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1. ⭐ Cancer Immunol Immunother | 2025年依旧可用的5+肿瘤生信思路：预后+单细胞+bulk+实验验证

• ✍️ 作者：生信人
• 🏷️ 关键词：肿瘤、cancer、T细胞、单细胞、生信
• 📝 描述：衰老是胶质母细胞瘤（GBM）患者不良预后的一个公认风险因素，并且半数以上的GBM患者是老年人，但是目前对于年龄
• 🔗 查看原文

2. ⭐ STTT：帮癌细胞收敛“光芒”！复旦大学/同济大学等团队发现，FAM114A1是三阴性乳腺癌免疫逃逸和对免疫治疗耐药的关键因子

• ✍️ 作者：奇点肿瘤探秘
• 🏷️ 关键词：免疫、T细胞、细胞因子、耐药
• 📝 描述：公布三阴性乳腺癌的隐身秘诀！
• 🔗 查看原文

3. ⭐ 空间多组学揭示结直肠癌中C1QC+巨噬细胞-CD4+ T细胞生态位及其对免疫治疗的启示

• ✍️ 作者：人体蛋白质组导航计划
• 🏷️ 关键词：免疫、T细胞、巨噬细胞、空间组学
• 🔗 查看原文

4. ⭐ AML细胞多组学分析并揭示表观基因组机制驱动药物耐药性的产生

• ✍️ 作者：单细胞天地
• 🏷️ 关键词：耐药、基因组、表观基因组
• 📝 描述：血液肿瘤AML进行多组学分析评估化疗耐药新机制，确定表观遗传重编程而非基因突变是耐药性产生的主要驱动力。去甲基化药物可诱导细胞向更原始状态逆转。
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5. ⭐ 8+干湿结合模板文章，结合分型和建模识别脂质代谢关键基因，进展增殖，凋亡，代谢和免疫微环境的实验验证！

• ✍️ 作者：生信小课堂
• 🏷️ 关键词：免疫、免疫微环境、代谢
• 🔗 查看原文

6. ⭐ 最新14+干湿结合SCI，作者鉴定出干扰素诱导的衰老 CD8T 细胞并揭示其对免疫治疗的影响。衰老虽老，但是真的火！

• ✍️ 作者：生信小课堂
• 🏷️ 关键词：免疫、衰老、T细胞
• 📝 描述：点击查看详情
• 🔗 查看原文

7. ⭐ 10.6分非肿瘤干湿结合生信，靶向 CD177 + 中性粒细胞减轻缺血再灌注损伤。适合动物建模测序思路！

• ✍️ 作者：生信小课堂
• 🏷️ 关键词：肿瘤、测序、生信
• 📝 描述：点击查看详情
• 🔗 查看原文

8. ⭐ 单细胞+空转+代谢组，公开数据集找出亮点就能发1区12分

• ✍️ 作者：生信人
• 🏷️ 关键词：代谢、代谢组、单细胞
• 🔗 查看原文

9. 国家科技重大专项就支持院士课题组做一个tcga任意癌症的转录组差异分析吗？（饶毅都懒得怼这些）

• ✍️ 作者：生信技能树
• 🏷️ 关键词：癌症、转录组
• 📝 描述：让我有点纳闷：国家科技重大专项就支持院士课题组做一个tcga任意癌症的转录组差异分析吗？
• 🔗 查看原文

10. 最新11+生信，聚焦基质细胞-免疫细胞的互作网络。本文实验完美证实生信结果，干湿结合恰到好处！

• ✍️ 作者：东晓生物
• 🏷️ 关键词：免疫、生信
• 🔗 查看原文

💡 该来源还有 25 条内容，详见 文末

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1. ⭐ GSE275680 MHC II 限制性新抗原疫苗逆转免疫微环境并克服冷肿瘤对免疫检查点抑制剂的耐药性

• ✍️ 作者：未知作者
• 🏷️ 关键词：immune、vaccine、MHC、resistance
• 📝 描述：Contributors : Xueru Song ; Chun LuSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusCold tumors are resistant to immune checkpoint inhibitors (ICIs) due to their poor T cell infiltration and immunosuppressive tumor microenvironment (TME). While the role of CD4+ T cell response in anti-tumor immunity has been emphasized, it remains unclear whether the MHC II-restricted neoantigen vaccines targeting CD4+ T cell can reverse the immune microenvironment and overcome resistance to ICIs. Here we observed an enrichment of immune inflammation-related signaling pathways in TME following administration of MHC II-restricted neoantigen vaccines, indicating their potent role in reversing immunosuppressive TME. An increase in the tumor infiltration of CD4+ T cells and CD8+ T cells, an enhancement of their effector functions, and a tendency towards exhaustion were observed, providing prerequisites for the effectiveness of ICI treatment. Furthermore, NicheNet analysis indicated an enrichment of the inhibitory immune checkpoint signaling axis PVR-TIGIT following vaccination. The combination of the vaccines and TIGIT blockade exhibited synergistic anti-tumor efficacy. Mechanistically, the combination therapy promoted the differentiation of CD8+ T cells into effector memory phenotypes while delaying their exhaustion. Our study demonstrates that MHC II-restricted neoantigen vaccines can remodel the inhibitory TME with insufficient T cell infiltration and synergistically inhibit tumor growth with TIGIT antibody, providing a novel strategy for treating cold tumors.
• 🔗 查看原文

