详细内容（前10条）

1. ⭐ GSE311783 DeCAF 重新定义了成纤维细胞状态，揭示了驱动临床肿瘤进展和免疫治疗反应的多维肿瘤-基质关系 [空间转录组学]

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、regex:immuno(logy|therapy|suppression)、spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Contributors : Xianlu L Peng ; Ian C McCabe ; Jen Jen YehSeries Type : OtherOrganism : Homo sapiensCancer-associated fibroblast (CAF) heterogeneity within pancreatic ductal adenocarcinoma (PDAC) has been previously assessed through single-cell RNA sequencing (scRNAseq) to discover distinct CAF populations such as myCAFs and iCAFs. While useful as a biological framework, no studies have conclusively and robustly demonstrated a correlation of CAF subpopulations with clinical prognosis or therapy response. We define restraining (rest) and promoting (pro) CAFs in patient samples that are both prognostic and predictive of therapy response in disparate tumor types. Using a single sample classifier, DeCAF, we uncover distinct clinical and spatial interactions between pro- and restCAF subtypes and basal-like and classical tumor subtypes that support tumor stroma crosstalk where basal-like tumors are enriched in proCAFs and classical tumors are enriched in restCAFs. Finally, we find striking differences in the immune contexture of pro- and restCAF tumors where restCAF dominant tumors are enriched in patients who respond to immune checkpoint inhibition (ICI) in two large clinical trials, and proCAF dominant tumors are enriched in patients who respond to myeloid inhibition. This work is the first to define CAF subtypes that are clinically robust, prognostic, predictive of immunotherapy response, and associate with tumor molecular subtype.
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2. ⭐ GSE169236 通过单核甲基化测序研究大脑衰老的表观遗传特征 [CP-9mo-m-023]

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、sequencing、epigenetic、methylation
• 📝 描述：Contributors : Wei Tian ; Anna Bartlett ; Jordan Altshul ; Rosa Gomez Castanon ; Joseph R Nery ; Jacinta D Lucero ; Julia K Osteen ; Huaming Chen ; M M Behrens ; Joseph R EckerSeries Type : Methylation profiling by high throughput sequencingOrganism : Mus musculusIllustrating aging effects on the epigenomic features of brain is critical to understand brain functional decline and neurodegeneration. Single nucleus methylation sequencing was applied to brain regions of both male and female mouse at the age of 2, 9 and 18 months. We use these data to identify the epigenomic changes with aging in mouse brains.
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3. ⭐ GSE169251 通过单核甲基化测序研究大脑衰老的表观遗传特征 [DHC-9mo-m-001]

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、sequencing、epigenetic、methylation
• 📝 描述：Contributors : Wei Tian ; Anna Bartlett ; Jordan Altshul ; Rosa Gomez Castanon ; Joseph R Nery ; Jacinta D Lucero ; Julia K Osteen ; Huaming Chen ; M M Behrens ; Joseph R EckerSeries Type : Methylation profiling by high throughput sequencingOrganism : Mus musculusIllustrating aging effects on the epigenomic features of brain is critical to understand brain functional decline and neurodegeneration. Single nucleus methylation sequencing was applied to brain regions of mouse at the age of 2, 9 and 18 months. We use these data to identify the epigenomic changes with aging in mouse brains.
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4. ⭐ GSE311788 DeCAF 重新定义了成纤维细胞状态，揭示了驱动临床肿瘤进展和免疫治疗反应的多维肿瘤-基质关系 [scRNA-Seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、regex:immuno(logy|therapy|suppression)、scRNA
• 📝 描述：Contributors : Xianlu L Peng ; Ian C McCabe ; Jen Jen YehSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensCancer-associated fibroblast (CAF) heterogeneity within pancreatic ductal adenocarcinoma (PDAC) has been previously assessed through single-cell RNA sequencing (scRNAseq) to discover distinct CAF populations such as myCAFs and iCAFs. While useful as a biological framework, no studies have conclusively and robustly demonstrated a correlation of CAF subpopulations with clinical prognosis or therapy response. We define restraining (rest) and promoting (pro) CAFs in patient samples that are both prognostic and predictive of therapy response in disparate tumor types. Using a single sample classifier, DeCAF, we uncover distinct clinical and spatial interactions between pro- and restCAF subtypes and basal-like and classical tumor subtypes that support tumor stroma crosstalk where basal-like tumors are enriched in proCAFs and classical tumors are enriched in restCAFs. Finally, we find striking differences in the immune contexture of pro- and restCAF tumors where restCAF dominant tumors are enriched in patients who respond to immune checkpoint inhibition (ICI) in two large clinical trials, and proCAF dominant tumors are enriched in patients who respond to myeloid inhibition. This work is the first to define CAF subtypes that are clinically robust, prognostic, predictive of immunotherapy response, and associate with tumor molecular subtype.
• 🔗 查看原文

