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Source: GEO: Gene Expression Omnibus
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Total 772 results found since Jan 2013.
GSE167177 ATAC-seq for E14 cells knockdown with siRNA or shRNA
Contributors : Y YI ; Y Y Zeng ; H Li ; Y LohSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusATAC-seq was performed on cells E14 cells knockdown with siRNA or shRNA
Source: GEO: Gene Expression Omnibus - March 8, 2023 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research
GSE225723 Effect of inhibition of Setdb1 on gene expression in AML12 cells
Contributors : Zhigang Wang ; Yi Zhang ; Yanhui LiSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusTo investigate the mRNA expression regulated by Setdb1, we established AML12 knockdown cell model by infecting Setdb1 siRNA for 72 hours
Source: GEO: Gene Expression Omnibus - March 5, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE224588 Long read proteogenomics to connect disease-associated sQTLs to the protein isoform effectors in disease
In this study, we developed a novel approach that integrates information from GWAS, splicing QTL (sQTL), and PacBio long-read RNA-seq in a disease relevant model to infer the effects of sQTL on the ultimate protein isoform products they encode. Such information enables identification of genes potentially responsible for GWAS associations. As a proof-of-concept, we generated deep coverage (N=~22 million full-length reads) PacBio long-read RNAseq data on human fetal osteoblasts (hFOBs), a cell-line of relevance to the regulation of bone mineral density (BMD). We identified 68,326 protein-coding isoforms, including 17,375 (25...
Source: GEO: Gene Expression Omnibus - March 1, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE225616 Hepatocyte mARC1 Promotes Fatty Liver Disease
Conclusions: Collectively, our findings from human genetics, and in vitro and in vivo hepatocyte-specific mARC1 knockdown support the potential efficacy of hepatocyte-specific targeting of mARC1 for treatment of NAFLD.
Source: GEO: Gene Expression Omnibus - February 20, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE225547 Reverse Transcription quantitative PCR (RT-q PCR) analysis of osteogenic-related markers for osteogenic differentiation from human periodontal ligamen stem cells
Contributors : C Sawangmake ; M PurwaningrumSeries Type : Expression profiling by RT-PCROrganism : Homo sapiensWe pre-treated human periodontal ligament stem cells (hPDLSCs) under Iinterleukin-6 (IL-6) in osteogenic inductive medium (OM) on osteogenic differentiation potential and investigate the specific signaling pathway by clarifying with several antagonists (Dkk-1, SP600125, SB431542, and DAPT) and siRNA (siWnt2B, siWnt10B, and siWnt5A) to identify the differences in the expression pattern of osteogenic related markers by reverse transcription quantitative polymerase chain reaction (RT-qPCR).
Source: GEO: Gene Expression Omnibus - February 19, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by RT-PCR Homo sapiens Source Type: research
GSE201234 AGO4 slicer activity reveals the passenger strand function of plant 23 nt siRNAs and the post-slicing retention of target RNAs mediating RNA-directed DNA methylation WGBS
Contributors : Feng Wang ; Hsiao-Yun Huang ; Craig PikaardSeries Type : Methylation profiling by high throughput sequencingOrganism : Arabidopsis thalianaIn plants, transcriptional silencing by RNA-directed DNA methylation (RdDM) is mediated by ARGONAUTE 4 (AGO4) and 24 nt short-interfering RNAs (siRNAs) that are generated in parallel with 23 nt RNAs of unknown function. We show that 23 nt RNAs serve as the passenger strands of 23/24 nt duplexes loaded into AGO4. The 24 nt siRNAs then guide AGO4 slicing of the passenger strands, generating 11 and 12 nt cleavage products. Unexpectedly, we find that the 12 nt products remain...
Source: GEO: Gene Expression Omnibus - February 17, 2023 Category: Genetics & Stem Cells Tags: Methylation profiling by high throughput sequencing Arabidopsis thaliana Source Type: research
GSE201233 AGO4 slicer activity reveals the passenger strand function of plant 23 nt siRNAs and the post-slicing retention of target RNAs mediating RNA-directed DNA methylation smallRNA-seq
Contributors : Feng Wang ; Hsiao-Yun Huang ; Craig PikaardSeries Type : Non-coding RNA profiling by high throughput sequencingOrganism : Arabidopsis thalianaIn plants, transcriptional silencing by RNA-directed DNA methylation (RdDM) is mediated by ARGONAUTE 4 (AGO4) and 24 nt short-interfering RNAs (siRNAs) that are generated in parallel with 23 nt RNAs of unknown function. We show that 23 nt RNAs serve as the passenger strands of 23/24 nt duplexes loaded into AGO4. The 24 nt siRNAs then guide AGO4 slicing of the passenger strands, generating 11 and 12 nt cleavage products. Unexpectedly, we find that the 12 nt products rem...
