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GSE154529 Identification of ALKBH5 targets in osteosarcoma by methyl RNA immunoprecipitation MeRIP-seq
Contributors : Pooja Yadav ; Manjeet Rao ; Yidong Chen ; Zhao LaiSeries Type : OtherOrganism : Homo sapiensTo identify potential target mRNAs that are demethylated by ALKBH5, meRIP-seq with a m6A antibody was conducted in 143B osteosarcoma cells transfected with scrambled or ALKBH5-siRNA.
Source: GEO: Gene Expression Omnibus - June 28, 2022 Category: Genetics & Stem Cells Tags: Other Homo sapiens Source Type: research

GSE169322 Serine-Threonine Kinase Receptor-Associated Protein (STRAP) Knockout Decreases the Malignant Phenotype in Neuroblastoma
Conclusion: These novel findings demonstrated that STRAP plays a role in tumorigenesis and maintenance of neuroblastoma stemness.
Source: GEO: Gene Expression Omnibus - July 14, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE173313 Histone H4 lysine 20 mono-methylation directly facilitates chromatin ‘openness’ and promotes transcription of housekeeping genes (ATAC-seq_DRB)
Contributors : Muhammad Shoaib ; Qinming Chen ; Xiangyan Shi ; Nidhi Nair ; Chinmayi Prasanna ; Renliang Yang ; David Walter ; Klaus S Frederiksen ; Einarsson Hjorleifur ; Peter Svenson ; Chuan-Fa Liu ; Karl Ekwall ; Mads Lerdrup ; Lars Nordenski öld ; Claus S SørensenSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensTo study the role of Histone H4 lysine 20 mono- and tri-methylation (H4K20me1, H4K20me3) in relationship to chromatin accessibility and gene expression, we report the application of high-throughput profiling of these marks in synchronized and asynchronous Hu...
Source: GEO: Gene Expression Omnibus - June 4, 2021 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE156216 Histone H4 lysine 20 mono-methylation directly facilitates chromatin ‘openness’ and promotes transcription of housekeeping genes (ChIP-seq)
Contributors : Muhammad Shoaib ; Qinming Chen ; Xiangyan Shi ; Nidhi Nair ; Chinmayi Prasanna ; Renliang Yang ; Chuan F Liu ; David Walter ; Klaus S Frederiksen ; Peter Svenson ; Karl Ekwall ; Mads Lerdrup ; Lars Nordenski öld ; Claus S SørensenSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiens ; Mus musculusTo study the role of Histone H4 lysine 20 mono- and tri-methylation (H4K20me1, H4K20me3) in relationship to chromatin accessibility and gene expression, we report the application of high-throughput profiling of these marks in Human Osteosarcoma U2OS and Mouse Fibrobl...
Source: GEO: Gene Expression Omnibus - June 4, 2021 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Mus musculus Source Type: research

GSE156215 Histone H4 lysine 20 mono-methylation directly facilitates chromatin ‘openness’ and promotes transcription of housekeeping genes (ATAC-seq)
Contributors : Muhammad Shoaib ; Qinming Chen ; Xiangyan Shi ; Nidhi Nair ; Chinmayi Prasanna ; Renliang Yang ; Chuan F Liu ; David Walter ; Klaus S Frederiksen ; Peter Svenson ; Karl Ekwall ; Mads Lerdrup ; Lars Nordenski öld ; Claus S SørensenSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiens ; Mus musculusTo study the role of Histone H4 lysine 20 mono- and tri-methylation (H4K20me1, H4K20me3) in relationship to chromatin accessibility and gene expression, we report the application of high-throughput profiling of these marks in synchronized and asynchronous Human Osteo...
Source: GEO: Gene Expression Omnibus - June 4, 2021 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Mus musculus Source Type: research

GSE120512 Transcriptome modulation by loss-of-YAP1/TAZ in SK-N-MC Ewing Sarcoma cells
Contributors : Juan Diaz-Martin ; Laura Romero-PerezSeries Type : Expression profiling by arrayOrganism : Homo sapiensYAP1 (Yes-associated protein 1) and TAZ (transcriptional coactivator with PDZ-binding motif, or WWTR1) are nucleo-cytoplasmic shuttling proteins that can function in the nucleus as transcriptional coactivators. Here we sought to evaluate which genes are regulated by endogenous levels of YAP/TAZ. We compared SK-N-MC cells transfected with a control non-targeting siRNA with cells transfected with a mix of siRNA targeting both YAP and TAZ.
Source: GEO: Gene Expression Omnibus - September 27, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE73092 High-throughput RNAi cell viability screen to identify selective targets for EWS-FLI1 positive Ewing sarcoma
Contributors : Kristiina Iljin ; Tao HeSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensWe have performed a high-throughput RNA interference screen to identify targets inhibiting EWS-FLI1 driven cell proliferation in Ewing sarcoma cells. EWS-FLI1 expressing A673 Ewing sarcoma cells were screened both in presence and absence of EWS-FLI1 shRNA induction with druggable siRNA library. Leucine rich repeats and WD repeat Domain containing 1 (LRWD1) targeting siRNA pool was the strongest anti-proliferative hit identified only in presence of EWS-FLI1. Validation experiments confirmed the anti-...
Source: GEO: Gene Expression Omnibus - September 16, 2018 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE93677 Identification of a Novel SYK/c-MYC/MALAT1 Signaling Pathway and Its Potential Therapeutic Value in Ewing Sarcoma
Contributors : Haibo Sun ; De-Chen Lin ; Qi Cao ; Brenden Pang ; David-Hayon Gae ; Victor K Lee ; Huey J Lim ; Ngan Doan ; Jonathan W Said ; Sigal Gery ; Anand Mayakonda ; Charles Forscher ; Jeffery W Tyner ; Phillip H KoefflerSeries Type : Expression profiling by arrayOrganism : Homo sapiensEwing Sarcoma (EWS) is a devastating soft tissue sarcoma affecting predominantly young individuals. Tyrosine kinases (TKs) and associated pathways are continuously activated in many malignancies including EWS; these enzymes provide candidate therapeutic targets. Using two high-throughput screens with EWS cell lines (a siRNA library and...
Source: GEO: Gene Expression Omnibus - January 18, 2017 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE73422 Expression data from human osteosarcoma cells treated with CDK11 siRNA
Contributors : Yong Feng ; Zhenfeng DuanSeries Type : Expression profiling by arrayOrganism : Homo sapiensThe U-2OS and KHOS osteosarcoma cell lines where seeded onto the 100mm cell culture plate, then treated with CDK11 siRNA (40nM) or nonspecificsiRNA (40nM). Change with regular medium 24 hour later. Total RNA was collected from these cells using TRIzol® Reagent (GIBCO Grand Island, NY) according to the manufacturer’s instructions. To account for and eliminate biologic noise, RNA was isolated from three distinct flasks of each cell line and pooled together. RNA quality was determined via ethidium bromide staining foll...
Source: GEO: Gene Expression Omnibus - October 7, 2015 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE57203 Syngergistic Effect of JQ1 and Rapamycin for Treatment of Human Osteosarcoma
In conclusion, our findings suggest that JQ1, in combination with rapamycin, is an effective chemotherapeutic option for OS treatment. We also show that inhibition of RUNX2 expression by JQ1 partly explains antiproliferative activity of JQ1 in OS cells.
Source: GEO: Gene Expression Omnibus - May 1, 2015 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research