详细内容（前10条）

1. ⭐ GSE325587 空间转录组学鉴定出 IL-32 是一种与脂滴相关的细胞因子，与人类糖尿病肾病中的肾小管损伤有关

• ✍️ 作者：未知作者
• 🏷️ 关键词：cytokine、spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Contributors : Kieran Meadows ; Hyunjae Chung ; Son Vo ; Aysa Imanzadeh ; Heewon Seo ; Sisay G Belay ; Asha Swamy ; Wulin Teo ; Kevin Chapman ; Graciela Andonegui ; Hallgrimur Benediktsson ; Peter K Stys ; Thang Pham ; Daniel A Muruve ; Justin ChunSeries Type : OtherOrganism : Homo sapiensDiabetic kidney disease (DKD) is a severe complication of diabetes mellitus and the leading cause of chronic kidney disease worldwide. Among the many drivers of tubular injury, lipid accumulation and inflammation are emerging as major contributors to kidney disease progression, but the molecular link between lipid metabolism and inflammatory signaling remains to be determined. Kidney biopsies from patients with DKD across pathologic classes were labelled for lipid droplets and analyzed by Nile Red spectroscopy. Digital spatial profiling and single-cell spatial transcriptomics were performed on samples from 14 patients representing different DKD classes. RNA scope and immunofluorescence microscopy were used for data validation and characterization. Lipid droplets (LD) were increasingly abundant in advanced stages of DKD, primarily accumulating in the proximal tubules. Single-cell spatial transcriptomics identified several genes—DUSP5, AZU1, COL9A1, HSPB1, and IGFBP7—as highly upregulated in DKD. Remarkably, IL32, which encodes a LD-associated cytokine, was highly enriched in injured proximal tubules. Immunofluorescence confirmed IL-32 localization to LDs predominantly within KIM1 positive tubules in moderate to advanced DKD. Furthermore, injured IL-32 expressing tubules were in close proximity to infiltrating neutrophils and macrophages, immune effectors of non-resolving inflammation and kidney disease progression. IL-32 is a LD-associated cytokine upregulated during tubular injury that represents a potential link between lipid dysregulation, inflammation and progression in human DKD.
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2. ⭐ GSE316983 非洲绿松石鳉鱼心脏衰老的单细胞RNA测序数据集

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、cardiac、sequencing、single-cell
• 📝 描述：Contributors : Baul Yoon ; Yifeng Xu ; Ping Zhu ; Yuji Zhang ; Xiaolei XuSeries Type : Expression profiling by high throughput sequencingOrganism : Nothobranchius furzeriAging is a major contributor to functional decline of the heart and various cardiovascular diseases. Alterations across different cardiac cell types must be tightly orchestrated during normative aging process that has begun to be mapped at the transcriptional level through single-cell RNA-sequencing. However, current rodent models are limited in their capacity to experimentally test large numbers of candidate differentially expressed genes (DEGs). As an attractive alternative, the African Turquoise Killifish (ATK) promises more efficient genetic studies of cardiac aging because it has the shortest lifespan among vertebrates. Despite its experimental advantages, single-cell transcriptomic studies on cardiac aging in ATK have not yet been conducted. Here, we generated the first scRNA-seq profiles of hearts from young and old GRZ strain ATK and demonstrated changes in cellular composition, gene expression, functional pathways, and intercellular communication during cardiac aging.
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3. ⭐ GSE288607 慢性结节病患者肺肉芽肿细胞微环境的空间转录组学研究

• ✍️ 作者：未知作者
• 🏷️ 关键词：spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Contributors : Jonas C Schupp ; Neubert Lavinia ; Christian Leonard ; Yilmaz HandeSeries Type : OtherOrganism : Homo sapiensSpatial Transcriptomics using the 10x Genomics Visium technology was performed in lung tissues from 9 patients with chronic sarcoidosis
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4. ⭐ GSE325554 加速脑微血管衰老导致紫杉醇（Taxol）诱导的化疗脑小鼠模型认知能力下降[空间转录组学]

