GSE228584 The tumor suppressor SMAD4 acts through WNT signaling in progression from benign lesions to oral squamous cell carcinoma
Contributors : Jing Yang ; James S Lewis ; Jinghuan Zi ; Thomas Andl ; Ethan Lee ; Claudia D Andl ; Qi Liu ; Robert D Beauchamp ; Anna L MeansSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusSMAD4 is a tumor suppressor mutated or silenced in multiple cancers including oral squamous cell carcinoma (OSCC). Human clinical samples and cell lines, mouse models and organoid culture were used to investigate the role that SMAD4 plays in progression from benign disease to invasive OSCC. Human OSCC lost detectable SMAD4 protein within tumor epithelium in 24% of cases and this loss correlate...
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE230258 Dorsomorphin (DM) inhibits AMPK, upregulates Wnt and Foxo genes and promotes activation of dormant follicles
Contributors : Julie F Madsen ; Karin Lykke-HartmannSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusWe record the application of RNA sequencing of murine ovarian follicles +/- DM (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE230868 Expression of the membrane tetraspanin claudin 18 on cancer cells promotes T lymphocyte infiltration and antitumor immunity in pancreatic cancer
Contributors : Francesco De Sanctis ; Silvia Dusi ; Simone Caligola ; Cristina Anselmi ; Varvara Petrova ; Barbara Rossi ; Gabriele Angelini ; Michael Erdeljan ; Stefan W öll ; Melissa Schlitter ; Thomas Metzler ; Katja Steiger ; Zea Borok ; Peter Bailey ; Aline Bauer ; Cornelia Halin ; Federico Boschi ; Rosalba Giugno ; Stefania Canè ; Rita Lawlor ; Vincenzo Corbo ; Aldo Scarpa ; Gabriela Constantin ; Stefano Ugel ; Fulvia Vascotto ; Ugur Sahin ; Özlem Tureci ; Vincenzo BronteSeries Type : Expression profiling by arrayOrganism : Mus musculusTumors weakly infiltrated by T lymphocytes poorly r...
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by array Mus musculus Source Type: research

GSE231454 Effect of TAC on human and mouse cells [RNA-seq]
Contributors : Hong S Shim ; Jiexi LiSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiens ; Mus musculusGenome-wide transcriptomics were used to discover the MoA of the small-molecule TERT activator compound.We then performed gene expression profiling analysis using data obtained from RNA-seq. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Mus musculus Source Type: research

GSE231455 Small molecule TERT activator prevents aging and cognitive decline [ChIP-seq]
Contributor : Hong S ShimSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensWe discovered a novel small-molecule TERT activating compound (TAC) that selectively enhances TERT transcription in human and mouse adult somatic cells. Our findings also provide the novel mechanism of TAC-mediated TERT up-regulation and elucidate the impact of TERT induction on regulatory factors governing aging. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE232534 Cutting down steroid biosynthesis through SIRT6 induced H3K56ac deacetylation Fuels the osteogenic commitment of MSCs (ChIP-Seq)
Contributors : Xueyang Liao ; Ling YeSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensTo detect the mechanism underlying osteogenic commitment and proliferation rate change of HDPCs driven by MDL-800, we performed ChIP-seq analysis to detect the recruitment of genes on H3K9ac and H3K56ac in MDL-800 pre-treated HDPCs. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE232535 Cutting down steroid biosynthesis through SIRT6 induced H3K56ac deacetylation Fuels the osteogenic commitment of MSCs (RNA-Seq)
Contributors : Xueyang Liao ; Ling YeSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo detect the mechanism underlying osteogenic commitment and proliferation rate change of HDPCs driven by MDL-800, we performed gene expression profiling analysis for HDPCs with DMSO or MDL-800 pre-treatment under normal or osteogenic differentiation conditions. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE232537 Cutting down steroid biosynthesis through SIRT6 induced H3K56ac deacetylation Fuels the osteogenic commitment of MSCs
Series Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensThis SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Homo sapiens Source Type: research

