详细内容（前10条）

1. ⭐ GSE320442 阻断肠-肝 IgA 轴可减轻酒精相关性肝病中巨噬细胞介导的炎症和损伤 [空间转录组学]

• ✍️ 作者：未知作者
• 🏷️ 关键词：macrophage、inflammation、spatial、spatial transcriptomics、transcriptomics、gut、regex:gut(-?microbiome)?
• 📝 描述：Contributors : Min Gu Kim ; Kwon Yong Tak ; Pil Soo SungSeries Type : OtherOrganism : Mus musculusWe profiled spatial gene expression in mouse liver and intestine FFPE tissue sections using the 10x Genomics Visium Spatial Gene Expression for FFPE (v2, Mouse) platform. Samples included control and ethanol-fed groups with or without fingolimod (FTY720). Processed data include spatially resolved gene-by-spot count matrices generated by Space Ranger.
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2. ⭐ GSE320340 阻断肠-肝 IgA 轴可减轻酒精相关性肝病中巨噬细胞介导的炎症和损伤 [scRNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：macrophage、inflammation、scRNA、gut、regex:gut(-?microbiome)?
• 📝 描述：Contributors : Min Gu Kim ; Kwon Yong Tak ; Pil Soo SungSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusWe performed single-cell RNA sequencing (scRNA-seq) of mouse liver cells in an NIAAA ethanol-feeding model. Four samples were analyzed: Control_M, Control_F, EtOH_M, and EtOH_F (n=1 mouse per group). Libraries were prepared using the 10x Genomics Chromium GEM-X Single Cell 3′ RNA library v4 chemistry and sequenced on an Illumina platform with read structure R1(28)–I1(10)–I2(10)–R2(90). Data were processed using Cell Ranger (count) v8.0.1 with the GRCm39-2024-A reference to generate gene expression feature-barcode matrices and standard QC outputs.
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3. ⭐ GSE320339 阻断肠-肝 IgA 轴可减轻酒精相关性肝病中巨噬细胞介导的炎症和损伤 [RNA-Seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：macrophage、inflammation、RNA-seq、gut、regex:gut(-?microbiome)?
• 📝 描述：Contributors : Min Gu Kim ; Kwon Yong Tak ; Pil Soo SungSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensWe generated bulk 3′ mRNA-seq (QuantSeq) profiles to characterize transcriptional responses induced by immunoglobulin A (IgA) in human CD14⁺ monocytes. CD14⁺ monocytes were stimulated on plate-bound IgA (in PBS) for 24 hours or cultured on mock-coated plates incubated with PBS alone. Libraries were prepared using the QuantSeq 3′ mRNA-Seq V2 Library Prep Kit FWD (Lexogen) and sequenced as single-end 100 bp reads on an Illumina NextSeq 2000. This series includes three technical replicates per condition from a single donor.
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4. ⭐ GSE303544 细胞因子相关的免疫微环境重塑是滤泡性淋巴瘤转化的标志 [scRNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：lymphoma、immune、cytokine、scRNA
• 📝 描述：Contributors : Nicholas J Haradhvala ; Stephanie Yiu ; Laura Beckmann ; Catherine J Wu ; Gad Getz ; Sizun Jiang ; Erin M ParrySeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensAcross cancer, one of the most frequent examples of histologic transformation is the evolution of follicular lymphoma (FL) to an aggressive large cell lymphoma. Despite recent progress, understanding of the molecular and cellular underpinnings of transformation remains incomplete. Here, we dissect the interplay of tumor and microenvironment cell populations across transformation through a multimodal investigation of 85 FL and transformed FL samples, including single-cell and bulk RNA-sequencing alongside spatial transcriptomics and proteomics. Upon transformation, GPNMB+ macrophages and fibroblasts with matrix-remodeling phenotypes increased while lymph-node organizing populations (e.g. follicular dendritic cells, CCL21-expressing fibroblastic reticular cells) were lost. Transformation was marked by altered spatial distribution of cytokines, impacting macrophage differentiation and T cell infiltration. This detection of secreted stromal and macrophage signals was further evident by non-invasive plasma proteomics. Taken together, our data reveal expansion of macrophages and fibroblasts as key features of transformation with potential diagnostic and therapeutic implications.
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5. ⭐ GSE303548 细胞因子相关的免疫微环境重塑是滤泡性淋巴瘤转化的标志[bulkRNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：lymphoma、immune、cytokine
• 📝 描述：Contributors : Nicholas J Haradhvala ; Stephanie Yiu ; Laura Beckmann ; Catherine J Wu ; Gad Getz ; Sizun Jiang ; Erin M ParrySeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensAcross cancer, one of the most frequent examples of histologic transformation is the evolution of follicular lymphoma (FL) to an aggressive large cell lymphoma. Despite recent progress, understanding of the molecular and cellular underpinnings of transformation remains incomplete. Here, we dissect the interplay of tumor and microenvironment cell populations across transformation through a multimodal investigation of 85 FL and transformed FL samples, including single-cell and bulk RNA-sequencing alongside spatial transcriptomics and proteomics. Upon transformation, GPNMB+ macrophages and fibroblasts with matrix-remodeling phenotypes increased while lymph-node organizing populations (e.g. follicular dendritic cells, CCL21-expressing fibroblastic reticular cells) were lost. Transformation was marked by altered spatial distribution of cytokines, impacting macrophage differentiation and T cell infiltration. This detection of secreted stromal and macrophage signals was further evident by non-invasive plasma proteomics. Taken together, our data reveal expansion of macrophages and fibroblasts as key features of transformation with potential diagnostic and therapeutic implications.
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6. ⭐ GSE303546 细胞因子相关的免疫微环境重塑是滤泡性淋巴瘤转化的标志 [VisiumHD]