• ✍️ 作者：未知作者
• 🏷️ 关键词：spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Contributors : Anna Csiszar ; Zoltan Ungvari ; Roland Patai ; Tripti Gautam ; Tamas KissSeries Type : OtherOrganism : Mus musculusChemotherapy-induced cognitive impairment (“chemobrain”) is a frequent side-effect in cancer survivors treated with paclitaxel (PTX). The mechanisms responsible for PTX-induced cognitive impairment remain obscure, and there are no effective treatments or prevention strategies. Here, we test the hypothesis that PTX induces endothelial senescence, which impairs microvascular function and contributes to the genesis of cognitive decline. We treated transgenic p16-3MR mice, which allows the detection and selective elimination of senescent cells, with PTX (5 mg/kg/day, 2 cycles; 5 days/cycle). PTX-treated and control mice were tested for spatial memory performance, neurovascular coupling (NVC) responses (whisker-stimulation-induced increases in cerebral blood flow), microvascular density, blood-brain barrier (BBB) permeability and the presence of senescent endothelial cells (by flow cytometry and single-cell transcriptomics) at 6 months post-treatment. PTX induced senescence in endothelial cells, which associated with microvascular rarefaction, NVC dysfunction, BBB disruption, neuroinflammation, and impaired performance on cognitive tasks. To establish a causal relationship between PTX-induced senescence and impaired microvascular functions, senescent cells were depleted from PTX-treated animals (at 3 months post-treatment) by genetic (ganciclovir) or pharmacological (treatment with the senolytic drug ABT263/Navitoclax) means. In PTX treated mice, both treatments effectively eliminated senescent endothelial cells, rescued endothelium-mediated NVC responses and BBB integrity, increased capillarization and improved cognitive performance. Our findings suggest that senolytic treatments can be a promising strategy for preventing chemotherapy-induced cognitive impairment.
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5. ⭐ GSE325472 人类胆囊癌细胞GBC-SD中Cyp4f3b基因干扰的转录组测序分析

• ✍️ 作者：未知作者
• 🏷️ 关键词：carcinoma、sequencing、transcriptome
• 📝 描述：Series Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThis study aimed to investigate the molecular mechanism underlying the effects of Cyp4f3b gene interference on the biological behaviors of human gallbladder carcinoma cells gbc-sd. Three replicate cell samples from each group (sh-NC control group and sh-Cyp4f3b interference group) were subjected to total RNA extraction and quality control, sequencing library construction and evaluation, RNA-seq sequencing and filtering, reference sequence alignment, gene expression level analysis, and differential expression analysis. Differentially expressed genes and significantly enriched signaling pathways were systematically identified to provide molecular evidence for clarifying the role of Cyp4f3b in gallbladder carcinogenesis and progression.
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6. ⭐ GSE292858 RNA-Seq 分析结直肠癌患者的肿瘤和匹配的正常样本。

