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Genome-wide RBR1 (Retinoblastoma related 1) binding sites in Arabidopsis thaliana dividing cells.

ABSTRACT: Genome-wide RBR1 (Retinoblastoma related 1) binding sites in Arabidopsis thaliana dividing cells.

PROVIDER: PRJNA428472 | ENA |

REPOSITORIES: ENA

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Genome-wide RBR1 (Retinoblastoma related 1) binding sites in Arabidopsis thaliana dividing cells.

Project description:ChIP-seq experiments using an anti-RBR1 antibody were performed on MM2d cell culture material from Arabidopsis thaliana (3d after sub-culture).

2018-11-10 | GSE108741 | GEO

Genome-wide identification of RETINOBLASTOMA RELATED 1 binding sites in Arabidopsis reveals novel DNA damage regulators.

Project description: Not available

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Genome-wide mapping of retinoblastoma (Rb) binding sites in prostate cancer cell lines VCaP and LNCaP

Project description:Although well characterized as a transcriptional activator, androgen receptor (AR) can also function as a direct transcriptional repressor in prostate cancer cells. The major targets of the AR repressive function are genes mediating DNA synthesis. In this study, we found that AR was recruited to the majority of these DNA synthesis genes and rapidly repressed their transcription. This direct AR mediated repression was enhanced in prostate cancer cells expressing higher levels of AR, and was mediated by recruitment of hypophosphorylated retinoblastoma protein (Rb).

2015-12-19 | GSE76141 | GEO

Genome-wide mapping of retinoblastoma (Rb) binding sites in prostate cancer cell lines VCaP and LNCaP

2015-12-19 | E-GEOD-76141 | biostudies-arrayexpress

Genome-wide binding sites for Arabidopsis ATH1

Project description:The Arabidopsis thaliana ATH1 encodes a BEL1-like TALE homeodomain (BLH) transcription factor that controls the development of shoot organ boundaries. As part of a screen for genes that mediate the function of ATH1 in shoot development, we performed ChIP-seq to identify genome-wide ATH1 binding sites in developing seedlings.

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PA-seq of retinoblastoma and retina

Project description:To obtain a global view of APA during the development of retinoblastoma, we subjected total RNAs from five retina sample and five retinoblastoma samples to PA-seq, which precisely identify poly(A) sites at the genome scale.

2023-02-03 | GSE224022 | GEO

Divergence of Transcription Factor Binding Sites in Related Yeast Species

Project description:Divergence of Transcription Factor Binding Sites in Related Yeast Species

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Genome-wide binding sites for Arabidopsis REPLUMLESS

Project description:The Arabidopsis thaliana REPLUMLESS gene (RPL), also known as PENNYWISE (PNY) and BELLRINGER (BLR) encodes a BEL1-like TALE homeodomain (BLH) transcription factor that controls multiple aspects of meristem and floral development, including meristem maintenance, phyllotaxis, transition to flowering, stem development and floral organ patterning [1-3]. As part of a screen for genes that mediate the function of RPL in the processes above, we performed ChIP-seq to identify genome-wide RPL binding sites within inflorescence apices. 1. Byrne, M.E., Groover, A.T., Fontana, J.R., and Martienssen, R.A. (2003). Development 130, 3941-3950. 2. Roeder, A.H.K., Ferrandiz, C., and Yanofsky, M.F. (2003). Current Biology 13, 1630-1635. 3. Smith, H.M.S., and Hake, S. (2003). Plant Cell 15, 1717-1727.

2016-09-22 | GSE78727 | GEO

Expression data from retinoblastoma

Project description:Genomic losses on chromosome 16q are among the most frequent alterations found in retinoblastoma. In this study, Affymetrix GeneChip analyses along with LOH analysis of microsatellie markers was used to identify candidate tumor suppressor loci in a set of retinoblastoma. We used microarrays to identify genes differentially expressed in retinoblastoma with LOH on 16q (M19484, M22590, M22641, M22860) compared to retinoblastoma without alterations in this region (M20517, M22067, M22233, M23209, M23449, M23818, M23896, M23978) Keywords: Disease progression

2007-01-29 | GSE5222 | GEO

QUANTITATIVE PHOSPHOPROTEOMIC PROFILING OF PRIMARY RETINOBLASTOMA TUMORS

Project description:Retinoblastoma is a malignant tumor of the retina which most often occurs in children below 5 years of age with an incident rate of about 1 in 15,000 to 18,000 live births. Retinoblastoma is the first ever cancer that was reported to have a genetic basis. It occurs widely due to inactivating mutations in RB1 gene. Gene expression studies, copy number variation analysis, epigenetic profiling including miRNA and methylation of retinoblastoma has been carried to understand the disease mechanism and key players in the disease. Our group has earlier performed differential proteomics of retinoblastoma to identify proteins of therapeutic importance. However, there are no studies to understand the signalling mechanisms associated with retinoblastoma. Hence, global phosphoproteomics of retinoblastoma was carried out to identify signalling events associated with this cancer. Our study identified stress response proteins to be hyper phosphorylated which included H2AFX and sirtuin 1. In particular, Ser140 of H2AFX also known as gamma-H2AX was found to be hyperphosphorylated in retinoblastoma that indicated activation of DNA damage response pathways. We also observed activation of anti-apoptotic proteins in retinoblastoma compared to control. These observations showed activation of survival pathways and signalling networks activated in tumors.

2019-11-11 | PXD007228 | Pride

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