5. ⭐ GSE310957 DeCAF 重新定义了成纤维细胞状态，揭示了驱动临床肿瘤进展和免疫治疗反应的多维肿瘤-基质关系 [RNA-Seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、regex:immuno(logy|therapy|suppression)、RNA-seq
• 📝 描述：Contributors : Xianlu L Peng ; Ian C McCabe ; Jen Jen YehSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensCancer-associated fibroblast (CAF) heterogeneity within pancreatic ductal adenocarcinoma (PDAC) has been previously assessed through single-cell RNA sequencing (scRNAseq) to discover distinct CAF populations such as myCAFs and iCAFs. While useful as a biological framework, no studies have conclusively and robustly demonstrated a correlation of CAF subpopulations with clinical prognosis or therapy response. We define restraining (rest) and promoting (pro) CAFs in patient samples that are both prognostic and predictive of therapy response in disparate tumor types. Using a single sample classifier, DeCAF, we uncover distinct clinical and spatial interactions between pro- and restCAF subtypes and basal-like and classical tumor subtypes that support tumor stroma crosstalk where basal-like tumors are enriched in proCAFs and classical tumors are enriched in restCAFs. Finally, we find striking differences in the immune contexture of pro- and restCAF tumors where restCAF dominant tumors are enriched in patients who respond to immune checkpoint inhibition (ICI) in two large clinical trials, and proCAF dominant tumors are enriched in patients who respond to myeloid inhibition. This work is the first to define CAF subtypes that are clinically robust, prognostic, predictive of immunotherapy response, and associate with tumor molecular subtype.
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6. ⭐ GSE313840 单细胞测序揭示柯萨奇病毒 A6 相关手足口病在儿童中的免疫特征

• ✍️ 作者：未知作者
• 🏷️ 关键词：immune、sequencing、single-cell
• 📝 描述：Contributors : Meng Zhang ; Huiling Deng ; Chenrui Liu ; Na Huang ; Ling He ; Yaping LiSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensHand, foot, and mouth disease (HFMD) is a clinically significant pediatric infection with potential neurological complications, and coxsackievirus A6 (CA6) is increasingly recognized as a predominant causative agent. We identified significant alterations in immune cell composition and amino acid metabolism during disease progression through an integrated multiomics analysis of pediatric patients with CA6-associated HFMD. Single-cell RNA sequencing revealed dynamic changes in peripheral blood mononuclear cell populations, particularly in CD4+ naïve T cells, neutrophils, and CD16- monocytes.
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7. ⭐ GSE310918 利用脂质驱动的免疫代谢通路增强大网膜转移瘤的免疫治疗效果

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、metabolic、regex:immuno(logy|therapy|suppression)
• 📝 描述：Contributors : Meggy Suarez-Carmona ; Mareike Hampel ; Xin-Wen Zhang ; Alexandra Pöchmann ; Silke A Grauling-Halama ; Nektarios A Valous ; Pornpimol Charoentong ; Dyke Ferber ; Jannis Wissfeld ; Alicia Höflich ; Stanislas Goriely ; Aurélie Detavernier ; Abdulkader Azouz ; Anthony Rongvaux ; Sven Zukunft ; Ingrid Fleming ; Jürgen G Okun ; Vickie Baracos ; Mathias Heikenwälder ; Laurence Zitvogel ; Xinyi Xu ; Chenqi Xu ; Michael Volkmar ; Daniel Schraivogel ; Lars Steinmetz ; Junzo Hamanishi ; Masaki Mandai ; Mathias Gaida ; Theresa Mokry ; Johanna Nattenmüller ; Oliver Sedlaczek ; Nanna Monjé ; Roxanna Schwab ; Annette Hasenburg ; Regina Johanna Boger ; Frederik Marmé ; Athanasios Mavratzas ; Sarah Schott ; Niels HalamaSeries Type : Expression profiling by high throughput sequencing ; OtherOrganism : Mus musculusDespite the potential of immune checkpoint blockade (ICB) in epithelial ovarian carcinoma (EOC), its clinical efficacy remains limited. Our study investigates the immuno-metabolic landscape of omental metastases to identify therapeutic targets. Using patient-derived explants (PDEs), we demonstrate that lipid-rich omental environments preserve effector T cell function, while lipid processing in tumor-associated macrophages (TAMs) induces oxidative stress and immune suppression. Targeting lipid metabolism via CCR5 inhibition (e.g., maraviroc) or anti-CD36 treatment reprograms TAMs, restores T cell activity, and enhances anti-tumor immunity. These findings reveal a metabolic-inflammatory axis that can be modulated to improve ICB outcomes in EOC.
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8. GSE311789 DeCAF重新定义了成纤维细胞状态，揭示了驱动临床肿瘤进展和免疫治疗反应的多维肿瘤-基质关系。

