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Source: GEO: Gene Expression Omnibus
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Total 772 results found since Jan 2013.
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
GSE143258 Poly(A) RNA sequencing of Silencing Defective 2 (SDE2) depletion in HeLa cells via siRNA
In this study, we use Poly(A) purified RNA sequencing to identify the alternative splicing profile in Hela cells following depletion of SDE2 via siRNA. Our data demonstrate that SDE2 depletion causes widespread changes in alternative splicing (AS), with increased intron retention being the most common event. These retained introns are significantly shorter, have a higher GC content, and overall maintain weaker 5' and 3' splice sites than other introns throughout the genome. Following the depletion of SDE2, increased intron retention causes catastrophic consequences for the cell, including defects in mitotic progression, gl...
Source: GEO: Gene Expression Omnibus - January 1, 2021 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE146017 Influence of CEBPD on Glucocorticoid Response in Airway Smooth Muscle
Contributor : Blanca E HimesSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensCCAAT/Enhancer Binding Protein D (CEBPD) is a transcription factor that regulates genes involved in immune and inflammatory responses. Based on our previous observation that CEBPD expression increases in airway smooth muscle (ASM) with glucocorticoid exposure, we sought to better understand its role in the ASM transcriptomic response to glucocorticoids via knockdown experiments.Primary human airway smooth muscle (ASM) cells from four non-asthma donors were transfected with 25pmol of siRNA non-targeting control...
Source: GEO: Gene Expression Omnibus - December 31, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing 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
GSE163646 MITF reprograms the extracellular matrix and focal adhesion in melanoma
Contributor : Ramile DilshatSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo assess the effects of permanent loss of MITF in melanoma cells, we used the clustered regularly interspaced short palindromic repeats (CRISPR)-Cas9 technique to generate MITF knockout (KO) cell lines in the human hypo-tetraploid SkMel28 melanoma cell line (containing four copies of MITF). We targeted exon 6 (containing the DNA binding domain) of MITF the resulting isogenic cell line is hereafter referred to as ΔMITF-X6. We also performed siRNA mediated transient knock down of MITF along with control siCTRL...
Source: GEO: Gene Expression Omnibus - December 22, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE163042 Hepatocyte Host Factor IFI44L Regulates the Innate and Acquired Immune Responses to Hepatitis B Virus
Contributors : Takuto Nosaka ; Tatsushi Naito ; Hidetaka Matsuda ; Masahiro Ohtani ; Katsushi Hiramatsu ; Tsutomu Nishizawa ; Hiroaki Okamoto ; Yasunari NakamotoSeries Type : Expression profiling by arrayOrganism : Homo sapiensObjective: Curing hepatitis B requires the complete elimination of covalently closed circular DNA (cccDNA). Interferon (IFN)- γ is produced by cytotoxic T lymphocytes and has noncytolytic antiviral potential; however, elimination of cccDNA could not be achieved. To enhance the regulatory effect of IFN-γ, we comprehensively analyzed the host factors that associated with cccDNA amplification and IFN-...
Source: GEO: Gene Expression Omnibus - December 12, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research
GSE155719 Transcriptional effects of MAF- and MAFB-siRNAs on M-CSF-derived macrophages
Contributors : Angeles Dominguez-Soto ; Miguel A Vega ; Angel L Corb íSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensAnalysis of the role of transcriptions factors MAF and MAFB on the phenotypic profles of human M-CSF-derived macrophages. Methods: Human Peripheral Blood Mononuclear Cells (PBMC) were isolated from buffy coats from donors over a Lymphoprep gradient according to standard procedures. Monocytes were purified from PBMC by magnetic cell sorting using anti-CD14 microbeads (>95% CD14+ cells). Monocytes (0.5 x 106 cells/ml,>95% CD14+ cells) were cultured in RPMI 1640 suppleme...