Source: GEO: Gene Expression Omnibus - February 17, 2023 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by high throughput sequencing Arabidopsis thaliana Source Type: research
GSE145729 Estrogen-induced CircRNA, CircPGR, Functions as a CeRNA to Promote Estrogen Receptor-positive Breast Cancer Progression by Regulating Cell Cycle-related Genes
Contributors : Wen Liu ; Lei Wang ; Guosheng Hu ; Yi C LiuSeries Type : Expression profiling by high throughput sequencing ; Non-coding RNA profiling by high throughput sequencingOrganism : Homo sapiensEstrogen and estrogen receptor (ER)-mediated gene transcriptional events have been well known to be involved in ER-positive breast carcinogenesis. Meanwhile, circular RNAs (circRNAs) are emerging as a new family of functional non-coding RNAs (ncRNAs) with implications in a variety of pathological processes, such as cancer. However, the estrogen-regulated circRNA program and the function of such program remain uncharacterized...
Source: GEO: Gene Expression Omnibus - February 13, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Non-coding RNA profiling by high throughput sequencing Homo sapiens Source Type: research
GSE164973 Functional role of HSPA5 in trophoblasts
Contributors : Antti Haapalainen ; Heli Tiensuu ; Pinja TissarinenSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensAnalysis of the effect of HSPA5 siRNA experiment
Source: GEO: Gene Expression Omnibus - February 7, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE208415 TXNIP loss expands Myc transcriptome RNA-seq
Contributors : Tian-Yeh Lim ; Blake R Wilde ; Donald E AyerSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo better understand how TXNIP in the contributes to the poor prognosis of triple-negative breast cancers, our lab has generated TXNIP null MDA-MB-231 cells (231:TKO). We characterized the gene exrpession programs of these cells by RNA-seq. To determine the Myc-dependence of the transcriptional programs of 231:TKO cells, we used an siRNA RNA approach to reduce Myc levels.
Source: GEO: Gene Expression Omnibus - February 7, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE196260 A global transcriptome analysis of human dermal fibroblasts upon knockdown of the circular RNAs circGLIS3 (circBase ID: hsa_circ_0002874)
Contributors : Ning X Land én ; Maria A TomaSeries Type : Expression profiling by arrayOrganism : Homo sapiensIn an RNAseq analysis, we have identified circGLIS3 with high levels acute wound dermis compared to skinThe biological function of circGLIS3 in human dermal fibroblasts during wound repair has not been studied.To study the genes regulated by circGLIS3, we transfected siRNA targeting the diagnostic junctions of circGLIS3 into human dermal fibroblasts to knockdown circGLIS3 expression.We performed a global transcriptome analysis of keratinocytes upon circRNA knockdown using Affymetrix arrays.
Source: GEO: Gene Expression Omnibus - February 6, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research
GSE196655 The role of MEF2A in iPSC-CMs maturation
Contributors : Jing Zhang ; Jingping Yang ; Zhaohui OuyangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo understand the role of MEF2A in iPSC-CMs maturation, we used MEF2A-siRNA to reduce MEF2A transcription in iPSC-CMs and then examined the changes in transcription levels
Source: GEO: Gene Expression Omnibus - February 3, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE222599 TMT-based quantitative proteomic analysis of spheroid cells of endometrial cancer possessing cancer stem cell properties
Contributors : Qingyan Zhang ; Mingzhu CaoSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensRNA-seq of HK2-siRNA transfected to Ishikawa and HEC1A cells to investigate the molecular mechanism of HK2 in endometrial cancer.
Source: GEO: Gene Expression Omnibus - January 14, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE222499 Liver-specific FGFR4 knockdown in mice on a HFD increases bile acid synthesis and improves hepatic steatosis II
Contributor : Softic SamirSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusNonalcoholic fatty liver disease (NAFLD) is the most common chronic liver disease with increased risk in patients with metabolic syndrome. There are no FDA approved treatments, but farnesoid X receptor (FXR) agonists have shown promising results in clinical studies for NAFLD management. In addition to FXR, fibroblast growth factor receptor FGFR4 is a key mediator of hepatic bile acid synthesis. Using N-acetylgalactosamine-conjugated siRNA, we knocked down FGFR4 specifically in the liver of mice on chow or...
Source: GEO: Gene Expression Omnibus - January 11, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE206845 Effect of depletion of USP36 on gene expression of ECA109 cells, esophageal squamous cell carcinoma cell line.
Contributors : Wenhao Zhang ; Xiaogang Zhao ; Jian ZhuSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo investigate the function of USP36 in the regulation of cell proliferation and escc progression, we established eca109 cell lines in which each target gene has been knocked down by siRNA.We then performed gene expression profiling analysis using data obtained from RNA-seq of 6 different cells at same time points.
Source: GEO: Gene Expression Omnibus - January 4, 2023 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
