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GSE208171 Loss of protein function of ZC4H2 gene causing severe phenotypes of female-restricted Wieacker Wolff Syndrome
Conclusions: Down-regulation of genes related to the oxidative phosphorylation pathway might be involved in the pathogenity of the disease. Keywords: Female-restricted Wieacker-Wolff Syndrome (WRWF), Wieacker-Wolff Syndrome (WRWFFR), ZC4H2, Arthrogryposis multiplex congenita (AMC), nonsense mutation
Source: GEO: Gene Expression Omnibus - July 17, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE163164 Gene expression profiling of AGS Gastric Cancer cells upon YY1 knock down
Contributors : B DIVYA ; G KUMARESANSeries Type : Expression profiling by arrayOrganism : Homo sapiensYin Yang 1 (YY1) is a ubiquitous transcription factor belonging to the GLI-Kruppel class of zinc finger proteins regulating diverse biological processes including cell proliferation, development, DNA damage responses and also involved in carcinogenesis. The protein is involved in repressing and activating a diverse number of promoters.In order to study the role of the transcription factor YY1 in gastric cancer, transcriptome wide gene expression analysis was performed upon silencing the YY1 gene in gastric cancer cell line...
Source: GEO: Gene Expression Omnibus - March 31, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE143937 The Myc-Associated Zinc Finger Protein (MAZ) Works Both Independently and Together with CTCF to Control Cohesin Positioning and Genome Organization
Conclusions: Our study represents the first detailed analysis of retinal transcriptomes, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that NGS offers a comprehensive and more accurate quantitative and qualitative evaluation of mRNA content within a cell or tissue. We conclude that RNA-seq based transcriptome characterization would expedite genetic network analyses and permit the dissection of complex biologic functions.
Source: GEO: Gene Expression Omnibus - January 1, 2021 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Other Homo sapiens Source Type: research

GSE114030 PATZ1 ChIP-Seq
In conclusion, our study provides novel mechanistic insights into the role of PATZ1 in liver cancer progression, thereby providing a promising therapeutic intervention to alleviate tumor burden in liver cancer.
Source: GEO: Gene Expression Omnibus - December 31, 2020 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE113859 Genome-wide expression of PATZ1 knockdown in HepG2 cells
In conclusion, our study provides novel mechanistic insights into the role of PATZ1 in liver cancer progression, thereby providing a promising therapeutic intervention to alleviate tumor burden in liver cancer.
Source: GEO: Gene Expression Omnibus - December 31, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE139374 Investigating the role of GLI1 in SULF2-potentiated liver tumorigenesis
Contributors : Ryan M Carr ; Martin E Fernandez-ZapicoSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusThe expression of the extracellular sulfatase, SULF2, has been strongly associated with increased hepatocellular carcinoma (HCC) tumor growth and poorer patient survival. However, to date, the molecular mechanisms underlying this phenomenon remain in part unclear. To address this issue, we developed a transgenic mouse overexpressing Sulf2 in hepatocytes under the control of the transthyretin promoter. In this mouse model Sulf2 overexpression potentiated DEN-induced HCC. Further analys...
Source: GEO: Gene Expression Omnibus - October 25, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE124750 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis ChIP-seq
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway b...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124749 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis small RNA-seq
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Non-coding RNA profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway by testing ...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124747 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis RNA-seq
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Expression profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway by testing thei...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124746 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis WGBS
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Methylation profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway by testing the...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Methylation profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124744 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis BS-PCR-seq
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Methylation profiling by high throughput sequencingOrganism : Arabidopsis thalianaThe RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylation and silencing in Arabidopsis when tethered to an artificial zinc finger (ZF-RdDM). We studied their order of action within the RdDM pathway by testing the...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Methylation profiling by high throughput sequencing Arabidopsis thaliana Source Type: research

GSE124546 Co-targeting RNA Polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis
Contributors : Javier Gallego-Bartolom é ; Wanlu LiuSeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencing ; Methylation profiling by high throughput sequencing ; Non-coding RNA profiling by high throughput sequencingOrganism :The RNA-directed DNA methylation (RdDM) pathway in plants controls gene expression via cytosine DNA methylation. The ability to manipulate RdDM would shed light on the mechanisms and applications of DNA methylation to control gene expression. Here, we identified diverse RdDM proteins that are capable of targeting methylatio...
Source: GEO: Gene Expression Omnibus - February 7, 2019 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Methylation profiling by high throughput sequencing Non-coding RNA profiling by high throughput sequencing Source Type: research

GSE102843 CG-dinucleotide suppression enables antiviral defense targeting non-self RNA
Contributors : Matthew A Takata ; Paul D BieniaszSeries Type : OtherOrganism : Human immunodeficiency virus 1Vertebrate genomes exhibit marked CG-suppression, that is lower than expected numbers of 5 ’-CG-3’ dinucleotides1. This feature is likely due to C-to-T mutations that have accumulated over hundreds of millions of years, driven by CG-specific DNA methyl transferases and spontaneous methyl-cytosine deamination. Remarkably, many RNA viruses of vertebrates that are not substrates for DNA methyl transferases mimic the CG-suppression of their hosts2-4. This striking property of viral genomes is unexplained4-6. In a sy...
Source: GEO: Gene Expression Omnibus - August 22, 2017 Category: Genetics & Stem Cells Tags: Other Human immunodeficiency virus 1 Source Type: research