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Source: GEO: Gene Expression Omnibus

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Total 772 results found since Jan 2013.

GSE185523 RNASeq of human bronchial epithelial (HBE) cells with cGAS-siRNA transfected
Contributors : Zhangchu Jin ; Wenqi Diao ; Anyi Guo ; Shiyi Yang ; Yinling Han ; Yinfang Wu ; Yun Zhao ; Yanping Wu ; Jiaxin Shen ; Songmin Ying ; Wen Li ; Huhao Shen ; Zhihua Chen ; Fugui YanSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensCyclic guanosine monophosphate (GMP)-adenosine monophosphate (AMP) synthase (cGAS) is a newly discovered sensor that detects cytosolic DNA as a universal danger-associated molecular pattern (DAMP). Here, we used RNA-seq to analyze transcriptomic expression difference between control-siRNA and cGAS-siRNA cells to find out what genes involved in the r...
Source: GEO: Gene Expression Omnibus - October 1, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE135920 Reprogramming of root cells during nitrogen-fixing symbiosis entails dynamic polysome association of coding and non-coding RNAs
Contributors : Soledad Traubenik ; Mauricio Reynoso ; Karen Hobecker ; Marcos Lancia ; Maureen Hummel ; Benjamine Rosen ; Christhpher Town ; Julia Bailey-Serres ; Flavio A Blanco ; Maria E ZanettiSeries Type : Expression profiling by high throughput sequencingOrganism : Medicago truncatulaGMUCT 2.0 data were analyzed to globally identify 5 ’ ends differentially accumulated in SKI3 RNAi roots as compared with GUS RNAi, as well as those that change in abundance in response to rhizobiaSUPERKILLER3 (*SKI3),* a member of SKI complex that guides RNAs to the 3 to 5' exoribonuclease of the exosome complex. In the absence of a fu...
Source: GEO: Gene Expression Omnibus - October 1, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Medicago truncatula Source Type: research

GSE169129 VPRBP, a novel androgen receptor and OGT target is an essential mediator of cellular transformation in prostate cancer
In this study, we employed chromatin immunoprecipitation coupled with massive parallel sequencing (ChIP-seq) to identify changes in p53 binding to the genome in VPRBP knockdown LNCaPs compared to scrambled siRNA transfected control cells. Stabilization of p53 was associated increased p53 recruitment to the chromatin.
Source: GEO: Gene Expression Omnibus - September 22, 2022 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE212324 RNA-sequencing in for Low, high or high density+PTPRK-deleted HeLa cells
Contributors : Hyun A Sohn ; Young I Yeom ; Dong C LeeSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensDensity-dependent regulation of cell growth is presumed to be caused by cell-cell contact, but the underlying molecular mechanism is not yet clearly defined. Our goal is to identify receptor-type protein tyrosine phosphatase-kappa (PTPRK) is an important regulator of cell contact-dependent growth inhibition and to elucidate the related mechanism regulated by PTPRK with analyzing transcriptome-based datasets generated from different condition of cell density combined with manipulation ...
Source: GEO: Gene Expression Omnibus - September 2, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE183178 Identification of Wnt target genes associated with malignant phenotypes in CTNNB1-mutated NSCLC
Contributors : Noriaki Sunaga ; Luc GirardSeries Type : Expression profiling by arrayOrganism : Homo sapiensMicroarray analysis comparing the expression profiles of siRNA-mediated CTNNB1-silenced and CTNNB1-retained HCC15 cells harboring a homozygous CTNNB1 S45F mutation revealed that besides several known Wnt genes, LGR6 was significantly downregulated by CTNNB1 knockdown in HCC15 cells.
Source: GEO: Gene Expression Omnibus - September 1, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE158301 RNA-seq in RAW264.7 cells after silence of Synbindin in response to LPS
Contributors : Luoyan Ai ; Antao XuSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusRAW264.7 cells were transfected with Synbindin siRNA for 48hours, then 100ng/ml LPS were treated cells for 4 hours. Before and after LPS stimulation, cells were collected and RNA were extracted for RNA-seq.
Source: GEO: Gene Expression Omnibus - September 1, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE205981 RNA-Seq analysis of cSCC cells followed by siRNA-induced gene knockdown of lncRNA LINC00094 (SERLOC)
Contributors : Minna Piipponen ; Liisa Nissinen ; Veli-Matti K ähäriSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensKeratinocyte-derived cutaneous squamous cell carcinoma (cSCC) is the most common metastatic skin cancer, and its incidence is increasing globally. Long non-coding RNAs (lncRNAs) are involved in various biological processes, and their role in cancer progression is emerging. Whole transcriptome analysis of cSCC cells (n=8) and normal human epidermal keratinocytes (NHEKs, n=4) revealed overexpression of long intergenic ncRNA (LINC00094) in cSCC cells (GSE66412). We wanted...
Source: GEO: Gene Expression Omnibus - August 29, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE211675 RANK Ligand Converts the NCoR/HDAC3 Co-Repressor to a PGC1 β- and RNA-Dependent Co-Activator Required for Osteoclastogenesis eCLIP-seq
Contributors : Yohei Abe ; Eric R Kofman ; Maria Almeida ; Zhengyu Ouyang ; Filipa Ponte ; Jasmine R Mueller ; Nathanael J Spann ; Jason S Seidman ; Joshua D Stender ; Havilah Taylor ; Weiwei Fan ; Verena M Link ; Isidoro Cobo ; Johannes C Schlachetzki ; Takao Hamakubo ; Kristen Jepsen ; Juro Sakai ; Michael Downes ; Ronald M Evans ; Gene W Yeo ; Stavros C Manolagas ; Michael G Rosenfeld ; Christopher K GlassSeries Type : OtherOrganism : Mus musculusTo investigate the cooperative function NCoR/HDAC3/PGC1 β complex in the regulation of osteoclast differentiation, we used NCoR KO or PGC1β KO bone marrow cells and non-codin...
Source: GEO: Gene Expression Omnibus - August 22, 2022 Category: Genetics & Stem Cells Tags: Other Mus musculus Source Type: research

