebrate Specific Polycomb Proteins Encoded by the LCOR and LCORL Gene Loci Reveal Antagonism Between PRC2 Subtypes

2018-04-05 | GSE100679 | GEO

ssDNA is an allosteric regulator of the C. crescentus SOS-independent DNA damage response transcription activator, DriD

Project description:DNA damage repair systems are critical for genomic integrity. However, they must be coordinated with DNA replication and cell division to ensure accurate genomic transmission. In most bacteria this coordination is mediated by the SOS response through LexA , which triggers a halt in cell division until repair is completed. Recently, an SOS-independent damage response system was revealed in Caulobacter crescentus. This pathway is controlled by the transcription activator, DriD, but how DriD senses and signals DNA damage is unknown. To address this question we performed biochemical, cellular, and structural studies. We show that DriD binds a specific promoter DNA site via its N-terminal HTH domain to activate transcription of genes including the cell division inhibitor didA. A structure of the C-terminal portion of DriD revealed a WYL-motif domain linked to a WCX dimerization domain. Strikingly, we found that DriD binds ssDNA between the WYL and WCX domains. Comparison of apo and ssDNA-bound DriD reveals that ssDNA binding orders and orients the DriD domains, indicating a mechanism for ssDNA-mediated DNA-binding activation. Biochemical and in vivo studies support the structural model. Our data indicate this as a conserved mechanism of signaling for WYL-containing regulators.

2022-05-15 | GSE197978 | GEO

modENCODE_White Lab: genome-wide ChIP data of Hth from E0-8 on Illumina Genome Analyzer.

Project description:This is a dataset generated by the Drosophila Regulatory Elements modENCODE Project led by Kevin P. White at the University of Chicago. It contains genome-wide binding profile of the factor Hth from E0-8 generated by ChIP and analyzed on Illumina Genome Analyzer. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf A validated dataset is comprised of three biological replicates for ChIP-chip experiments and two replicates for ChIP-seq and meet the modENCODE quality standards. The control sample is the chromatin Input used for ChIP. Most factors binding profiles are generated by using specific antibodies for the protein of interest. However, some factors have been tagged by GFP in a transgenic line. In that case, ChIP is generated using an anti-GFP antibody. This submission represents the ChIP-seq component of the study.

2011-12-28 | E-GEOD-34604 | biostudies-arrayexpress

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