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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.
- GSE284450 snRNAseq of mouse thick ascending limb cells May 24, 2025Contributors : Jonathan W Nelson ; Jessica Bahena-Lopez ; Xiao-Tong Su ; David H EllisonSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusKidney thick ascending limb (TAL) cells display a remarkable amount of regional and functional heterogeneity. We applied single-nucleus RNA-seq to map the molecular heterogeneity of enr […]
- GSE286081 NR4A1 Expression Aberrations Contribute to Radiotherapy Resistance in Gastric Cancer May 24, 2025Contributors : Peidong Ni ; Chuming ZhuSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThe expression of NR4A1 was significantly reduced in radioresistant cells, namely MKN45-R and AGS-R, as opposed to their parental counterparts. Overexpressing NR4A1 in MKN45-R and AGS-R cells resulted in heightened sensitivity to radi […]
- GSE285364 Intercellular communication between hepatic stellate cells and myofibroblasts mediated by osteopontin and FGF18 May 24, 2025Contributors : Takao Seki ; Yuichi Tsuchiya ; Takashi Nishina ; Hiroyasu NakanoSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusPurpose: To further explore FGF18's role in liver fibrosis beyond its known effects on HSC proliferation and TGFβ signaling, we performed RNA sequencing on primary HSCs treated with FGF18 o […]
- GSE261681 Interlocking core regulatory circuits enable viral hijacking in Merkel cell carcinoma May 24, 2025Contributors : Berkley E Gryder ; Xinyu Wen ; Javed KhanSeries Type : Genome binding/occupancy profiling by high throughput sequencing ; OtherOrganism : Homo sapiensMerkel Cell carcinoma (MCC) is an aggressive neuroendocrine skin cancer. The conditions and cell type(s) of MCC are unknown. Virus positive MCC (VP-MCC) is driven by T antigens expressed from int […]
- GSE297776 Luteolin Modulates miRNA–mRNA Regulatory Networks to Attenuate TGF-β1-Induced Fibrogenesis: Insights from Next-Generation Sequencing May 24, 2025Contributor : Yu-Hsin TsengSeries Type : Expression profiling by high throughput sequencing ; Non-coding RNA profiling by high throughput sequencingOrganism : Homo sapiensLuteolin has demonstrated therapeutic potential against pulmonary fibrosis, yet the underlying miRNA-mediated regulatory mechanisms remain poorly defined. In this study, we employed next-ge […]
- GSE278129 Nat10 regulates the homeostasis of pluripotency and 2C state in mESCs by N4-acetylcytidine mRNA modification [RNA-Seq] May 24, 2025Series Type : Expression profiling by high throughput sequencingOrganism : Mus musculusMouse embryonic stem cells (mESCs) were isolated from the inner cell mass (ICM), which can prevent an excessive number of cells from transitioning to the 2-cell state and retain only 1%–5% of cells transiently expressing 2C genes such as Zscan4 and ERVs, and 95%–99% of nor […]
- GSE268287 Screening lncRNAs that binding with catenin. May 24, 2025Series Type : OtherOrganism : Homo sapiensBecause of its insensitivity to existing radiotherapy, namely chemotherapy and targeted treatments, triple-negative breast cancer (TNBC) remains a great challenge to overcome. Increasing evidence has indicated abnormal Wnt/β-catenin pathway activation in TNBC but not luminal or HER2+ breast cancer, and lncRNAs play a […]
- GSE291368 Barcoded monoclonal embryoids are a potential solution to confounding bottlenecks in mosaic organoid screens May 24, 2025Contributors : Sam Regalado ; Silvia Domcke ; Chengxiang Qiu ; Jean-Benoît Lalanne ; Beth Martin ; Aidan Keith ; Maddy Duran ; Cole Trapnell ; Jay ShendureSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGenetic screens in organoids hold tremendous promise for accelerating discoveries at the intersection of genomics and […]
- GSE291244 Lineage recording in monoclonal gastruloids reveals heritable modes of early development May 24, 2025Contributors : Sam Regalado ; Junhong Choi ; Chengxiang Qiu ; Sanjay Kottapalli ; Beth Martin ; Wei Chen ; Hanna Liao ; Haedong Kim ; Xiaoyi Li ; Jean-Benoît Lalanne ; Nobu Hamazaki ; Silvia Domcke ; Jay ShendureSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusMammalian stem cells possess a remarkable capacity for self-o […]
- GSE296680 Plasma cell-free mRNA profiles the immune response and myocardial damage in immune checkpoint inhibitor-induced myocarditis May 24, 2025Contributors : Alireza Raissadati ; Sean M Wu ; Han ZhuSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensImmune checkpoint inhibitor-induced myocarditis (ICI-m) is a highly fatal cancer treatment complication with challenging diagnosis and invasive diagnostic methods. We developed a plasma cell-free mRNA (cf-mRNA) platfor […]
- GSE295452 Tracing the evolution of single-cell 3D genomes in Kras-driven cancers [snRNA-seq] May 24, 2025Contributors : Miao Liu ; Shengyan Jin ; Sherry S Agabiti ; Tyler B Jensen ; Tianqi Yang ; Jonathan S Radda ; Christian F Ruiz ; Gabriel Baldissera ; Moein Rajaei ; Fang-Yong Li ; Jeffrey P Townsend ; Mandar D Muzumdar ; Siyuan WangSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusAlthough three-dimensional (3D) genome st […]
- GSE297158 RNA-seq of control and TIA1-knockdown HMC3 cells May 24, 2025Contributors : Yiming Qian ; Hong Yu ; Jianhong Dong ; Ying Wang ; Zhihui Huang ; Lipei WangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThe study aims to utilize RNA-seq to characterize the transcriptomic alterations in TIA1-knockdown HMC3 cells compared to control cells, with the goal of identifying differentially […]
- GSE297582 H3 Acetylation and H2A.Z Levels Interplay to Regulate Gene Expression and Plant Development [RNA-seq] May 24, 2025Contributors : Israel Ausin ; Yafei Wang ; Yingpei Su ; Qin Hu ; Weiye Qian ; Min Liu ; Chao Xu ; Junjie XuSeries Type : Expression profiling by high throughput sequencingOrganism : Arabidopsis thalianaH2A.Z is a conserved histone variant that plays essential roles in various DNA-templated processes across eukaryotes. H2A.Z and histone post-translational mod […]
- GSE297712 Gene regulatory programs of NK cells show that NCAM1 (CD56) and KIRs are controlled by genetically polymorphic distal regulatory elements May 24, 2025Contributors : Mariam A Salem ; Aditi Varkey ; Matthew D Estrada ; Caprice D Eisele ; Aharon G Freud ; Bethany L Mundy-Bosse ; Patrick L CollinsSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensOwing to their immunoprotective properties, natural killer (NK) cells are critical for the innate response to patho […]
- GSE278296 Nat10 regulates the homeostasis of pluripotency and 2C state in mESCs by N4-acetylcytidine mRNA modification May 24, 2025Series Type : OtherOrganism : Mus musculusMouse embryonic stem cells (mESCs) were isolated from the inner cell mass (ICM), which can prevent an excessive number of cells from transitioning to the 2-cell state and retain only 1%–5% of cells transiently expressing 2C genes such as Zscan4 and ERVs, and 95%–99% of normally expressing pluripotent transcription fa […]