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、regex:immuno(logy|therapy|suppression)
• 📝 描述：Series Type : Other ; Expression profiling by high throughput sequencingOrganism : Homo sapiensThis SuperSeries is composed of the SubSeries listed below.
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9. GSE288652 结肠低级别和高级别腺瘤的全基因组DNA甲基化

• ✍️ 作者：未知作者
• 🏷️ 关键词：genome、methylation
• 📝 描述：Contributors : Alexis Overs ; Jean-Paul Feugeas ; Zohair Selmani ; Paul Peixoto ; Eric Hervouet ; Chloé Molimard ; Laurent Arnould ; Frédéric Bibeau ; Jules DurandSeries Type : Methylation profiling by arrayOrganism : Homo sapiensIntroduction: The dynamics of colorectal epigenetics during early carcinogenesis remain undocumented. In this study, we explore the DNA methylation dynamics in colorectal cancer oncogenesis from non-tumor colon tissues to low-grade, high-grade adenoma and adenocarcinoma. Methods: The methylome of 13 low-grade and 19 high-grade colorectal adenomas was determined using the EPIC v1 Human Methylation Beadchip. These methylation profiles were complemented with the methylomes of 206 non-tumor colon and 24 colon adenocarcinomas from GSE149282, GSE132804 series and the HCMI study. Differentially methylated CpG were identified by Student’s t-test and used to monitor the evolution of the colon methylome during carcinogenesis. The differentially methylated promoters were used to infer the associated biological process using gene ontology. Results: 4.9% of the colon methylome is significantly altered (p < 10-4) during carcinogenesis with two thirds corresponding to DNA demethylation. 56.6% of the methylation changes occurs at the transition from non-tumor colon tissues to low-grades adenomas. 18.2% of the DNA methylation changes are transitory during low-grade and/or high-grade adenomas. The biological pathways sensory perception of odor and stimulus were early unmethylated, nervous system development and homophilic cell adhesion were early methylated, and chemical synaptic transmission and cell adhesion were transiently methylated. Conclusion: This study provides insight into the dynamics of colonic epigenetics during carcinogenesis, with early DNA methylation changes in the low-grade adenomas associated with transient DNA methylation changes. However, the causality of these changes remains to be elucidated.
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10. GSE311611 同时靶向 KRAS 和 CDK4 可协同诱导胰腺癌细胞持久生长停滞

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、KRAS
• 📝 描述：Series Type : Expression profiling by high throughput sequencingOrganism : Mus musculusMutant Ras oncoproteins, particularly KRAS, are among the most prevalent drivers of cancer. Small-molecule KRAS inhibitors have emerged as promising cancer therapeutics, yet resistance development remains a major hurdle. To overcome this challenge, we explored rational combination strategies aimed at enhancing therapeutic efficacy and durability. We show that the KRAS-G12C inhibitor Sotorasib synergizes with the CDK4/6 inhibitor Palbociclib to eliminate pancreatic ductal adenocarcinoma (PDAC) cells and organoids harboring KRAS-G12C mutations. This synergy was especially pronounced following drug washout, indicating a durable cellular response. Similar synergistic effects were observed in non-small-cell lung cancer (NSCLC) cells. Additionally, the KRAS-G12D inhibitor MRTX1133 cooperated with Palbociclib to suppress KRAS-G12D-mutant PDAC cells. Mechanistically, the combinations induced sustained cell cycle arrest, marked by reduced RB phosphorylation, decreased E2F1 expression, and increased levels of CDKN1B/p27. Deletion of CDKN1B largely reversed the growth-inhibitory effect, highlighting its essential role in mediating the observed synergy. In an orthotopic, immunocompetent mouse model of PDAC, MRTX1133 significantly delayed tumor growth and extended survival; however, despite its ability to suppress RB phosphorylation, Palbociclib failed to enhance these effects. This might be due to increased tumor vascularization upon Palbociclib treatment, as revealed by single cell RNA sequencing. In summary, our findings demonstrate the therapeutic potential of enhancing cell cycle restriction point activation in KRAS inhibitor-based therapies, while emphasizing the importance of precisely adjusting the drug combinations to the in vivo situation.
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1. ⭐ 一种隐藏的T细胞开关可能使癌症免疫疗法对更多人有效。