2. ⭐ GSE311294 胶原蛋白排列和空间转录组学分析 (CASTA) 揭示了与结直肠癌中胶原蛋白排列相关的基因程序

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Contributors : Maxwell Hamilton ; Alan Simmons ; Harsimran Kaur ; Samuel Ellis ; Ken Lau ; Robert CoffeySeries Type : OtherOrganism : Homo sapiensThe use of immune checkpoint blockade is limited to the minority of colorectal cancers that are highly infiltrated by CD8+ T cells. Therefore, a method to improve CD8+ T-cell infiltration has the potential to expand the use immune checkpoint blockade to more patients. Barriers of aligned collagen surrounding tumors have been proposed as one mechanisim of CD8+ T-cell exclusion. We use 5 colorectal cancer patient samples to examine the relationship between collagen alignment and gene expression.
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3. ⭐ GSE299573 膀胱癌鳞状分化的空间转录组学

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Contributors : Ryuta Watanabe ; Shunsuke Haga ; Noriyoshi Miura ; Tadahiko Kikugawa ; Takashi SaikaSeries Type : OtherOrganism : Homo sapiensWe analyze the gene expression of bladder cancer with squamous differenciarion using spatial gene expression analysis techniques (Visium HD, 10x genomics).
• 🔗 查看原文

4. ⭐ GSE275679 RNA测序，分析了用生理盐水或M44疫苗治疗的B16F10荷瘤小鼠的新鲜肿瘤组织。

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、vaccine、sequencing
• 📝 描述：Contributors : Xueru Song ; Chun LuSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusTo further reveal the immune regulatory effects of MHC II-restricted vaccines on TME, bulk RNA sequencing (bulk RNA-seq) was performed to analyze the overall immune signal transformation. Differential gene expression analysis recognized a total of 1695 upregulated and 343 downregulated genes on the M44 vaccination. Specifically, a higher expression of CD74, H2-Ab1, H2-Eb1, H2-Aa was observed in the vaccinated group, indicating the active MHC class II antigen processing and presentation in tumors. The ssGSEA method was used to quantify RNA-seq data of each sample and the GO_BP (Biological Process of Gene Ontology) term scores were calculated. The results indicated that the majority of the terms within high ssGSEA scores were related to both adaptive and innate immune-related processes.We then sorted the top 300 differently upregulated genes to generated pathway enrichment analysis and clustered the pathways into 20 categories based on functional relevance. Interestingly, the majority of categories were related to the activation of antitumor immune response, such as “inflammatory response” “leukocyte activation” “antigen processing and presentation” “leukocyte migration” and “phagocytosis”. Moreover, immune infiltration estimations showed increased infiltration levels of T cells, CD8+ T cells, NK cells, memory B cells and monocytes/macrophages.
• 🔗 查看原文

5. GSE300421 RNA 促进染色质相关凝聚体的成核和致癌活性 [ChIP-Seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：regex:onco(logy|logist|gene|genic)、ChIP-seq
• 📝 描述：Contributors : Krista A Budinich ; Xinyi Yao ; Chujie Gong ; Lele Song ; Michelle C Lee ; Qinglan Li ; Sylvia Tang ; Kaeli M Mathias ; Yiman Liu ; Son C Nguyen ; Eric F Joyce ; Yuanyuan Li ; Haitao Li ; Liling WanSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensAberrant chromatin-associated condensates have emerged as drivers of gene dysregulation in cancer, yet the mechanisms regulating their formation and function remain poorly understood. Mutations in the histone acetylation reader ENL, recurrent in leukemia and Wilms tumor, drive oncogenesis by inducing condensate formation at selective target loci. Here, we show that RNA promotes the nucleation, chromatin engagement, and oncogenic activity of ENL mutant condensates. Mutant ENL binds RNA via a conserved basic patch within the YEATS domain, and this interaction enhances condensate formation in vitro and in cells. Acute displacement and reassembly experiments demonstrate that interactions with local RNA transcripts facilitate condensate nucleation efficiency at endogenous target loci. Partial disruption of RNA binding preferentially impairs chromatin occupancy of ENL mutants at condensate-permissive loci, leading to reduced transcriptional bursting and target gene expression. In mouse models, disrupting RNA binding compromises mutant ENL-driven gene expression and malignant self-renewal, halting disease progression and prolonging survival. These findings uncover a previously unrecognized role of RNA in promoting the formation and oncogenic function of chromatin-associated condensate.
• 🔗 查看原文