Source: GEO: Gene Expression Omnibus - December 9, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE152317 Identification of BBOX1 as a Therapeutic Target in Triple-Negative Breast Cancer
Contributors : Jeremy M Simon ; Qing ZhangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTriple-negative breast cancer (TNBC) is an aggressive and highly lethal disease. Because of its heterogeneity and lack of hormone receptors or HER2 expression, targeted therapy is limited. Here, by performing a functional siRNA screening for 2-OG –dependent enzymes, we identified gamma-butyrobetaine hydroxylase 1 (BBOX1) as an essential gene for TNBC tumorigenesis. BBOX1 depletion inhibits TNBC cell growth while not affecting normal breast cells. Mechanistically, BBOX1 binds with the calcium ch...
Source: GEO: Gene Expression Omnibus - December 2, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE140589 Cd302 and Cr1l restrict human hepatotropic virus cross-species transmission to mice 6PMH siRNA
Contributors : Richard Brown ; Birthe Tegtmeyer ; Thomas PietschmannSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusVirus species- and tissue-tropism is governed by host dependency and restriction factors. Hepatitis C virus (HCV) exhibits a narrow species-tropism and murine hepatocytes are refractory to infection. Using murine liver cDNA library screening we identified Cd302, a lectin, and Cr1l, a complement receptor, as pan-genotypic restrictors of HCV infection. Cd302/Cr1l interact to impede virion uptake and co-operatively induce a non-canonical transcriptional program, inhibiting ...
Source: GEO: Gene Expression Omnibus - December 1, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE146913 Broad non-coding transcription suggests genome surveillance by RNA Polymerase V
Contributors : Masayuki Tsuzuki ; Shriya Sethuraman ; Adriana N Coke ; M H Rothi ; Alan P Boyle ; Andrzej T WierzbickiSeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Arabidopsis thalianaEukaryotic genomes are pervasively transcribed, yet most transcribed sequences lack conservation or known biological functions. In Arabidopsis thaliana RNA polymerase V (Pol V) produces non-coding transcripts, which base-pair with small interfering RNA (siRNA) and allow specific establishment of RNA-directed DNA methylation (RdDM) on transposable e...
Source: GEO: Gene Expression Omnibus - November 16, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Arabidopsis thaliana Source Type: research
GSE160062 FGF9 Promotes Mouse Spermatogonial Stem Cell Proliferation Mediated by p38 MAPK Signaling bulk RNA-seq
Conclusions: Taken together, this data indicates that FGF9 is an important regulator of SSC proliferation, operating through p38 MAPK phosphorylation and upregulating Etv5 and Bcl6b in turn.
Source: GEO: Gene Expression Omnibus - October 26, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE160061 FGF9 Promotes Mouse Spermatogonial Stem Cell Proliferation Mediated by p38 MAPK Signaling single-cell RNA-seq
Conclusions: Taken together, this data indicates that FGF9 is an important regulator of SSC proliferation, operating through p38 MAPK phosphorylation and upregulating Etv5 and Bcl6b in turn.
Source: GEO: Gene Expression Omnibus - October 26, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research
GSE160001 FOXA1-dependent responses of the HER2+ SKBR-3 cell line to lapatinib
Contributors : Gary L Johnson ; Steven P AngusSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensSKBR-3 HER2+ breast cancer cells were treated with 25 nM Dharmacon siGENOME non-targeting (NT) siRNA control pool or siRNA pool targeting FOXA1 for 48h, then treated with either DMSO or 300nM lapatinib for 24h.
Source: GEO: Gene Expression Omnibus - October 26, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
GSE159637 RNA sequencing reveals the transcriptomic profile of human neuroblastoma SK-N-BE(2) cell line after MCM6 interfered by small interfering RNA
Contributors : Yaoyao Gu ; Xiaoxiao Hu ; Xiaowei Liu ; Cheng Cheng ; Kai Chen ; Yeming Wu ; Zhixiang WuSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensMinichromosome maintenance complex component 6 (MCM6), as an important replication permission factor, is involved in the pathogenesis of various tumors. we studied the expression of MCM6 in neuroblastoma and its influence on tumor characteristics and prognosis, and we found MCM6 has significant effect on tumor growth promotion. To investigate the underlying mechanism that MCM6 in neuroblastoma, we compared the transcriptomes of siRNA in...
Source: GEO: Gene Expression Omnibus - October 20, 2020 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research