• ✍️ 作者：未知作者
• 🏷️ 关键词：lymphoma、immune、cytokine
• 📝 描述：Contributors : Nicholas J Haradhvala ; Stephanie Yiu ; Laura Beckmann ; Catherine J Wu ; Gad Getz ; Sizun Jiang ; Erin M ParrySeries Type : OtherOrganism : Homo sapiensAcross cancer, one of the most frequent examples of histologic transformation is the evolution of follicular lymphoma (FL) to an aggressive large cell lymphoma. Despite recent progress, understanding of the molecular and cellular underpinnings of transformation remains incomplete. Here, we dissect the interplay of tumor and microenvironment cell populations across transformation through a multimodal investigation of 85 FL and transformed FL samples, including single-cell and bulk RNA-sequencing alongside spatial transcriptomics and proteomics. Upon transformation, GPNMB+ macrophages and fibroblasts with matrix-remodeling phenotypes increased while lymph-node organizing populations (e.g. follicular dendritic cells, CCL21-expressing fibroblastic reticular cells) were lost. Transformation was marked by altered spatial distribution of cytokines, impacting macrophage differentiation and T cell infiltration. This detection of secreted stromal and macrophage signals was further evident by non-invasive plasma proteomics. Taken together, our data reveal expansion of macrophages and fibroblasts as key features of transformation with potential diagnostic and therapeutic implications.
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7. ⭐ GSE303545 细胞因子相关的免疫微环境重塑是滤泡性淋巴瘤转化的标志 [GeoMX]

• ✍️ 作者：未知作者
• 🏷️ 关键词：lymphoma、immune、cytokine
• 📝 描述：Contributors : Nicholas J Haradhvala ; Stephanie Yiu ; Laura Beckmann ; Catherine J Wu ; Gad Getz ; Sizun Jiang ; Erin M ParrySeries Type : OtherOrganism : Homo sapiensAcross cancer, one of the most frequent examples of histologic transformation is the evolution of follicular lymphoma (FL) to an aggressive large cell lymphoma. Despite recent progress, understanding of the molecular and cellular underpinnings of transformation remains incomplete. Here, we dissect the interplay of tumor and microenvironment cell populations across transformation through a multimodal investigation of 85 FL and transformed FL samples, including single-cell and bulk RNA-sequencing alongside spatial transcriptomics and proteomics. Upon transformation, GPNMB+ macrophages and fibroblasts with matrix-remodeling phenotypes increased while lymph-node organizing populations (e.g. follicular dendritic cells, CCL21-expressing fibroblastic reticular cells) were lost. Transformation was marked by altered spatial distribution of cytokines, impacting macrophage differentiation and T cell infiltration. This detection of secreted stromal and macrophage signals was further evident by non-invasive plasma proteomics. Taken together, our data reveal expansion of macrophages and fibroblasts as key features of transformation with potential diagnostic and therapeutic implications.
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8. ⭐ GSE334457 L-2 产生 Tfh 细胞维持肠道 Treg 稳态和免疫耐受

