GSE212970 Increased genomic instability and reshaping of tissue microenvironment underlie oncogenic properties of Arid1a mutations
Series Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusThis SuperSeries is composed of the SubSeries listed below. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE227197 Translational and Transcriptional control of gene expression during serum stimulation on human RPE-1 cells
Contributors : Yiqin Ma ; Bruce A Edgar ; Stephen M PronovostSeries Type : Expression profiling by high throughput sequencing ; OtherOrganism : Homo sapiensIn animal cells, growth factor signaling promotes both cell cycle progression and cell growth. To understand how the cell cycle is coupled to growth, we examined translational activities in human Retinal Pigment Epithelial cells by whole-transcriptome ribosome profiling. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Other Homo sapiens Source Type: research

GSE227558 Effect of low-level Er:YAG laser irradiation on proliferation and gene expression changes of primary gingival fibroblasts isolated from mouse maxilla.
This study aimed to explore the effects of low-level Er:YAG laser irradiation on the proliferation of gingival fibroblasts without the photothermal effect. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE227618 MicroRNA-494 augments fibroproliferation in human retinal pigment epithelial cells and targets p27 with cell-type specificity
Contributors : Theodore Leng ; Georgia Kamboj ; Creed StarySeries Type : Non-coding RNA profiling by arrayOrganism : Homo sapiensEpiretinal membranes (ERMs) are the result of fibro-cellular proliferation that cause distortion and impairment of central vision. We hypothesized that select microRNAs (miRs) regulate retinal fibroproliferation and ERM formation. Following IRB approval, a pilot study was performed in patients presenting for retina surgery with and without clinical ERMs. Total RNA was isolated from ERM tissue and controls from non-ERM vitreous and subjected to miR profiling via microarray analysis. MiR-494 was...
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by array Homo sapiens Source Type: research

GSE227668 Effect of sirt6 deficiency on gene expression in zebrafish at 3 dpf
Contributors : Luping Wang ; Wenqing ZhangSeries Type : Expression profiling by high throughput sequencingOrganism : Danio rerioTo investigate the underlying mechanisms of sirt6 in the regulation of HSCs and neutrophils lineage expansion in zebrafish. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Danio rerio Source Type: research

GSE227751 Effect of Romidepsin treatment on patient-derived liver cancer cells
Contributors : Lei Sun ; Guohui WanSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensRomidepsin displayed potent antitumor activity in our lenvatinib-resistant PDCs, we wanted to investigate the underlying mechanism of how romidepsin initiated susceptibility to conquer lenvatinib resistance in liver cancer. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Homo sapiens Source Type: research

GSE234782 Absence of chromosome axis proteins recruitment prevents meiotic recombination chromosome-wide in the budding yeast Lachancea kluyveri (Hi-C)
Contributors : Sylvain Legrand ; Asma Saifudeen ; H élène Bordelet ; Julien Vernerey ; Arnaud Guille ; Amaury Bignaut ; Agnès Thierry ; Laurent Acquaviva ; Maxime Gaudin ; Aurore Sanchez ; Dominic Johnson ; Anne Friedrich ; Joseph Schacherer ; Matthew Neale ; Valérie Borde ; Romain Koszul ; Bertrand LlorenteSeries Type : OtherOrganism : Lachancea kluyveriAbsence of chromosome axis proteins recruitment prevents meiotic recombination chromosome-wide in the budding yeast Lachancea kluyveri (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Other Lachancea kluyveri Source Type: research

GSE237853 MOUSE peritoneal macrophages treated with LUP or Vehicle
Contributors : Zhihua Wu ; Qiaoling Song ; Chenyang Zhao ; Peng WangSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusMouse peritoneal macrophages were isolated and treated with vehicle or LUP (0.5 mg/ml) for 24 h. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE237937 Sex-Specific Developmental Gene Expression Atlas Unveils Dimorphic Gene Networks in C. elegans
This study offers a comparative sexual and developmental gene expression database for C. elegans, which will facilitate research into the genetic regulation of the sexual development of other organisms. Furthermore, it highlights conserved candidate genes that may underlie the sexually-dimorphic manifestation of different human diseases (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Caenorhabditis elegans Source Type: research