6. GSE300418 RNA 促进染色质相关凝聚体的成核和致癌活性 [RNA-Seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：regex:onco(logy|logist|gene|genic)、RNA-seq
• 📝 描述：Contributors : Krista A Budinich ; Xinyi Yao ; Chujie Gong ; Lele Song ; Michelle C Lee ; Qinglan Li ; Sylvia Tang ; Kaeli M Mathias ; Yiman Liu ; Son C Nguyen ; Eric F Joyce ; Yuanyuan Li ; Haitao Li ; Liling WanSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiens ; Mus musculusAberrant chromatin-associated condensates have emerged as drivers of gene dysregulation in cancer, yet the mechanisms regulating their formation and function remain poorly understood. Mutations in the histone acetylation reader ENL, recurrent in leukemia and Wilms tumor, drive oncogenesis by inducing condensate formation at selective target loci. Here, we show that RNA promotes the nucleation, chromatin engagement, and oncogenic activity of ENL mutant condensates. Mutant ENL binds RNA via a conserved basic patch within the YEATS domain, and this interaction enhances condensate formation in vitro and in cells. Acute displacement and reassembly experiments demonstrate that interactions with local RNA transcripts facilitate condensate nucleation efficiency at endogenous target loci. Partial disruption of RNA binding preferentially impairs chromatin occupancy of ENL mutants at condensate-permissive loci, leading to reduced transcriptional bursting and target gene expression. In mouse models, disrupting RNA binding compromises mutant ENL-driven gene expression and malignant self-renewal, halting disease progression and prolonging survival. These findings uncover a previously unrecognized role of RNA in promoting the formation and oncogenic function of chromatin-associated condensate.
• 🔗 查看原文

7. GSE291608 剪接异构体扰动与单细胞转录组分析相结合揭示了微外显子在神经发生和自闭症相关通路中的功能 [RNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：RNA-seq、transcriptome
• 📝 描述：Contributors : Steven Dupas ; Guillermo Parada ; Jack Diayang Li ; Kevin Brown ; Jason Moffat ; Benjamin BlencoweSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusA major challenge of biomedical research is to assign functions to the myriad alternative RNA and protein isoforms. This challenge is particularly relevant to the mammalian nervous system, which produces complex repertoires of alternative splicing events. Here, we describe CHyMErA-seq, a platform that couples systematic deletion of exons to a single cell transcriptomics read-out, and apply this method to investigate a critical program of brain-specific microexons. Perturbation of microexons during neurogenesis reveals convergent roles in the temporal regulation of gene expression programs that direct signalling pathways and morphogenesis. We further observe microexons, including those in the Bin1, Clasp1, Gfra1, Med23, Ptprf and Ralgapb genes, that are required for the correct timing of autism-linked gene expression. Collectively, we describe a flexible system for isoform-resolution perturbation at a single cell level, together with insights into the roles of microexons in the developmental timing of neurogenesis transcriptomic signatures linked to brain disorders.
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8. GSE311464 脑癌患者体内代谢通量估算的数字孪生模型 II

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、metabolic
• 📝 描述：Contributors : Baharan Meghdadi ; Wajd N. Al-Holou ; Andrew J. Scott ; Anjali Mittal ; Ningning Liang ; Sravya Palavalasa ; Abhinav Achreja ; Alexandra O’Brien ; Kathy Do ; Zhe Wu ; Jiane Feng ; Nathan R. Qi ; Vijay Tarnal ; Sriram Venneti ; C. Ryan Miller ; Jann N. Sarkaria ; Weihua Zhou ; Theodore S. Lawrence ; Costas A. Lyssiotis ; Daniel R. Wahl ; Deepak NagrathSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiens ; Mus musculusRecent advancements in metabolic flux estimations in vivo are limited to preclinical models, primarily due to challenges in tissue sampling, tumor microenvironment heterogeneity, and non-steady state conditions. To address these limitations and enable flux estimation in human patients, we developed two machine learning-based frameworks. First, the digital twin framework integrates first-principles stoichiometric and isotopic simulations with convolutional neural networks to estimate fluxes in patient bulk samples. Second, the 13C-scMFA framework combines patient scRNA-seq data with 13C-isotope tracing, allowing single-cell-level flux quantification. These studies allow quantification of metabolic activity in neoplastic glioma cells, revealing frequently elevated purine synthesis and serine uptake compared to non-malignant cells. Our models also identify metabolic heterogeneity among patients and mice with brain cancer, in turn predicting treatment responses to metabolic inhibitors. Our frameworks advance in vivo metabolic flux analysis, may lead to novel metabolic therapies, and identify biomarkers for metabolism-directed therapies in patients.
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9. GSE311441 交感神经元过度激活驱动毛囊坏死和 T 细胞自身反应性 [scRNA]

• ✍️ 作者：未知作者
• 🏷️ 关键词：T cell、scRNA
• 📝 描述：Contributors : Emily Scott-Solomon ; Shlomi Brielle ; Ya-Chieh HsuSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusStress profoundly affects health, but the mechanisms driving stress-induced tissue changes remain poorly understood. Here, we show that strong acute stress drives rapid hair loss and initiates autoimmunity. Under stress, hyperactivated sympathetic nerves release excessive norepinephrine, causing necrosis in rapidly dividing hair follicle transit-amplifying cells (HF-TACs) while sparing most hair follicle stem cells (HFSCs). This differential sensitivity to stress stems from differences in cell death genes, metabolic strategies, and calcium homeostasis. