20,000 datasets

NCBI GEO2026 · Genome binding/occupancy profiling by high throughput sequencing · 8 samples

Interleukin-6 (IL-6) is a pleiotropic cytokine that drives macrophage functions ranging from tissue homeostasis to inflammation, yet how STAT3 specifies these divergent outcomes remains unclear. By integrating transcriptomic and epigenomic profiling with selective STAT3 degradation, we show that STAT3 controls IL-6-induced epigenomic remodeling and restrains a latent STAT1-associated interferon pr

NCBI GEO2026 · Genome binding/occupancy profiling by high throughput sequencing · 6 samples

People living with HIV (PLWH) on antiretroviral therapy (ART) accumulate primarily defective proviral sequences in genomes of often clonally expanded CD4+ HIV-1 target cells. The majority of viral-derived DNA is transcriptionally active and preferentially found at distinct genomic loci suggesting a selective process driven by integration site-specific crosstalk between viral and host sequences. Fo

NCBI GEO2026 · Excel spreadsheet · 14 samples

We identified 5 patients from two families with a defect in antibody production without a known inborn error of immunity.

NCBI GEO2026 · Excel spreadsheet · 35 samples

People living with HIV (PLWH) on antiretroviral therapy (ART) accumulate proviral sequences in genomes of often clonally expanded CD4+ HIV-1 target cells. Viral-derived DNA is preferentially found at distinct genomic loci suggesting a selective process driven by integration site-specific crosstalk between viral and host sequences. Focusing on one of the most prominent selected integration loci, th

NCBI GEO2026 · Genome binding/occupancy profiling by high throughput sequencing · 10 samples

We identified 5 patients from two families with a defect in antibody production without a known inborn error of immunity.

NCBI GEO2026 · RNA sequencing · 9 samples

This work explores tissue-specific biomimetic functional materials and investigates the regulatory mechanisms of materials on cells, offering a highly promising solution for the manufacturing of centimeter-sized injectable liver tissue.

NCBI GEO2026 · RNA sequencing · 18 samples

DNA methylation regulates transcription, yet the demethylation of canonical elements like promoter CpG islands exhibits inconsistent correlations with gene activation. We hypothesized that causal regulatory elements are defined by biophysical hypersensitivity. Profiling 24 whole-genome bisulfite sequencing samples across diverse human and murine models, we identified Methylation Mesa, narrow (~45-

NCBI GEO2026 · RNA sequencing · 6 samples

Spermatogonial stem cells (SSCs) are required for initiating and maintaining normal spermatogenesis, and notably, they have significant applications in both reproductive and regenerative medicine owing to their great plasticity with de-differentiation and trans-differentiation potentials. Nevertheless, molecular mechanisms regulating human SSC fate determinations and male fertility remain elusive.

NCBI GEO2026 · Genome binding/occupancy profiling by high throughput sequencing · 4 samples

Interleukin-6 (IL-6) is a pleiotropic cytokine that drives macrophage functions ranging from tissue homeostasis to inflammation, yet how STAT3 specifies these divergent outcomes remains unclear. By integrating transcriptomic and epigenomic profiling with selective STAT3 degradation, we show that STAT3 controls IL-6-induced epigenomic remodeling and restrains a latent STAT1-associated interferon pr

NCBI GEO2026 · RNA sequencing · 204 samples

RNA sequencing was performed on human stem cell-derived neuronal cultures across developmental and experimental conditions, including differentiated neurons exposed for 24 h to the mitochondrial complex I inhibitor rotenone at 0.06, 0.25, 0.5 or 1 µM. The transcriptomic data were generated to support characterisation of human dopaminergic neuronal metabolism and integration with quantitative exome

NCBI GEO2026 · RNA sequencing · 14 samples

Impaired alveolar regeneration underlies numerous chronic lung diseases, yet the metabolic determinants governing this process remain poorly understood. Effective alveolar repair depends on the differentiation of type 2 alveolar epithelial cells (AT2), the resident lung stem/progenitor cells, into type 1 alveolar epithelial cells (AT1) to restore gas exchange surfaces. Here, we reveal that glutami

NCBI GEO2026 · RNA sequencing

We compared gene expression of aged and young oligodendrocyte progenitor cells (OPC) and identified differentially expressed genes.

