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Source: GEO: Gene Expression Omnibus
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Total 772 results found since Jan 2013.
GSE183147 Genome-wide maps of double strand breaks after siRNA knockdown of DDX41 in HCT116 cells
We report the first genome-wide mapping of fragility hotspots after siRNA-mediated knockdown of the DEAD-box helicase DDX41 in HCT116 cells using sBLISS. DDX41 defficient cells display elevated levels of genomic instability. sBLISS analysis revealed that hotspots for genomic instability in the absence of DDX41 are located around the transcription start site of transcribed genes.
Source: GEO: Gene Expression Omnibus - November 17, 2021 Category: Genetics & Stem Cells Tags: Other Homo sapiens Source Type: research
GSE183081 Genome wide mapping of native R-loops using a targeted nuclease approach in HCT116 cells after DDX41 siRNA knockdown (MapR)
Contributors : Thorsten Mosler ; Petra Beli ; Nastasja KreimSeries Type : OtherOrganism : Homo sapiensPurpose: Investigation of genome-wide changes in R-loop levels after knockdown of DDX41 HCT116 cells in comparison to a control knockdown.Method: Concanavalin A-coated beads were activated in Binding Buffer (20 mM Hepes-KOH pH 7.9, 10 mM KCl, 1mM CaCl2, 1 mM MnCl2). 1*10^6HCT116 cells were washed twice with Wash Buffer (Hepes-NaOH pH7.5, 150 mM NaCl, 0.5 mM Spermidine, 1 mM protease inhibitor) at room temperature and afterwards immobilized on the activated beads in 50 µl Wash Buffer containing 0.05% Digitonin. Either pA-M...
Source: GEO: Gene Expression Omnibus - November 17, 2021 Category: Genetics & Stem Cells Tags: Other Homo sapiens Source Type: research
GSE174626 mRNA-Seq analysis of cSCC cells followed by siRNA-induced gene knockdown of C1r.
Contributors : Kristina Viiklepp ; 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. Chronic inflammation has been recognized as a risk factor for cSCC and inflammation is a typical feature in the progression of premalignant actinic keratosis lesions to invasive and metastatic cSCC. The complement system is an important part of innate immunity, and activation of complement is detected in the microenvironme...
Source: GEO: Gene Expression Omnibus - November 17, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE165718 BACH1, the master regulator of oxidative stress, modulates CFTR gene expression RNA-seq
Contributors : Monali NandyMazumdar ; Alekh Paranjapye ; James Browne ; Shih-Hsing Leir ; Shiyi Yin ; Ann HarrisSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThe cystic fibrosis transmembrane conductance regulator (CFTR) gene lies within a TAD in which multiple cis-regulatory elements (CREs) and transcription factors (TFs) regulate its cell-specific expression. The CREs are recruited to the gene promoter by a looping mechanism that depends upon both architectural proteins and specific TFs. An siRNA screen to identify TFs coordinating CFTR expression in airway epithelial cells sugges...
Source: GEO: Gene Expression Omnibus - November 17, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE165717 BACH1, the master regulator of oxidative stress, modulates CFTR gene expression ChIP-seq
Contributors : Monali NandyMazumdar ; Alekh Paranjapye ; James Brown ; Shiyi Yin ; Shih-Hsing Leir ; Ann HarrisSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensThe cystic fibrosis transmembrane conductance regulator (CFTR) gene lies within a TAD in which multiple cis-regulatory elements (CREs) and transcription factors (TFs) regulate its cell-specific expression. The CREs are recruited to the gene promoter by a looping mechanism that depends upon both architectural proteins and specific TFs. An siRNA screen to identify TFs coordinating CFTR expression in airway epithelial...
Source: GEO: Gene Expression Omnibus - November 17, 2021 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research
GSE165716 BACH1, the master regulator of oxidative stress, modulates CFTR gene expression 4C-seq
Contributors : Ann Harris ; Monali NandyMazumdar ; Shiy Yin ; Alekh Paranjapye ; James Brown ; Shih-Hsing LeirSeries Type : OtherOrganism : Homo sapiensThe cystic fibrosis transmembrane conductance regulator (CFTR) gene lies within a TAD in which multiple cis-regulatory elements (CREs) and transcription factors (TFs) regulate its cell-specific expression. The CREs are recruited to the gene promoter by a looping mechanism that depends upon both architectural proteins and specific TFs. An siRNA screen to identify TFs coordinating CFTR expression in airway epithelial cells suggested an activating role for BTB Domain and CNC H...