• ✍️ 作者：未知作者
• 🏷️ 关键词：immune、gut、regex:gut(-?microbiome)?
• 📝 描述：Contributors : Shivangi Dave ; Holly Bachus ; Nathan Santiago ; Audrey Meloun ; Margery Smelkinson ; Jeremy Foote ; Tom Hill ; Christopher Fucile ; Alexander Rosenberg ; Andre Ballesteros-TatoSeries Type : Expression profiling by high throughput sequencing ; OtherOrganism : Mus musculusT follicular helper (Tfh) cells are well known for their role in supporting B cell responses. Here, we identify a critical B cell-independent function for Tfh cells in sustaining regulatory T (Treg) cells within gut-associated lymphoid tissues (GALT). We demonstrate that Tfh cells produce IL-2 at the T-B border and within interfollicular (IF) regions, and that this localized IL-2 is required to maintain GALT Treg homeostasis and restrain the expansion of pathogenic effector T cells. Mice selectively lacking IL-2-producing Tfh cells develop colitis and fatal multiorgan inflammation, driven by impaired GALT Treg responses and uncontrolled effector T cell activation. Broad-spectrum antibiotic treatment alleviates both intestinal and extraintestinal pathology, indicating that loss of tolerance to commensal-derived antigens is a key driver of disease. Together, these findings define a spatially restricted Tfh-derived IL-2 niche critical for GALT Treg stability and uncover an unexpected immunoregulatory role for Tfh cells in maintaining gastrointestinal tolerance beyond B cell help.
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9. ⭐ GSE341873 DNMT3A 敲除 SW620 结直肠癌细胞的全基因组 DNA 甲基化谱分析。

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、genome、methylation
• 📝 描述：Contributors : Jianhong Zhao ; Yanrong Deng ; Haonan Chen ; Xiaojun Zhou ; Siyuan Yin ; Qun Qian ; Xiaoyu Xie ; Quanjiao Chen ; Jinfang Zhang ; Lifang Fan ; Xianghai Ren ; Baoxiang Chen ; Congqing JiangSeries Type : Methylation profiling by genome tiling arrayOrganism : Homo sapiensDNA methyltransferase 3A (DNMT3A) contributes to tumor immune evasion by regulating TNF signaling and cholesterol biosynthesis in colorectal cancer cells. To characterize DNMT3A-dependent changes in the DNA methylation landscape, genome-wide DNA methylation profiling was performed in control and DNMT3A-knockdown SW620 colorectal cancer cells using the Infinium MethylationEPIC BeadChip array. Comparative analysis identified 14,390 differentially methylated regions, of which 12,059 were annotated to known genes. These methylation alterations were predominantly localized to promoter-associated regions, including TSS1500, TSS200, and 5′ untranslated regions. DNMT3A loss reduced promoter methylation at genes involved in TNFα- and IFNγ-related signaling pathways, including TNFRSF1A and TNFRSF1B. These data define the DNMT3A-dependent DNA methylation landscape in SW620 cells and support a role for DNMT3A-mediated promoter methylation in the transcriptional regulation of tumor immune signaling pathways.
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10. ⭐ GSE304744 小鼠模型肺结核病变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 : Lester Kobzik ; Igor KramnikSeries Type : OtherOrganism : Mus musculusTo characterize gene expression in tuberculosis lung lesions (paucibacillary and multibacillary) , we performed spatial transcriptomics analysis using the NanostringGeoMX Digital Spatial Profiler (DSP) system.
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1. 诺禾致源欧洲公司扩大剑桥组学中心单细胞测序能力

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing、single-cell
• 📝 描述：Expanded RNA sequencing services at Novogene Europe bring advanced single-cell transcriptomics, bioinformatics, and multiomics support closer to UK researchers studying complex biological systems…
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2. ISAtools 可改进基于长读长 RNA 测序的全长 RNA 异构体分析