NCBI GEO2026 · Genome binding/occupancy profiling by high throughput sequencing · 12 samples

Memory follicular helper T cells (TFH) are essential for rapidly re-eliciting sufficient effector TFH cells in facilitating B cells to produce high-affinity neutralizing antibody against re-infection. However, the mechanism underlying memory TFH cell differentiation is largely unknown. Here, we show that a subset of antigen-specific CD4 effector cells highly expressing transcription factor Hhex (H

NCBI GEO2026 · RNA sequencing · 2 samples

As direct experimentation on the healthy human brain is ethically limited, developing brain models is essential. Currently, research groups employ complex in vitro brain organoid models, three-dimensional (3D) structures that mimic aspects of the human brain architecture. These organoids self-organize into small clusters that resemble key features of the developing brain, including functional neur

NCBI GEO2026 · RNA sequencing · 12 samples

Introduction: Macrophages are essential components of the innate immunity, serving as a frontline defense against pathogens and contributing to tissue homeostasis. The generation of human induced pluripotent stem cell (iPSC)-derived macrophages (iMacs) provides a valuable platform for studying human innate immunity and macrophage biology. This study presents a robust, reproducible, and efficient p

NCBI GEO2026 · Genome binding/occupancy profiling by high throughput sequencing · 18 samples

Precise and rapid control over cellular protein levels is essential to dissect complex biological systems. Chemical genetic approaches such as dTAG, in which a target is fused to a degron tag (FKBP12F36V) and degraded upon small molecule-mediated recruitment of E3 ligases, have enabled rapid and tunable control over protein abundance. However, no analogous tool exists to precisely increase protein

NCBI GEO2026 · RNA sequencing · 12 samples

In young animals, oligodendrocyte progenitor cells (OPCs) undergo robust differentiation, progressing through stages to become pre-myelinating oligodendrocytes (Pre-OL) and ultimately myelinating oligodendrocytes (OLs). However, OPCs in aged animals are limited in their differentiation ability. This disrupts myelin maintenance in the central nervous system (CNS), leading to a lack of remyelination

NCBI GEO2026 · Genome binding/occupancy profiling by high throughput sequencing · 7 samples

People living with HIV (PLWH) on antiretroviral therapy (ART) accumulate primarily defective proviral sequences in genomes of often clonally expanded CD4+ HIV-1 target cells. The majority of viral-derived DNA is transcriptionally active and preferentially found at distinct genomic loci suggesting a selective process driven by integration site-specific crosstalk between viral and host sequences. Fo

NCBI GEO2026 · Table · CSV · 2 samples

Immunomodulatory drugs (IMiDs) are a cornerstone of multiple myeloma treatment and newer cereblon E3 ligase modulating drugs (CELMoDs) are in clinical trials. However, a major barrier to improving patient outcomes is the inevitable development of resistance to these agents. To explore the mechanisms underlying IMiD/CELMoD resistance, and identify novel targets for treatment, human cell line models

NCBI GEO2026 · RNA sequencing · 14 samples

Apolipoprotein E4 (APOE4), the strongest genetic risk factor for late-onset Alzheimer's disease, promotes neuronal dysfunction through incompletely understood mechanisms. Here, we integrated transcriptomic, translatomic, and proteomic profiling of isogenic human iPSC-derived APOE3 and APOE4 neurons and found that APOE4 fundamentally impairs neuronal proteome renewal. Although transcriptional chang

NCBI GEO2026 · Methylation profiling by genome tiling array · 40 samples

This project aims to identify CNVs of intracranial and extracranial germ cell tumors in the Thai population. Formalin-fixed paraffin-embedded tissues (FFPET) from intracranial (IGCTs) and extracranial germ cell tumors (EGCTs) were extracted and analyzed using SNP microarray, and somatic CNVs were also investigated. Pathway enrichment analysis and associations between significant CNVs, clinical par

NCBI GEO2026 · Raster · GeoTIFF · 3 samples

The dorsal horn is remarkably diverse, yet how this cellular complexity enables discrimination of sensory modalities remains a fundamental question. Neurons expressing gastrin-releasing peptide receptor (Grpr+) have long been considered dedicated to itch, yet broad activation also evokes pain-related behavior. Whether Grpr+ neurons are required for pain, and how itch- and pain-related functions ar

NCBI GEO2026 · RNA sequencing · 60 samples

This SuperSeries comprises transcriptomic and epigenomic datasets generated in human macrophages to investigate IL-6-STAT3 signaling. The datasets include RNA-seq under STAT3 degradation and JAK inhibition, IL-6 time-course RNA-seq, hMDM RNA-seq, ATAC-seq, and CUT&Tag profiling of H3K27ac, STAT3, and STAT1. Together, these data characterize IL-6-induced chromatin and transcriptional changes and th

NCBI GEO2026 · RNA sequencing · 50 samples

This SuperSeries is composed of the SubSeries listed below.

NCBI GEO2026 · RNA sequencing · 46 samples

Shortly after mitosis, a wave of hyper-transcription reactivates the genome, especially in mouse embryonic stem (ES) cells, where rapid reactivation is essential for self-renewal and pluripotency. While recent work has illuminated how specific groups of genes are reactivated, whether dedicated mechanisms enable the global, efficient and accurate post-mitotic reactivation of the genome remains unkn