详细内容（前10条）

1. ⭐ GSE332957 抗体调理的细胞外陷阱可重编程巨噬细胞反应并抑制其T细胞导向的促炎活性

• ✍️ 作者：未知作者
• 🏷️ 关键词：T cell、macrophage、antibody
• 📝 描述：Contributors : Annemarie Kip ; Eline Zwiers ; Kelsy Waaijenberg ; Wynand Alkema ; Eric Meldrum ; Maarten van der LindenSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensMacrophages and neutrophils coordinate inflammatory and reparative immunity, and dysregulated interactions between these cells contribute to the pathogenesis of immune-mediated inflammatory diseases. While extracellular traps (ETs), formed by neutrophils and other leukocytes, are enriched in citrullinated histones and exert significant pro-inflammatory effects, it remains unclear how distinct macrophage subsets interpret and resolve ET-derived signals. Here we show that macrophage subsets consistent with pro-inflammatory or inflammation-resolving characteristics, differentially engage with ETs and that antibody binding to ETs reshapes these interactions. Transcriptomic profiling shows that ETs induce a broad profile of pro-inflammatory responses in both macrophage subtypes. While inflammation-resolving macrophages readily phagocytose ETs, pro-inflammatory macrophages exhibit limited uptake. Fc domain-dependent ET phagocytosis by both macrophage subsets is significantly enhanced when ETs are opsonized with an anti-citrullinated histone H2A and H4 monoclonal antibody. Opsonized ETs upregulate expression of genes encoding negative regulators of Mitogen-Activated Protein Kinase (MAPK) signaling and reduce expression of genes encoding pro-inflammatory cytokines and chemokines. Exposure to antibody-opsonized ETs following macrophage activation with LPS and IFN-γ suppresses the T cell-directed features of pro-inflammatory macrophages with reduced surface expression of CD80 and CD86 and decreased secretion of IL-12 and CXCL9. In inflammation-resolving macrophages antibody-opsonized ETs attenuate MAPK-dependent Toll-like receptor responses and inhibit CXCL9 and CXCL10 production while enhancing IL-10 secretion. Together, these findings describe the pro-inflammatory impact of ET exposure on macrophages and delineate a previously unrecognized regulatory axis by which antibodies targeting ET components reprogram macrophage responses across distinct subsets to suppress their T cell-directed pro-inflammatory activity, highlighting a promising therapeutic strategy for ameliorating ET-driven inflammation.
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2. ⭐ GSE330846 p38α 通过肿瘤适应性和免疫微环境调节来调控 BRAFV600E 突变型黑色素瘤的进展和免疫治疗反应

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、immune、regex:immuno(logy|therapy|suppression)
• 📝 描述：Contributors : Paula Granado-Martínez ; Kimberley McGrail ; Roberto Orsenigo ; Ginevra Caratù ; Paula Nieto ; Ivan Ortega ; Yuxin DIng ; Angel Nebreda ; Juan MartínCaballero ; Ivan Ortega ; Herna Eixarch ; Carmen Espejo ; Javier Hernandez-Losa ; Berta Ferrer ; Holger Heyn ; Eva Muñoz-Couselo ; Vicenç Garcia-Patos ; Juan A RecioSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusUnderstanding how tumor cells shape the tumor microenvironment (TME) and evade the host immune response is critical for developing novel therapeutic combinations. In this study, we identify tumor cell p38α as a therapeutic target that restricts antitumor immunity and contributes to resistance against immune-checkpoint inhibitors (ICIs). Genetic analyses of mouse and human melanomas reveal alterations in the MAPK-stress pathway, including upregulation of MAPK14. We demonstrate a dual role for p38α in UVB-induced BrafV600E melanoma, acting as a tumor suppressor during melanocyte transformation but promoting melanoma growth and progression. Mechanistically, p38α impairs cytotoxic immune responses, modulates immunosuppressive myeloid cells, and regulates inflammatory mediators that shape the TME. Notably, loss or inhibition of p38α enhances and restores responsiveness to PD-1 blockade, leading to complete tumor regressions and increased overall survival, while a p38α-associated gene signature correlates with favorable immunotherapy outcomes in melanoma patients, underscoring its translational relevance.
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3. ⭐ GSE305898 通过整合单细胞分析揭示内皮细胞衰老的转录特征 [RNA-Seq 2]