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、cancer、RNA-seq
• 📝 描述：Contributors : Gloryn L Chia ; Oleg V Grinchuk ; Malini Rethnam ; Yi Ren ; Sharmistha KunduSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTumour cells often downregulate human leukocyte antigen (HLA) class I to evade cytotoxic T lymphocyte (CTL) immunity. Although natural killer (NK) cells target MHC-I-deficient cells, many cancers bypass NK cell-mediated killing through additional immune evasion strategies. Using CRISPR-Cas9 screening, GPC2, a cell surface protein, was identified as a key suppressor of NK cell activity against HLAnull cancer cells. GPC2 is upregulated in several cancers, correlating with poor patient outcomes. In colorectal cancer, GPC2 was found to be inversely correlated with HLA class 1 expression.
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7. ⭐ GSE262633 组蛋白变体 H2A.J 是人类滋养层发育中的关键表观遗传调控因子 [scRNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：scRNA、epigenetic、histone
• 📝 描述：Contributors : Tyler Jensen ; Liangwen Zhong ; Andrew Xiao ; Berna Sozen ; Zongliang JiangSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensThe preimplantation development in eutherian mammals is diverse. However, ethical and technical constraints significantly limit our understanding of the molecular and biochemical pathways governing human development. In this study, we discovered an unexpected, species-specific epigenetic pathway regulated by H2A.J, a largely uncharacterized histone variant in preimplantation development using human Blastoid models, IVF bovine embryos, and in vitro human stem cell models. We discovered that H2A.J is expressed in human and bovine placentas, contrasting with its absence in mice, and that H2A.J is essential for trophoblast expansion and viability in human and bovine. Our findings also revealed that H2A.J is enriched at promoters and introns of genes and interacts with RNA Polymerase I and II and pro-elongation factors, thereby regulating RNA Polymerase elongation and trophoblast maintenance in human embryo development. This study sheds light on a novel chromatin factor crucial for proper development in humans and large mammals, offering insights into the evolution of preimplantation development in eutherians. Our research provides valuable insights into evolutionarily divergent epigenetic mechanisms and biological functions in trophoblast lineage maintenance and transcriptional regulation, laying the groundwork for future investigations into the essential but understudied process of human placentation.
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8. GSE325898 ZNF281作为整合应激反应系统的一部分的选择性翻译对心脏肿瘤学具有治疗意义

• ✍️ 作者：未知作者
• 🏷️ 关键词：oncology、regex:onco(logy|logist|gene|genic)
• 📝 描述：Contributor : Lorenzana-Carrillo Maria AreliSeries Type : Genome binding/occupancy profiling by high throughput sequencing ; Expression profiling by high throughput sequencingOrganism : Homo sapiens ; Mus musculusThis study aims to investigate the role of ZNF281 in cardiomyocyte function and tumor biology by integrating RNA-seq and ChIP-seq datasets. Using a C57BL/6 mouse model, we isolated cardiomyocytes from ZNF281 overexpression (OE) and knockdown (Kd) mice, along with their respective controls, to analyze transcriptomic changes and ZNF281 genome-wide binding patterns. Additionally, we included tumor samples from nude mice, specifically A549 ZNF281 knockout (KO) tumors and parental A549 tumors, to explore the differential regulation and binding patterns of ZNF281 between cardiac tissue and tumors. RNA-seq was performed to identify differentially expressed genes regulated by ZNF281 in both contexts, while ChIP-seq was conducted to map ZNF281 DNA-binding sites and its role in transcriptional regulation. This study will provide insights into the context-dependent functions of ZNF281 in the heart and tumors, enhancing our understanding of its role in cardiac biology and cancer progression.
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9. GSE299513 组织张力促进巨噬细胞驱动的脂质过氧化诱导的DNA损伤[RNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：macrophage、RNA-seq
• 📝 描述：Contributors : Hugo Gonzalez ; Mary Kate Hayward ; Valerie WeaverSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusUsing RNAseq and WES, we explore differences in the transcriptional and mutational landscapes between soft and stiff p53null mammary tumors
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10. GSE298644：BRN2诱导的ATR/STAT3通路或Shieldin 2亚克隆扩增介导三阴性乳腺癌对新辅助他拉唑帕尼的耐药性

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、resistance
• 📝 描述：Contributors : Noor M Abdulkareem ; Yan Jiang ; Yuan Qi ; Xuan Liu ; Xiaomei Zhang ; Shirong Cai ; Jiansu Shao ; Sabrina Jeter-Jones ; Amanda L Rinkenbaugh ; Chun-Chun Cheng ; Faiza Hancock ; Jill Schwartz ; Jennifer K Litton ; Jeffrey T Chang ; Helen Piwnica-WormsSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensIntrinsic and acquired resistance to poly(ADP-ribose) polymerase (PARP) inhibitors (PARPi) remains a major barrier in treating homologous recombination (HR) repair-deficient tumors, including those with germline or somatic BRCA1/2 mutations. Although PARPi are FDA approved for adjuvant treatment of locally advanced or metastatic breast cancer in patients with germline BRCA1/2 mutations, emerging data support their use as monotherapy in the neoadjuvant setting. Promising safety profiles of newer-generation PARPi further support this potential. However, resistance mechanisms specific to the neoadjuvant setting are poorly understood. To address this gap, we leveraged resources from a phase II neoadjuvant clinical trial (NCT03499353), analyzing tumors from patients with germline BRCA1/2 mutant breast tumors before and after six months of talazoparib monotherapy. Whole-transcriptome analyses were performed on these samples. Additionally, we established orthotopic patient-derived xenograft models from a subset of the patient tumors and conducted whole-exome and whole-transcriptome analysis. This integrative approach revealed both known and novel PARPi resistance mechanisms. In one case, overexpression of BRN2, encoding a transcription factor that plays a critical role in neurogenesis, led to activation of ATR/RAD51 and STAT3 pathways, restoring homologous recombination (HR) repair. BRN2-driven resistance could be reversed with ATR and STAT3 inhibitors, resensitizing cells to talazoparib. In another, an HR repair proficient tumor subclone lacking Shieldin 2 expression expanded during treatment and accounted for intrinsic resistance. Our findings highlight the need to determine intrinsic and anticipate acquired resistance pathways in treatment-naïve tumors and support combining PARPi with targeted agents to improve outcomes in the neoadjuvant setting.
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1. 科学家称，NAD+可能延缓衰老，并对抗阿尔茨海默病和帕金森病。

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、Alzheimer
• 📝 描述：A global team of leading scientists is zeroing in on a tiny but powerful molecule that could reshape how we age. Known as NAD⁺, it plays a crucial role in keeping our cells energized, repairing DNA, and maintaining overall health—but its levels steadily decline over time, potentially fueling diseases like Alzheimer’s and Parkinson’s. Researchers are now exploring ways to boost NAD⁺ using compounds like NR and NMN, with early studies hinting at improvements in memory, metabolism, and physical function.
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2. scSurv——一种用于单细胞存活分析的深度生成模型

• ✍️ 作者：未知作者
• 🏷️ 关键词：single-cell
• 📝 描述：RNA sequencing combined with single cell data enables scSurv to link individual cells to patient outcomes, helping identify disease driving cell populations and improve precision medicine strategies…
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3. 改进单细胞植物研究的RNA测序工作流程

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing
• 📝 描述：RNA sequencing in plants becomes more reliable through optimized workflows that combine bulk and single cell data, improving cell type identification and overall transcriptome…
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4. Cirena推出高纯度长链RNA，加速CRISPR和基因组编辑研究

• ✍️ 作者：未知作者
• 🏷️ 关键词：genome
• 📝 描述：Cirena’s long RNA technology supports RNA sequencing and gene editing workflows by delivering high purity constructs that improve precision and accelerate experimental design…
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5. 大多数美国人并不知道这种食物会增加患结肠癌的风险。