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing
• 📝 描述：RNA sequencing with ISAtools enables accurate reconstruction and quantification of full-length RNA isoforms while efficiently processing large PacBio sequencing datasets…
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3. 抗癌口香糖可将HPV病毒水平降低高达93%

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer
• 📝 描述：A specially engineered chewing gum reduced HPV by up to 93% and nearly eliminated two bacteria linked to head and neck cancer. The treatment preserved beneficial mouth bacteria, raising hopes for a safer and more affordable therapy.
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4. 一种常见的糖类可能有助于癌细胞挣脱束缚并扩散。

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer
• 📝 描述：Chemotherapy-surviving ovarian cancer cells may release fructose to help neighboring tumor cells loosen, escape, and spread. The discovery suggests that sugary diets and cholesterol-lowering drugs could influence cancer progression, though the effects have not yet been confirmed in patients.
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• GSE342040 Eliglustat诱导肝细胞癌细胞中磺基糖鞘脂代谢和基因表达的重塑
• GSE317757 FGF21 对抗癌症相关恶病质中的代谢功能障碍
• GSE339562 靶向 ERO1A 通过募集 CD8+T 细胞并与 PD-L1 阻断剂协同作用，增强肝癌的抗肿瘤免疫反应
• GSE335566 对非囊性纤维化和囊性纤维化样本的人支气管上皮制备物进行单细胞 RNA 测序分析
• GSE308991 利用ATAC-seq和Cut&Run技术对T-bet/Runx3双敲除模型在抗病毒CD8+T细胞中进行表观遗传分析
• GSE338580 小鼠衰老比目鱼肌的转录组分析及药物干预
• GSE336912 拟南芥 NAC103 (AT5G64060) ChIP-seq 和 DAP-seq 数据
• GSE298719 人类单细胞图谱鉴定出 OLR1+ 瘢痕相关巨噬细胞是慢性肝病的治疗靶点
• GSE284503 通过控制微生物暴露改善“具有天然微生物群的小鼠”模型
• GSE342312 T-bet 和 Runx3 通过协同和独特的染色质调控机制协调效应 CD8 T 细胞分化和谱系保真度 [多组学]
• GSE342302 转录组学生物标志物用于对人 HepaRG 细胞中化学诱导的组蛋白去乙酰化酶抑制进行分类
• GSE341284 T-bet 和 Runx3 通过协同和独特的染色质调控机制协调效应 CD8 T 细胞的分化和谱系保真性
• GSE308992 通过单敲除和双敲除 RNA 测序分析抗病毒 CD8+ T 细胞中 T-bet/Runx3 的转录组图谱
• GSE342216 基因 ssr3189 编码的小蛋白 cS24 是一种蓝细菌特有的 RNA 结合核糖体蛋白，参与代谢调控
• GSE342169 半胱氨酸和甘氨酸富集蛋白3 (Csrp3) 通过环指蛋白5 (Rnf5)/p38 MAPK依赖性通路调节心肌细胞有丝分裂细胞周期的启动
• GSE342085 WTAP在M2极化的人类THP-1巨噬细胞中过表达：转录组分析
• GSE342076 尿皮质素 1 通过增强三叉神经节中神经元与非神经元细胞之间由 HSPB1 介导的相互作用来促进三叉神经病理性疼痛
• GSE342052 生殖系编码的lncRNA-线粒体轴重塑透明细胞肾细胞癌中的氧化磷酸化和治疗敏感性
• GSE341562 通过 2’-O-甲基化对翻译起始进行位点特异性抑制
• GSE336791 分生孢子梗发育期间的温度决定了烟曲霉孢子转录组为无性或有性发育做好准备
• GSE304624 建立患者来源的琥珀酸脱氢酶缺陷型胃肠道间质瘤模型以预测治疗反应
• GSE342354 U2OS细胞在CCCP诱导的线粒体损伤后以及药物洗脱后的恢复情况的时间序列RNA测序
• GSE283830 不同皮肤细菌混合物诱导的共生 3D 全层皮肤模型中的基因表达变化。
• GSE281099 远端 IRF4 元件的缺失可阻止炎症诱导的人类调节性 T 细胞命运重编程
• GSE280135 利用甲基化谱准确预测中心型常规软骨肉瘤的风险和预后：CHROME