GSE211674 RANK Ligand Converts the NCoR/HDAC3 Co-Repressor to a PGC1 β- and RNA-Dependent Co-Activator Required for Osteoclastogenesis RNA-seq
Contributors : Yohei Abe ; Eric R Kofman ; Maria Almeida ; Zhengyu Ouyang ; Filipa Ponte ; Jasmine R Mueller ; Nathanael J Spann ; Jason S Seidman ; Joshua D Stender ; Havilah Taylor ; Weiwei Fan ; Verena M Link ; Isidoro Cobo ; Johannes C Schlachetzki ; Takao Hamakubo ; Kristen Jepsen ; Juro Sakai ; Michael Downes ; Ronald M Evans ; Gene W Yeo ; Stavros C Manolagas ; Michael G Rosenfeld ; Christopher K GlassSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusTo investigate the cooperative function NCoR/HDAC3/PGC1 β complex in the regulation of osteoclast differentiation, we used NCoR KO...
Source: GEO: Gene Expression Omnibus - August 22, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE211672 RANK Ligand Converts the NCoR/HDAC3 Co-Repressor to a PGC1 β- and RNA-Dependent Co-Activator Required for Osteoclastogenesis ChIP-seq
Contributors : Yohei Abe ; Eric R Kofman ; Maria Almeida ; Zhengyu Ouyang ; Filipa Ponte ; Jasmine R Mueller ; Nathanael J Spann ; Jason S Seidman ; Joshua D Stender ; Havilah Taylor ; Weiwei Fan ; Verena M Link ; Isidoro Cobo ; Johannes C Schlachetzki ; Takao Hamakubo ; Kristen Jepsen ; Juro Sakai ; Michael Downes ; Ronald M Evans ; Gene W Yeo ; Stavros C Manolagas ; Michael G Rosenfeld ; Christopher K GlassSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusTo investigate the genomic localization of NCoR/HDAC3/PGC1 β complex and the enhancer/promoter activity in the regul...
Source: GEO: Gene Expression Omnibus - August 22, 2022 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE209693 Effect of AKTIP depletion in breast cancer cells
Contributor : Lydia W CheungSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensCopy number loss of AKTIP gene is frequently observed in breast cancer particularly luminal breast cancer. To determine the alterations in transcriptome upon AKTIP loss in luminal breast cancer cell line MCF7 and triple negative breast cancer cell line SKBR3, RNAseq of cells transfected with AKTIP siRNA was performed.
Source: GEO: Gene Expression Omnibus - August 19, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE201069 The alterations of gene expression profiling induced by LINC00857 knockdown in HCT116 cells
This study reveals a novel role of LINC00857 in downstream gene regulation and provides a new explanation of LINC00857 ’ s function in colorectal cancer.
Source: GEO: Gene Expression Omnibus - August 15, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE211076 Effect of depletion of ALKBH5 on gene expression of HaCAT human keratinocyte cell line
Contributors : Xin Huang ; Tao Zan ; Qingfeng LiSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo investigate the function of ALKBH5 in the regulation of keratinocyte cellular function, we established HaCAT cell lines in which ALKBH5 has been knocked down by siRNA. We then performed gene expression profiling analysis using data obtained from RNA-seq of 4 different cells from duplicate experiments.
Source: GEO: Gene Expression Omnibus - August 12, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE161899 The dependency factor RRM2 at the nexus of a copy number driven regulatory network and a target for synthetic lethal interactions with replication stress checkpoint addiction in high-risk neuroblastoma siRNA_RRM2
In this study, we identified and functionally evaluated the ‘ribonucleotide reductase regulatory subunit 2’ (RRM2) as a top-ranked 2p putative co-driver and therapeutic target in high-risk neuroblastoma enforcing replicative stress resistance. RRM2 dependency was shown in vitro through knockdown in neuroblastoma cells, with transcriptome analysis reveali ng downregulation of pediatric tumor markers. Transgenic zebrafish lines expressing RRM2 in immature sympathoblasts were crossed with a dh-MYCN transgenic zebrafish line, with RRM2 overexpression dramatically increasing tumor penetrance from 20% to nearly 100%, acce...
Source: GEO: Gene Expression Omnibus - August 3, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE210017 NAT10 modulates fatty acid metabolism of palmitate driven MCF7 in ac4C dependent manner
Contributors : Dalhat M Hassan ; Khan Mohammad ImranSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensWe show that non-toxic exogenous palmitate uptake in MCF7 cells promotes NAT10 expression and NAT10-dependent ac4C RNA modification. It was previously reported that NAT10 modulates the addition of ac4C on RNA transcripts in normal and cancer conditions. However, no study report the impact of NAT10 in palmitate driven cells. Here we performed RNA immunoprecipitation sequencing (RIP-seq) in palmitate loaded MCF7 knockdown with NAT10 siRNA. Based on the pathways and enrichment landscape id...
Source: GEO: Gene Expression Omnibus - August 3, 2022 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research