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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.
- GSE313501 Gel-free library preparation for next-generation RNA sequencing and small RNA quantification December 15, 2025Contributors : Ruixi Chen ; Daniel Yim ; Lili Liu ; Bo Cao ; Peter C DedonSeries Type : Non-coding RNA profiling by high throughput sequencingOrganism : Escherichia coliNext-generation RNA sequencing (RNA-seq) is hampered by “primer dimer” (PD) artifacts and its quantitative performance reduced by polymerase fall-off (PF) at RNA modifications and secondary s […]
- GSE291751 Profling of breast cancer cells using single-cell triomics analysis of DNA, RNA, and proteins with Tapestri chemistry December 15, 2025Contributors : Emma Jonasson ; Stefan Filges ; Anna Gustafsson ; Anders StåhlbergSeries Type : Expression profiling by high throughput sequencing ; OtherOrganism : Homo sapiensCancer displays large heterogeneity both between and within tumors where intratumor heterogeneity can occur at genetical, transcriptional and translational level. The variability resul […]
- GSE255766 MCF-7 ESR1 drug response scRNA December 15, 2025Contributors : Diana Wu ; Jenille Tan ; Russell Xie ; Marc HafnerSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTo investigate the effect of single and combination treatments in breast cancer, we performed transcriptome profiling using scRNAseq
- GSE217601 Comparison by microarray analysis between control and Nutlin 3b treatment in human senescent cells December 15, 2025Contributors : Hiroshi Kondoh ; Takumi MikawaSeries Type : Expression profiling by arrayOrganism : Homo sapiensWe found that an aberrant interaction between glycolytic PGAM1 and Chk1 kinase is augmented in senescent cells. Chemical abrogation of PGAM1-Chk1 binding by Nutlin 3b blocks its interaction, followed by elimination of senescent cells, senolysis. To […]
- GSE288110 TBP regulates transposable element expression in early mouse embryos [RNA-seq] December 15, 2025Contributors : Clara Hermant ; Maria-Elena Torres-PadillaSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusActivation of the embryonic genome is a crucial step in development. In addition to thousands of genes, many transposable elements (TEs) are robustly transcribed during early mammalian development. However, their tra […]
- GSE267256 Bulk RNA-seq analysis reveals the crucial role of Collagen triplex helix repeat containing-1 (Cthrc1) cardiac fibroblasts for ventricular remodeling after myocardial infarction December 15, 2025Contributors : Silvia C Hernandez ; Juan P Romero ; Marina Ainciburu ; Nuria Planell ; Amaia Vilas-Zornoza ; Patxi San Martin-Uriz ; Elena Iglesias ; Gloria Abizanda ; Diego Alignani ; David Gomez-Cabrero ; Adrian Ruiz-Villalba ; Felipe ProsperSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusCardiac fibroblasts have a ce […]
- GSE313134 Transcriptomic and Metabolic Insight into Flavonoid Biosynthesis Underlying Seed Coat Color Variation in Soybean (Glycine max) December 15, 2025Contributors : Kahee Moon ; Prakash Basnet ; Seung Young ; Beom-Soon Choi ; Grace Lachica ; Namil Park ; Taeyoung Um ; Ik-Young ChoiSeries Type : Expression profiling by high throughput sequencingOrganism : Glycine maxSeed coat color in soybean (Glycine max) is determined by the accumulation of flavonoid-derived pigments. However, to date the molecular mecha […]
- GSE290618 Opposing functions of distinct regulatory T cell subsets in colorectal cancer December 15, 2025Contributors : Xiao Huang ; Dan Feng ; Sneha Mitra ; Emma S Andretta ; Nima B Hooshdaran ; Aazam P Ghelani ; Eric Y Wang ; Joe N Frost ; Victoria Lawless ; Aparna Vancheswaran ; Qingwen Jiang ; Christina S Leslie ; Alexander Y RudenskySeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequ […]
- GSE313277 Beyond canonical pathways: early retinal transcriptomic response to light-induced degeneration in the zebrafish larva December 15, 2025Contributors : Ignacio Babiloni-Chust ; Luigi Donato ; S. Sartori ; Darin Zerti ; Matthias Carl ; Rosalia D’Angelo ; Rita Maccarone ; Lucia PoggiSeries Type : Expression profiling by high throughput sequencingOrganism : Danio rerioThe zebrafish (Danio rerio) is widely used to investigate the cellular and molecular mechanisms that support retinal regeneration […]
- GSE313189 TGM2-deficient macrophages exhibited a significant upregulation of pro-inflammatory signatures. December 15, 2025Contributors : Yang Zhao ; Zhaoqi Zhang ; Yong ZhaoSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusMacrophages are essential for tissue homeostasis, orchestrating the initiation and resolution of both innate and adaptive immunity with profound impacts on protective immunity and immune-mediated pathological damage. Macro […]
- GSE313358 Compartmentalized RNA Surveillance Through Membraneless barriers December 15, 2025Contributors : Gangming Zhang ; Craig MelloSeries Type : Non-coding RNA profiling by high throughput sequencingOrganism : Caenorhabditis elegansBiomolecular condensates are thought to compartmentalize biochemical activities, yet how they control macromolecular access without membranes remains unclear. We show that C. elegans germline condensates have distinc […]
- GSE313462 Characteristics of senescent cells resistant to ABT263 and ARV825 December 15, 2025Contributors : Masahiro Wakita ; Koyu Ito ; Hideka Miyagawa ; Kaho Fuji ; Dai Sakamoto ; Takumi Mikawa ; Sho Sugawara ; Xiangyu Zhou ; Jeong H Park ; Emi Ogasawara ; Akiko Takahashi ; Hiroshi Kondoh ; Naotada Ishihara ; Eiji HaraSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensABT263 and ARV825 were identified as promisi […]
- GSE313494 Heterogeneity of senescent cells underlies resistance to ABT263 and ARV825 December 15, 2025Contributors : Masahiro Wakita ; Koyu Ito ; Hideka Miyagawa ; Kaho Fuji ; Dai Sakamoto ; Takumi Mikawa ; Sho Sugawara ; Xiangyu Zhou ; Jeong H Park ; Emi Ogasawara ; Akiko Takahashi ; Hiroshi Kondoh ; Naotada Ishihara ; Eiji HaraSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensABT263 and ARV825 emerged as promising senol […]
- GSE291386 Chromatin accessibility profiling of HSPC-derived erythroblast differentiation [ATAC-seq] December 15, 2025Contributors : Luis F Montano-Gutierrez ; Sophie Müller ; Ana P Kutschat ; Igor Adameyko ; Davide Seruggia ; Florian HalbritterSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensA prime goal of regenerative medicine is to replace dysfunctional cells in the body. To design protocols for producing target cells […]
- GSE312784 Analysis of previously reported BRD4 target genes related to mitochondrial function in senescent fibroblasts. December 15, 2025Contributors : Masahiro Wakita ; Koyu Ito ; Hideka Miyagawa ; Kaho Fuji ; Dai Sakamoto ; Takumi Mikawa ; Sho Sugawara ; Xiangyu Zhou ; Jeong H Park ; Emi Ogasawara ; Akiko Takahashi ; Hiroshi Kondoh ; Naotada Ishihara ; Eiji HaraSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensBecause BRD4, a major target of ARV825, has […]