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer
• 📝 描述：Nearly half of Americans don’t know that processed meat increases colorectal cancer risk, according to a new poll. But once they learn the connection, most support warning labels—suggesting people want clearer information. Experts warn that awareness is lagging even among healthcare providers. The good news: diets rich in plant foods and fiber, along with healthy habits, can dramatically lower risk.
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• GSE285840 CTCF 和组蛋白 H3.3 在 K27M 弥漫性中线胶质瘤中协同表观基因组作用的证据 [ChIP-seq]
• GSE325854 整合转录组学和蛋白质组学分析安纳托利亚璃眼蛛对细菌入侵的免疫反应
• GSE325526 经典非临床物种的定量转录组和蛋白质组图谱
• GSE325525 经典非临床物种的定量转录组和蛋白质组图谱 [b3]
• GSE325523 经典非临床物种的定量转录组和蛋白质组图谱 [b2]
• GSE325522 经典非临床物种的定量转录组和蛋白质组图谱 [b1]
• GSE325494 GLUT1 的药理学抑制通过抑制巨噬细胞诱导的炎症级联反应和恢复代谢稳态来缓解暴发性肝炎
• GSE320517 海洋氨氧化古菌 Nitrosopumilus zosterae NM25 对过氧化氢的转录组测序数据集
• GSE262636 组蛋白变体 H2A.J 是人类滋养层发育的关键表观遗传调控因子
• GSE262635 组蛋白变体 H2A.J 是人类滋养层发育中的关键表观遗传调控因子 [polyA 启动的转分化]
• GSE262631 组蛋白变体 H2A.J 是人类滋养层发育中的关键表观遗传调控因子 [核糖体耗竭的 HS MM]
• GSE262630 组蛋白变体 H2A.J 是人类滋养层发育中的关键表观遗传调控因子 [核糖体耗竭的 H2AJ KD]
• GSE262629 组蛋白变体 H2A.J 是人类滋养层发育中的关键表观遗传调控因子 [CUT&RUN]
• GSE325253 Xenium空间转录组分析：乳酸转运药理学抑制后小鼠肺纤维化重塑
• GSE319645 DGAT1 通过 ERK1/2 依赖性致瘤信号通路驱动前列腺癌中种族差异显著的成纤维细胞活化
• GSE311194 获得性 AmpC β-内酰胺酶对细菌适应性和致病性的有益影响：一种新的范式
• GSE309672 基于纳米孔测序的活性DNA复制揭示了后生动物复制叉延伸和复制起点利用的关键原理
• GSE308373 百日咳毒素以及葡萄球菌超抗原在人扁桃体类器官模型中诱导糖酵解，使其成为 CD4+ T 细胞活化过程中的主要能量来源。
• GSE318365 组织张力促进巨噬细胞驱动的脂质过氧化诱导的 DNA 损伤 [WES]
• GSE313247 缺氧对染色质和基因转录的调控 [ChIP-Seq]
• GSE301799 杀伤细胞免疫球蛋白样受体在人类 γδ T 细胞中划分出不同的表型和功能 [RNA-seq]
• GSE296191 缺氧对染色质和基因转录的调控 [RNA-seq]
• GSE296190 缺氧对染色质和基因转录的调控 [ChIP-seq]
• GSE285924 CTCF 和组蛋白 H3.3 在 K27M 弥漫性中线胶质瘤中协同发挥表观基因组作用的证据
• GSE285841 CTCF 和组蛋白 H3.3 在 K27M 弥漫性中线胶质瘤中协同表观基因组作用的证据 [CUT&RUN]
• GSE325591 通过单核 RNA 测序对骨细胞转录组进行高分辨率分析
• GSE325586 妊娠中期小鼠皮层单核RNA测序
• GSE312740 人类iPSC衍生小胶质细胞嵌合小鼠模型对腺相关病毒载体的免疫反应
• GSE292965 3组样髓母细胞瘤小鼠模型的特征[scRNA-Seq]
• GSE292964 3组样髓母细胞瘤小鼠模型的特征[RNA-Seq]
• GSE292953 5-乙炔基尿苷扰乱核内RNA代谢，促进TDP-43和其他RNA结合蛋白在核内积累
• GSE291337 利用先天免疫增强mRNA疗法
• GSE324092 MECOM 通过与 GATA2 的功能竞争促进白血病进展并抑制肥大细胞分化（CordBlood_RNA-seq）
• GSE324091 MECOM 通过与 GATA2 的功能竞争促进白血病进展并抑制肥大细胞分化 (HEK293T_ChIP-seq)
• GSE316082 非活性β1整合素作为血管生成素2-TIE2-FOXO1信号传导的细胞连接定位分子支架[RNA-Seq]
• GSE311337 Filifactor alocis FtxA-dependent suppression of inflammation and apoptosis