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、RNA-seq、single-cell
• 📝 描述：Series Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensEndothelial cells (ECs) are critical regulators of vascular function and exhibit specialized, organ-specific roles across tissues. During aging, these cells become dysfunctional, resulting in increased susceptibility to cardiovascular disease and its associated mortality. While single-cell transcriptomics studies have revealed extensive endothelial heterogeneity across tissues and conditions, a comprehensive atlas of human EC transcriptomes over the course of the adult human lifespan is still lacking. Here, we present the Human Aging Endothelial Cell Atlas (HAECA), a harmonized single-cell transcriptomic compendium of over 375,000 ECs from 12 human tissues throughout adulthood. Using HAECA, we identified age-associated transcriptional shifts, including a decline in angiogenic gene expression in venous ECs and widespread alterations in extracellular matrix (ECM)- and mechanotransduction-associated pathways. We validated these findings in aging human skin and further uncovered a p21-linked transcriptional program in ECs, confirmed in both in vitro and in vivo models and linked to cellular senescence. Together, our study provides a high-resolution transcriptome reference across spatial as well as temporal axes of the human endothelium.
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4. ⭐ GSE305897 通过整合单细胞分析 [RNA-Seq] 揭示内皮细胞衰老的转录特征

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、RNA-seq、single-cell
• 📝 描述：Series Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensEndothelial cells (ECs) are critical regulators of vascular function and exhibit specialized, organ-specific roles across tissues. During aging, these cells become dysfunctional, resulting in increased susceptibility to cardiovascular disease and its associated mortality. While single-cell transcriptomics studies have revealed extensive endothelial heterogeneity across tissues and conditions, a comprehensive atlas of human EC transcriptomes over the course of the adult human lifespan is still lacking. Here, we present the Human Aging Endothelial Cell Atlas (HAECA), a harmonized single-cell transcriptomic compendium of over 375,000 ECs from 12 human tissues throughout adulthood. Using HAECA, we identified age-associated transcriptional shifts, including a decline in angiogenic gene expression in venous ECs and widespread alterations in extracellular matrix (ECM)- and mechanotransduction-associated pathways. We validated these findings in aging human skin and further uncovered a p21-linked transcriptional program in ECs, confirmed in both in vitro and in vivo models and linked to cellular senescence. Together, our study provides a high-resolution transcriptome reference across spatial as well as temporal axes of the human endothelium.
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5. ⭐ GSE344087 MASLD中的单细胞多模态免疫分析[scRNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：immune、single-cell、scRNA
• 📝 描述：Contributors : Raju Kumar ; William AlazawiSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensMetabolic dysfunction-associated steatotic liver disease (MASLD) is the most common chronic liver disease worldwide, yet the cellular mechanisms driving disease progression remain poorly characterised. We performed single-cell CITE-seq on intra-operative liver biopsies from patients undergoing bariatric surgery or healthy control.
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6. ⭐ GSE343642 缺血性卒中小鼠模型外周血和脑免疫细胞的单细胞RNA测序

• ✍️ 作者：未知作者
• 🏷️ 关键词：immune、sequencing、single-cell
• 📝 描述：Contributors : Lu Jianan ; Zhang Jianmin ; Shi LigenSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusIschemic stroke induces profound alterations in peripheral and brain immune responses, but the cellular and transcriptional heterogeneity underlying these responses remains incompletely understood. To characterize immune-cell populations and their transcriptional states under different experimental conditions, we performed single-cell RNA sequencing of immune cells from mice. Single-cell RNA sequencing was performed on immune cells under different experimental conditions, as well as peripheral blood and brain immune cells from mice subjected to middle cerebral artery occlusion (MCAO), including mice with and without hemorrhagic transformation (HT). These datasets provide a resource for investigating immune-cell heterogeneity and transcriptional responses associated with ischemic stroke.
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7. GSE336890 空间分析揭示急性间质性肾炎的细胞微环境及炎症和损伤机制