Source: GEO: Gene Expression Omnibus - November 17, 2021 Category: Genetics & Stem Cells Tags: Other Homo sapiens Source Type: research
GSE188404 The Long Non Coding RNA SAMMSON is a regulator of chemosensitivity and metabolic orientation in doxorubicin resistant breast cancer cells
Contributors : Charlotte Orre ; Valerie Desquiret-Dumas ; Delphine Prunier-MirebeauSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensDespite improvements in therapeutic strategies for treating breast cancers, tumor relapse and chemoresistance remain major issues in patient outcomes. Indeed, cancer cells display a metabolic plasticity allowing a quick adaptation to tumoral microenvironment and to cellular stresses induced by chemotherapy. Recently, long non-coding RNA molecules (lncRNAs) have emerged as important regulators of cellular metabolic orientation. In the present study, we addr...
Source: GEO: Gene Expression Omnibus - November 10, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE186951 MIA SH3 Domain ER Export Factor 3 deficiency prevents neointimal formation by restoring BAT-like PVAT and decreasing VSMC proliferation and migration
Contributors : Yu Lei ; Jianfei Xu ; Mengju Li ; Ting Meng ; Tao Zhuang ; Junli ZuoSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensRNA-sequencing data of HASMC transfected with MIA3 siRNA or scramble siRNA.
Source: GEO: Gene Expression Omnibus - November 3, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE122158 Genome wide expression change by TRIM56 knocking down in MCF-7 cells
Contributors : jian zhu ; Hui wangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensWe aim to the investigate the role of TRIM56 in breast cancer progression. MCF-7 cells were used as the model and TRIM56 was silenced by siRNA.
Source: GEO: Gene Expression Omnibus - November 3, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE131048 PERK signaling through C/EBP δ contributes to ER stress-induced expression of immunomodulatory and tumor promoting chemokines by cancer cells.
Contributors : Namratha Sheshadri ; Esta SterneckSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensExpression of the transcription factor CEBPD is induced at early stages of the endoplasmic reticulum (ER) stress response. In order to identify the genes modulated by CEBPD during the ER stress response, we transiently silenced CEBPD expression in MDA-MB-435 melanoma cells and isolated mRNA at 6 h of treatment with Thapsigargin or DMSO control. As control, cells were transfected with two different control siRNA oligonucleotides. Results provide insights into which genes are modulated by CE...
Source: GEO: Gene Expression Omnibus - November 1, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE179241 Gene expression data from human breast cancer MCF-7 cells treated with siRNA targeting OCT1
Series Type : Expression profiling by arrayOrganism : Homo sapiensTo evaluate the effect of OCT1 in breast cancer cells, expression of OCT1 was knocked down in MCF-7 cells by small interfering RNA (siRNA). Microarray analysis was performed to analyze gene expression profiles of these cells.
Source: GEO: Gene Expression Omnibus - October 25, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research
GSE186005 Klf5 confers embryonic and extra-embryonic bi-potential cell fate in early blastomeres and embryonic stem cells
This study examines the transcriptomes of embryonic stem cells following overexpression of Klf5. Additionally, this study examines the transcripomes of single embryos either treated with scramble siRNA or siRNA targeting Klf5.
Source: GEO: Gene Expression Omnibus - October 20, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE172094 siRNA-mediated E2F1 and E2F2 silencing in growth-stimulated prostate cancer cells
Contributors : Salma Ben-Salem ; Eduardo Cortes ; Qiang Hu ; Song Liu ; Hannelore HeemersSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo study the effect of siRNA-mediated E2F1 and E2F2 silencing in growth-stimulated prostate cancer cells.
Source: GEO: Gene Expression Omnibus - October 14, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE185261 Organ-differential Regulation of Vascular Development by DEAD-box Helicase 24
Contributors : Fangbin Chen ; Zhaohua Deng ; Hong Shan ; Huanhuan HeSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThe goal of this study is to understand the molecular mechanisms of DDX24 organ-differentially regulates vascular development, we sequenced the DDX24 or control siRNA transfected HUVECs and HCMECs. We compared the expression levels of many genes involved in angiogenesis such as VEGF, Wnt and Notch signaling, these genes not consistent alterations in HUVEC and HCMEC. HUVEC is mainly an up-regulation of the VEGF pathway, while HCMEC shows a down-regulation of the Wnt pathway.
Source: GEO: Gene Expression Omnibus - October 8, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE185361 Rapid evolutionary dynamics of an expanding family of Drosophila meiotic drive factors and their hpRNA suppressors
Contributors : Jeffrey Vedanayagam ; Ching-Jung Lin ; Eric C LaiSeries Type : Expression profiling by high throughput sequencing ; Non-coding RNA profiling by high throughput sequencingOrganism : Drosophila mauritiana ; Drosophila sechelliaThe Dox meiotic drive system distorts the sex-ratio in Drosophila simulans. Here, the authors reconstruct the step-wise emergence, and recent amplification of Dox superfamily genes in parallel with the emergence of autosomal hairpin RNA-class siRNA loci that target subsets of these putative drivers
Source: GEO: Gene Expression Omnibus - October 7, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Non-coding RNA profiling by high throughput sequencing Drosophila mauritiana Drosophila sechellia Source Type: research
