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Gene Expression Omnibus Announcements & Study Releases
Announcements of updates and changes to the Gene Expression Omnibus (GEO) databases and notifications of newly released functional genomic studies.
- GSE269687 Pharmaceutical inhibition of the Chk2 kinase mitigates cone photoreceptor degeneration in an iPSC model of Bardet-Biedl syndrome April 2, 2025Contributors : Andrea Barabino ; Alisar Katbe ; Roy Hanna ; Gilbert BernierSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensBardet-Biedl syndrome (BBS) is a syndromic ciliopathy leading to progressive blindness starting in childhood, but the mechanism leading to photoreceptor degeneration in BBS is unknown. The basal bod […]
- GSE274331 Localization of H2AS40Gc in MDA-MB-231 and expression profile in H2AS40-knockdown cells April 2, 2025Contributor : Koji HayakawaSeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensWe report the genome-wide distribution of H2AS40Gc, H3K4me3, H3K27me3, and H3K36me3 in the breast cancer cell line MDA-MB-231 and the expression profile of MDA-MB-231 depleted S40 […]
- GSE272211 Pharmacologic degradation of WDR5 suppresses oncogenic activities of SS18-SSX and provides a therapeutic of synovial sarcoma [CUT&Tag] April 2, 2025Contributors : Yao Yu ; Greg Wang ; Bo PanSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensDisease-causing aberrations of childhood cancers recurrently target the chromatin pathway genes leading to epigenetic dysregulation. For example, almost 100% of patients with synovial sarcoma (SS) carry an abnormal ge […]
- GSE237201 ROCK1 orchestrates B cell differentiation in response to PAMPs and heme by controlling the heme-regulated proteins Bach2 and HRI April 2, 2025Contributors : Alessandra Pernis ; Juan Rivera-CorreaSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusProtective humoral responses require that B cells successfully complete their differentiation programs even when exposed to hostile environments generated during severe infections, like the massive hemolysis triggered by […]
- GSE293554 Size-Modulated Mesoderm-Endoderm Divergence and Myocardial Cavitation in Micropatterned Cardioids April 2, 2025Contributors : Plansky Hoang ; David W McKellar ; Andrew Kowalczewski ; Nhu Y Mai ; Meng Chai ; Lance X Lian ; Yi Zheng ; Iwijn De Vlaminck ; Huaxiao Yang ; Benjamin D Cosgrove ; Zhen MaSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThe human heart, originating from the splanchnic mesoderm, is the first functional orga […]
- GSE263092 The roles of Ptpn22 Ser452 phosphorylation in tumor-infiltrating CD8+ T cells from mouse April 2, 2025Contributors : Nunzio Bottini ; Shen Yang ; Richard I AinsworthSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusProtein Tyrosine Phosphatase Non-receptor type 22 (PTPN22) is encoded by a major autoimmunity gene and is a known inhibitor of T cell receptor (TCR) signaling for cancer immunotherapy. However, little is known […]
- GSE253269 RNA-seq analysis of T-ALL cells following FTO or ELK3 silencing April 2, 2025Contributors : Hudan Liu ; Guoliang Qing ; Hao HuangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensFTO serves as one of the demethylases for RNA N (6)-methyladenosine (m6A). ELK3 is responsible for encoding a member within the ETS-domain transcription factor family and the ternary complex factor (TCF) subfamily. To elu […]
- GSE293235 Aberrant circTMEM45A Facilitates ESCC Inflammatory Progression by upregulating the NLRP3/Caspase1/IL-1β pathway through m5C-mediated NLRP3 Activation April 2, 2025Series Type : Non-coding RNA profiling by high throughput sequencingOrganism : Homo sapiensEsophageal squamous cell carcinoma (ESCC) is a highly invasive, metastatic upper gastrointestinal malignancy. With the continuous deepening of personalized precision medicine, targeted therapy and immunotherapy have greatly improved the current treatment dilemma of eso […]
- GSE293228 Compartment size and proliferation shape the murine T cell receptor repertoire in splenic T- and B cell zones during an immune response April 2, 2025Contributors : Franka Buytenhuijs ; Cornelia Tune ; Andrea Schampel ; Lisa-Kristin Schierloh ; René Pagel ; Jürgen Westermann ; Johannes TextorSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusThe adaptive immune system recognizes billions of unique antigens using highly variable T cell receptors (TCRs). To what extent TC […]
- GSE293382 Viscoelastic Extracellular Matrix Enhances Epigenetic Remodeling and Cellular Plasticity [ATAC-seq] April 2, 2025Contributors : Yifan Wu ; Yang Song ; Jennifer Soto ; Song LiSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusExtracellular matrices of living tissues exhibit viscoelastic properties, yet how these properties regulate chromatin and the epigenome remains unclear. Here, we show that viscoelastic substrates in […]
- GSE293283 The self-renewal function of Oct-4 can be replaced by the EWS-OCT-4 fusion protein in embryonic stem cells April 2, 2025Contributors : Eun Joo Lee ; Ruijing Sun ; Jung Ho KimSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusEWS-Oct-4 can effectively replace Oct-4, which has significant implications for advancements in stem cell research and regenerative medicine
- GSE293383 Viscoelastic Extracellular Matrix Enhances Epigenetic Remodeling and Cellular Plasticity [RNA-seq] April 2, 2025Contributors : Yifan Wu ; Yang Song ; Jennifer Soto ; Song LiSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusExtracellular matrices of living tissues exhibit viscoelastic properties, yet how these properties regulate chromatin and the epigenome remains unclear. Here, we show that viscoelastic substrates induce changes i […]
- GSE293384 Viscoelastic Extracellular Matrix Enhances Epigenetic Remodeling and Cellular Plasticity April 2, 2025Series Type : Genome binding/occupancy profiling by high throughput sequencing ; Expression profiling by high throughput sequencingOrganism : Mus musculusThis SuperSeries is composed of the SubSeries listed below.
- GSE293539 A Living Organoid Biobank of Crohn’s Disease Patients Reveals Distinct Clinical Correlates of Molecular Subtypes of Disease April 2, 2025Contributors : Pradipta Ghosh ; Saptarshi Sinha ; Harrison M Penrose ; Brigid S Boland ; Courtney TindleSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensIn this work, Penrose et al. demonstrate the potential of PDOs as predictive tools in Crohn’s disease, that that capture the past, present, and future of disease behavio […]
- GSE268783 Gene expression profile at single cell level of mouse embryonic stem cells (mESCs) cultured in different media pulses April 2, 2025Contributors : M Blotenburg ; P ZellerSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusWe used single cell RNA sequencing (scRNA-seq) to analyze gene expression in 6 different mESC pre-culture conditions.