• ✍️ 作者：未知作者
• 🏷️ 关键词：inflammation、spatial
• 📝 描述：Contributors : Megan L. Baker ; Vijayakumar R. Kakade ; Tifanny Budiman ; Marlene Weiss ; Joseph M. Cunningham ; Sagar Sadarangani ; Gabriel Lerner ; Gilbert Moeckel ; Avi Z. Rosenberg ; Chirag R. Parikh ; Yuval Kluger ; Dennis G. Moledina ; Lloyd G. CantleySeries Type : OtherOrganism : Homo sapiensSingle-cell spatial transcriptomics (10x Genomics Xenium) of human kidney biopsy tissue profiling acute interstitial nephritis (AIN), acute tubular injury (ATI), and reference kidney. The dataset maps the cellular microenvironments and signaling driving inflammation and tubular injury, including interferon-driven CXCL9-CXCR3 networks and complement (C3-C3AR1) signaling.
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8. GSE308090 ISG15 通过促进 DNA 复制和修复来增强 BRCA1 缺陷细胞的 PARP 抑制剂耐药性 [RNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：resistance、RNA-seq
• 📝 描述：Contributors : Rebecca A Dagg ; Teressa Paulsen ; Birbal Prasad ; Giuliana De Grigoriis ; Yuri Seung ; Florian J Groelly ; Simeon D DraganoV ; Flaminia Pedretti ; Andrea Herencia-Ropero ; Violeta Serra ; Adán Pinto-Fernández ; Madalena TarsounasSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThe use of poly(ADP-ribose) polymerase inhibitors (PARPi) has proven largely successful in targeting BRCA1/2-mutated tumours. However, the emergence of PARPi-resistant disease can reduce the efficacy of this treatment, posing significant challenges in the clinic. Here, we use multiple models of BRCA1-/- cells and patient-derived xenografts (PDXs) that have been treated with PARPi until they no longer responded to the drug, to characterise genomic and transcriptomic alterations specific to PARPi resistance. We find that abrogation of TP53BP1 expression occurs spontaneously during prolonged PARPi treatment, alongside TP53BP1 genomic deletions and promoter methylation. Additionally, innate immune response genes, including ISG15 and factors of the ISGylation machinery are upregulated in PARPi-resistant cells and tumours. We demonstrate that ISG15 inhibition re-sensitises PARPi-resistant cells to the drug and, conversely, that ISG15 overexpression in BRCA1-/- cells promotes PARPi resistance. Mechanistically, BRCA1-/- PARPi-resistant cells rely on ISG15 for replication fork progression and restart of stalled forks and for DNA double-strand break (DSB) repair via homologous recombination (HR). Our results indicate that complex ISG15 interactions with DNA replication/repair factors can drive PARPi resistance in BRCA1-deficient cancer cells and that targeting ISG15 has the potential to overcome PARPi resistance.
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9. GSE305900 通过整合单细胞分析揭示内皮细胞衰老的转录特征

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、single-cell
• 📝 描述：Series Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThis SuperSeries is composed of the SubSeries listed below.
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10. GSE344191 运动调节微生物代谢物并诱导胰腺癌基质重塑

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、regex:micro(b|be|bial|organism)
• 📝 描述：Contributors : Sumedha Pareek ; Thais F Bartelli ; Vidhi Chandra ; Florencia McAllister ; Keri SchadlerSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusExercise induces a variety of changes in the tumor microenvironment with beneficial effects in several tumor types. However, a better understanding of the clinical effects of exercise and mediating mechanisms is needed to maximize the utility of exercise for patients. In this study, we analyzed tumors from pancreatic ductal adenocarcinoma (PDAC) patients in the PancFit trial and identified an exercise-induced reduction in cells expressing alpha smooth muscle actin (αSMA). Interrogation of changes in tumor stromal composition with exercise in a murine PDAC model revealed a microbially-influenced reduction in αSMA+ cells and Il6 expressing inflammatory cancer associated fibroblasts (iCAFs). Cholic acid, a microbial bile acid, was increased in both patients and murine models with exercise, as a potential mediator of exercise-induced reduction in iCAFs. Consistent with these findings, patients that exercised more also exhibited fewer iCAFs and lower tumor IL6 expression, supporting a stromal remodeling effect of physical activity. In summary, this study demonstrates that the anti-tumor effect of exercise includes stromal remodeling, which is impacted by microbial metabolites.
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1. Tidesurf 改进了现代单细胞 RNA 测序的 RNA 速度分析。

