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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.
- GSE274280 The Regulatory Logic of Planarian Stem Cell Differentiation [ATAC-Seq] June 15, 2025Contributors : Alberto A Perez-Posada ; Helen H Garcia-Castro ; Elena E Emili ; Virginia V Vanni ; Cirenia C Arias-Baldrich ; Siebren S Frolich ; Simon S Van Heeringen ; Nathan N Kenny ; Jordi J SolanaSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Schmidtea mediterraneaStem cell differentiation underlies development […]
- GSE273788 Assay for transposase-accessible chromatin-sequencing (ATAC-seq) of liver samples from Ythdc1flox/flox and Ythdc1-HKO mice, respectively. June 15, 2025Contributors : Zheng Chen ; Xinzhi Li ; Xueying Li ; Chunhong LiuSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusThe goal of this study is to determine whether hepatic deletion of Ythdc1 affects chromatin accessibility.
- GSE283972 Evaluation of phage-based treatments for combating Staphylococcus aureus biofilms on dairy surfaces June 15, 2025Contributors : Seila Agún ; Lucía Fernández ; Ana Rodríguez ; Pilar GarcíaSeries Type : Expression profiling by high throughput sequencingOrganism : Staphylococcus aureusThe ability of Staphylococcus aureus to establish strong biofilms in milk poses a significant threat to the consumer’s health and a challenge for the dairy industry. Here, we have evaluated […]
- GSE274282 The Regulatory Logic of Planarian Stem Cell Differentiation [scRNAseq] June 15, 2025Contributors : Alberto A Perez-Posada ; Helen H Garcia-Castro ; Elena E Emili ; Virginia V Vanni ; Cirenia C Arias-Baldrich ; Siebren S Frolich ; Simon S Van Heeringen ; Nathan N Kenny ; Jordi J SolanaSeries Type : Expression profiling by high throughput sequencingOrganism : Schmidtea mediterraneaStem cell differentiation underlies development and regenerati […]
- GSE297973 Identification of conserved miRNAs in Petunia axillaris and P. inflata young flower buds and their verification in the Petunia genome sequence June 15, 2025Contributors : Kitty Vijverberg ; Nunzio D Agostino ; Tom GeratsSeries Type : Non-coding RNA profiling by high throughput sequencingOrganism : Petunia axillaris ; Petunia integrifolia subsp. inflataMicroRNAs (miRNAs) are short, endogenous RNAs that play key roles in the regulation of numerous biological processes, including development and metabolic pathways […]
- GSE296015 Cannabinoids shift the basal ganglia microRNA m6A methylation profile towards an anti-inflammatory phenotype in SIV-infected rhesus macaques June 15, 2025Contributor : Mahesh MohanSeries Type : OtherOrganism : Homo sapiens ; Macaca mulattaEpitranscriptomic modifications [N6-methyladenosine (m6A)] regulate various diseases, including cancer and inflammation. Despite their functional relevance in neural development and differentiation, the role of m6A modifications in HIV neuropathogenesis is unknown. Using ant […]
- GSE299556 [RNA-seq]: Inhaled PRR Agonists Reprogram Lung Epithelial Cells to Prevent Type 2 Allergic Inflammation June 15, 2025Contributors : Mbaya Ntita ; Scott E EvansSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusThe increasing prevalence of chronic allergic lung diseases demands development of new preventative strategies. We previously demonstrated that therapeutic inhalation of the synergistic agents ODN M362, a TLR9 ligand, and Pam2CSK4, […]
- GSE178442 Genome-wide maps of transcription in DEAF1 overexpression(OE) and wildtype(WT) cells in Multiple Myeloma June 15, 2025Contributor : Zhendong DengSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensWe found different genes change between WT and OE cells.
- GSE299599 Lactylation-driven NSUN2-mediated RNA m5C modification promotes perineural invasion in pancreatic cancer [RIP-seq] June 15, 2025Contributors : Shangyou Zheng ; Rufu Chen ; Xuebiao Wei ; Tianhao Huang ; Chonghui Hu ; Huimou ChenSeries Type : Expression profiling by high throughput sequencing ; OtherOrganism : Homo sapiensLactylation, a metabolic stress-induced modification, plays a pivotal role in regulating diverse biological processes. Its involvement in perineural invasion (PNI) of […]
- GSE299558 [scATAC-seq]: Inhaled PRR Agonists Reprogram Lung Epithelial Cells to Prevent Type 2 Allergic Inflammation June 15, 2025Contributors : Mbaya Ntita ; Dalia Hassan ; Scott E EvansSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusThe increasing prevalence of chronic allergic lung diseases demands development of new preventative strategies. We previously demonstrated that therapeutic inhalation of the synergistic agents ODN M362, […]
- GSE299600 Lactylation-driven NSUN2-mediated RNA m5C modification promotes perineural invasion in pancreatic cancer [mRNA-seq] June 15, 2025Contributors : Shangyou Zheng ; Rufu Chen ; Xuebiao Wei ; Tianhao Huang ; Chonghui Hu ; Huimou Chen ; Honghui JiangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensLactylation, a metabolic stress-induced modification, plays a pivotal role in regulating diverse biological processes. Its involvement in perineural invasion […]
- GSE299665 ACOD1 regulates microglial arginine metabolism and inflammatory responses June 15, 2025Contributors : V I Alexaki ; A SinhaSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusItaconate is produced by inflammatory macrophages and negatively feedbacks on inflammation. It is synthesized by aconitate decarboxylase 1 (ACOD1) from cis-aconitate, a metabolite of the tricarboxylic acid cycle. Here, we studied the rol […]
- GSE299678 [Bulk RNA-seq]: Characterization of transcriptional and chromatin accessibility landscape of human bronchial epithelial cells treated with synergistic immunostimulatory ligands. June 15, 2025Contributors : Jezreel Pantaleón García ; Scott E EvansSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensLower respiratory tract infections remain a leading cause of death worldwide. The increasing prevalence of antibiotic-resistant respiratory pathogens has been a key driver of efforts to develop host-directed therapies […]
- GSE248412 PIK3CA and KRAS codon-specific mutations differentially toggle pathway activity and alter sensitivity to inavolisib (GDC-0077) June 15, 2025Contributors : Russell Xie ; Marc Hafner ; Michal KabzaSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo explore the single and combinatorial effect of MEK and PI3KCA inhibitors in CRC lines with PIK3CA/KRAS mutations, we used the MULTI-seq CMOs to perform a highly multiplexed single-cell RNA-seq.
- GSE299552 [cJun ChIP-seq]: Characterization of transcriptional and chromatin accessibility landscape of human bronchial epithelial cells treated with synergistic immunostimulatory ligands. June 15, 2025Contributors : Jezreel Pantaleón García ; Scott E EvansSeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensLower respiratory tract infections remain a leading cause of death worldwide. The increasing prevalence of antibiotic-resistant respiratory pathogens h […]