GSE240065 ChIP-Seq Data of purified hepatocytes
Contributors : Alessandro D'Ambrosio ; Davide Bressan ; Elisa Ferracci ; Fulvio ChiacchieraSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusOncogenic mutations accumulating in many chromatin-associated proteins have been identified in different tumor types. With a mutation rate from 10 to 57%, ARID1A has been widely considered a tumor suppressor gene. However, whether this role is mainly due to its transcriptional-related activities or its ability to preserve genome integrity is still a matter of intense debate. Here, we show that ARID1A is largely dispensable for pre...
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Genome binding/occupancy profiling by high throughput sequencing Mus musculus Source Type: research

GSE240067 RNA-seq Data of Liver Tissue and Tumors
Contributors : Alessandro D'Ambrosio ; Davide Bressan ; Elisa Ferracci ; Fulvio ChiacchieraSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusOncogenic mutations accumulating in many chromatin-associated proteins have been identified in different tumor types. With a mutation rate from 10 to 57%, ARID1A has been widely considered a tumor suppressor gene. However, whether this role is mainly due to its transcriptional-related activities or its ability to preserve genome integrity is still a matter of intense debate. Here, we show that ARID1A is largely dispensable for preserving enhanc...
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE247090 Determinant of m6A regional preference by transcriptional dynamics
In this study, by performing m6A-seq on chromatin-associated RNAs, we found that m6A regional preference arises during transcription. Nucleosome occupancy is remarkedly increased in the region down stream of m6A sites, suggesting an intricate interplay between m6A methylation and transcriptional dynamics. Notably, we found a remarkable slowdown of Pol-II movement around m6A sites. In addition, inhibiting Pol-II movement increases nearby m6A methylation levels. By analyzing massively parallel a ssays for m6A, we found that RNA secondary structures inhibit m6A methylation. Remarkably, the m6A sites associated with Pol-II pau...
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Other Mus musculus Source Type: research

GSE254410 In the aftermath of stroke or myocardial infarction, neutrophil extracellular traps disrupt systemic immunoglobulin production
Contributors : Ali A Tuz ; Susmita Ghosh ; Markus Gallert ; Dimitris TtoouliSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusPost-injury dysfunction of humoral immunity accounts for infections and poor outcome in cardiovascular diseases. Immunoglobulin A (IgA), the most abundant mucosal antibody is produced by plasma B cells in intestinal Peyer ’s patches (PP) and lamina propria. Here, we show that stroke and myocardial ischemia (MI) patients had strongly reduced IgA blood levels. This was phenocopied in experimental mouse models where decreased plasma and fecal IgA were accompani...
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research

GSE261440 Challenges in the discovery of tumor-specific alternative splicing-derived cell-surface antigens in glioma
Conclusions: Our investigation illustrated the diverse characteristics of the tumor-specific AS events and the challenges of antigen exploration due to their notable spatiotemporal heterogeneity and elusive nature at the protein levels. Redirecting future efforts toward intracellular, MHC-presented antigens could offer a more viable avenue. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 17, 2024 Category: Genetics & Stem Cells Tags: Other Homo sapiens Source Type: research

GSE261720 Transcriptional Dynamics of Hepatic Sinusoid-Associated Cells After Liver Injury [bulk RNA-seq]
Contributors : M K Terkelsen ; K RavnskjaerSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusHere we profile the transcripts of app. 35.000 single cells isolated from livers of healthy and diseased mice. We show the transcriptomic change associated with fibrosis induction in the non-parenchymal cell types (hepatic stellate cells, liver endothelial cells and macrophages). We reveal a hitherto unknown feature of the HSCs otherwise functionally attributed to the LECs. (Source: GEO: Gene Expression Omnibus)
Source: GEO: Gene Expression Omnibus - March 16, 2024 Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Mus musculus Source Type: research