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing、single-cell
• 📝 描述：Tidesurf improves RNA sequencing analysis by accurately quantifying spliced and unspliced transcripts across 3’ and 5’ protocols for more reliable RNA velocity estimates…
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2. 贝勒大学遗传学网络研讨会将探讨RNA测序如何帮助弥合罕见病诊断差距

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing
• 📝 描述：Baylor Genetics webinar explores how RNA sequencing can complement genome sequencing to clarify uncertain variants and help address diagnostic gaps in rare genetic…
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• GSE344174 多组学分析揭示膳食脂肪酸-微生物-宿主相互作用中影响心血管代谢疾病的元生物体脂质代谢串扰
• GSE313614 SUMO2 缺失改变染色质可及性并增强细胞毒性 T 细胞活化和肿瘤浸润 [mouse_snRNAseq]
• GSE313363 SUMO2 缺失改变染色质可及性并增强细胞毒性 T 细胞活化和肿瘤浸润 [mouse_RNAseq]
• GSE313362 SUMO2 缺失改变染色质可及性并增强细胞毒性 T 细胞活化和肿瘤浸润
• GSE313361 SUMO2 缺失改变染色质可及性并增强细胞毒性 T 细胞活化和肿瘤浸润 [human_RNAseq]
• GSE313360 SUMO2 缺失改变染色质可及性并增强细胞毒性 T 细胞活化和肿瘤浸润 [human_ATACseq]
• GSE343866 膀胱癌免疫激活和候选预后标志物发现：重组耻垢分枝杆菌的临床前小鼠研究
• GSE305455 p16INK4a 的转录停滞会损害阿尔茨海默病患者的线粒体生物能量学和认知功能 [ChIP-seq]
• GSE305454 p16INK4a 的转录停滞损害阿尔茨海默病患者的线粒体生物能量学和认知功能 [RNA-seq]
• GSE256406：小肠上皮细胞系（FHs 74-Int）作为坏死性小肠结肠炎炎症模型的全转录组表征
• GSE322793 表皮免疫区室的出生后动态变化和成熟受微环境内在信号的协调，而非微生物定植。
• GSE344124 Omega-seq：超低背景RNA测序，具有可靠的分子计数和精确的转录本末端捕获能力
• GSE343327 热应激对杂交牛（Bos taurus X Bos indicus）全基因组表达模式的影响
• GSE308092 ISG15 通过促进 DNA 复制和修复来增强 BRCA1 缺陷细胞的 PARP 抑制剂耐药性 [甲基化测序]
• GSE344188 GLS1和MPC2在生发中心B细胞染色质可及性中的作用
• GSE344164 RNA测序数据：早期和晚期促红细胞生成素对贫血性氧诱导视网膜病变大鼠模型的影响
• GSE343510 巨噬细胞 TREM2 是一种富含甘油三酯的脂蛋白受体，在糖尿病前期肝脂肪变性中发生脱落 [P524-2]
• GSE343509 巨噬细胞 TREM2 是一种富含甘油三酯的脂蛋白受体，在糖尿病前期肝脂肪变性中发生脱落 [P630-6]
• GSE343846 HIF-1信号通路导致患者来源的HCC类器官产生乐伐替尼耐药性
• GSE343620 缺血性卒中小鼠模型中性粒细胞和CD8调节性T细胞的批量RNA测序
• GSE211646 肝癌祖细胞的表型可塑性及其向肝细胞样细胞的分化