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、T cell、regex:immuno(logy|therapy|suppression)
• 📝 描述：Scientists have discovered that T cell receptors activate through a hidden spring-like motion that had never been seen before. This breakthrough may help explain why immunotherapy works for some cancers and how it could be improved for others.
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2. SARS-CoV-2感染改变肺细胞lncRNA的RNA甲基化

• ✍️ 作者：未知作者
• 🏷️ 关键词：methylation
• 📝 描述：Altered m6A methylation detected by RNA sequencing in lung cell lncRNAs, including UCA1, GAS5 and NORAD, may reshape antiviral responses during SARS-CoV-2 infection…
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3. Hummingbird Diagnostics公司发表了关于液体活检中RNA生物标志物甲基化的研究报告

• ✍️ 作者：未知作者
• 🏷️ 关键词：methylation
• 📝 描述：RNA sequencing using nanopore technology reveals small RNA methylation signatures in blood, highlighting RNA modifications as a complementary biomarker layer for more sensitive lung cancer liquid biopsies…
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• GSE299798 ESR1 的激活突变导致免疫抑制性乳腺肿瘤微环境的形成。
• GSE294907 维护基因组完整性：Polo样激酶Cdc5和磷酸酶Cdc14协调拓扑异构酶II介导的有丝分裂链环解离
• GSE314368 结直肠癌诱发恶病质发生和发展过程中骨骼肌甲基化组-转录组的紊乱
• GSE303450 人类唾液腺和类器官的单细胞RNA测序
• GSE314110 通过AAV2/8介导递送人类百岁老人相关SIRT6 N308K/A313S，调控肝细胞癌细胞的侵袭性转录
• GSE314066 运动干预前后人类粪便微生物群的16S rRNA基因测序
• GSE301845 腱生蛋白C+肌成纤维细胞通过促进神经-巨噬细胞相互作用加剧血管内膜增生
• GSE285475 内皮转录因子 EB 可抵抗阿霉素诱导的内皮毒性和心脏功能障碍
• GSE262611：用PI3K/AKT/mTOR通路抑制剂处理的MPFR细胞的微阵列基因表达数据。
• GSE237200 内皮转录因子 EB 可抵抗阿霉素诱导的内皮毒性和心脏功能障碍
• GSE287235 E8.75 野生型和 Nr6a1 基因敲除小鼠胚胎的多组学 ATAC + 基因表达测序
• GSE287129 不同的染色质调节因子下调减数分裂轴蛋白沉积和染色体末端的 DNA 断裂诱导 [ChIP-Seq]
• GSE287127 不同的染色质调节因子下调减数分裂轴蛋白沉积和染色体末端的 DNA 断裂诱导 [RNA-Seq]
• GSE230046 人类多能干细胞来源的胎肝类器官中肝造血谱系的转录组
• GSE314256 连续低强度超声通过下调炎症和促进 M2 样标志物来影响 M1 巨噬细胞的转录组谱
• GSE296724 RNA-seq 分析野生型和 Oxsr1 敲除 HEK293T 细胞的基因表达谱
• GSE278465 NFκB1缺陷与Flt3髓系白血病相关，并通过RelA:p52和SOD2表达失调增强细胞自我更新能力
• GSE314114 调控性DNA:蛋白质相互作用的单细胞定位 IV
• GSE313521 多次心肌内注射脐带血单核细胞（UCB-MNCs）后心脏修复的独特转录组
• GSE310767 低水平迷走神经刺激对压力负荷过重诱发的心力衰竭中心脏重塑影响的转录组分析
• GSE299431 转录组学研究 HeLa 细胞中 DNAJC15 和 DNAJC19 的敲低
• GSE296495 单细胞调控DNA:蛋白质相互作用图谱
• GSE296493 单细胞调控DNA:蛋白质相互作用图谱 III
• GSE296492 单细胞调控DNA:蛋白质相互作用图谱 II
• GSE296491 调控性DNA:蛋白质相互作用的单细胞定位 I
• GSE287810 iPSC衍生的角质形成细胞用于研究特应性皮炎的表皮缺陷[批量RNA测序]
• GSE285002 疫苗递送平台影响基于血凝素的流感疫苗在猪体内的异源保护作用
• GSE277703 LOXL2 识别出与炎症相关的肌成纤维细胞，可预测肾移植功能障碍和纤维化