GSE236410 Inflammatory Alterations to Renal Lymphatic Endothelial Cell Gene Expression in Mouse Models of Hypertension
Contributors : Justin G McDermott ; Bethany L Goodlett ; Heidi A Creed ; Shobana Navaneethabalakrishnan ; Joseph M Rutkowski ; Brett M MitchellSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusTo evaluate the specific changes that renal LECs undergo in hypertension (HTN), we performed single-cell RNA sequencing. Using the angiotensin II-induced and salt-sensitive mouse models of HTN, we isolated renal CD31+ and podoplanin+ cells from hypertensive and normotensive mice. Sequencing of these cells revealed three distinct cell types (LECs, myeloid immune cells, and an unusual third populat...
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE239786 Study of the tRNA-derived fragment expression profile in mouse pancreatic islets of pre-diabetic obese db/db mice
In this study, we discovered cytosolic and mitochondrial fragments resulting from tRNA and mt-tRNA cleavage, which may act as new regulators of cellular and metabolic functions. We analyzed hundreds of these fragments in the pancreatic islets of db/db mice and compared them to heterozygous control db/+ mice. At 16 weeks of age, db/db mice exhibit obesity, insulin resistance, and glucose intolerance. In our analysis, we identified 3858 tRFs in the islets of db/db mice, among which 342 exhibited significant changes ( ≥ 2 fold; adjusted p value ≤ 0.05) compared to controls. Of these, 199 tRFs showed increased levels, whil...
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by high throughput sequencing Mus musculus Source Type: research

GSE239981 Study of the tRNA-derived fragment expression profile in rat pancreatic islets of diabetes-susceptible low-protein (LP) exposed rats
In this study, we discovered cytosolic and mitochondrial fragments resulting from tRNA and mt-tRNA cleavage, which may act as new regulators of cellular and metabolic functions. The so-called LP rat model consists of 22-day-old rats whose mothers have been subjected to a low protein diet during gestation and lactation. These offspring have impaired pancreatic development with reduced ß-cell mass, glucose-stimulated insulin secretion defect and are more prone to develop diabetes in adulthood. We identified hundreds of these fragments as being changed in the pancreatic islets of LP rats and compared them to chow diet (CD) e...
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by high throughput sequencing Rattus norvegicus Source Type: research

GSE240395 Silencing of mt-tRF-LeuTAA fragment in pancreatic rat islets and investigation by RNA-sequencing of the downstream mechanisms activated by this fragment
In this study, we discovered cytosolic and mitochondrial fragments resulting from tRNA and mt-tRNA cleavage, which may act as new regulators of cellular and metabolic functions. We selected the mt-tRF-LeuTAA fragment for further investigation, as its level is altered in the islets diabetes-susceptible animal models, while being abundant in ß-cells. mt-tRF-LeuTAA fragment is derived from the cleavage of tRNA-LeuTAA encoded by the mitochondrial genome. We demonstrated that mt-tRF-LeuTAA acts as a key regulator of mitochondrial OXPHOS functions, mitochondrial membrane potential, the insulin secretory capacity of ß-cells, a...
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Rattus norvegicus Source Type: research

GSE241312 Investigation of the Mechanism of Action by Comprehensive Transcriptome Analysis
Contributors : Takashi Watanabe ; Yuki Kuniyoshi ; Kazuhide NakamuraSeries Type : Expression profiling by arrayOrganism : Homo sapiensTo elucidate the SLFN12 RNase effector function, we used whole-genome microarray expression profiling as a discovery platform to identify genes that potentially drive anticancer efficacy upon OPB-171775 treatment. The compound was treated for 8 or 24 hours in control PFSK1 cells and siSLFN12 knockdown PFSK1 cells. Gene set enrichment analysis (GSEA) revealed a significant enrichment of gene sets associated with ribosomal function and the endoplasmic reticulum (ER) stress response in OPB-...
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by array Homo sapiens Source Type: research

GSE241495 Effect of lactic acid bacterium 2004 on transcription profile in wildtype animals and daf-16 mutants.
Contributors : Saya Kishimoto ; Masanori Nono ; Masaharu Uno ; Eisuke NishidaSeries Type : Expression profiling by high throughput sequencingOrganism : Caenorhabditis elegansExamine the effect of lactic bacterium 2004 supplementation on expression profile in wld type animals. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Caenorhabditis elegans Source Type: research

GSE241974 The ATHB2 microProtein affects plant development and the shade avoidance response (RNA-Seq)
Contributors : Stephan Wenkel ; Ashleigh K Edwards ; Maurizio ChiurazziSeries Type : Expression profiling by high throughput sequencingOrganism : Arabidopsis thalianaPlants display remarkable adaptability to varying light conditions, crucial for their optimal growth and development. Here, we investigate the functional significance of ATHB2-miP, a microProtein arising from an alternative transcript of the ATHB2 gene, in both white light and shade environments, supported by comprehensive phenotyping experiments. ATHB2, a homeodomain-leucine zipper transcription factor, is known for its involvement in growth regulation. By ...
Source: GEO: Gene Expression Omnibus - May 14, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Arabidopsis thaliana Source Type: research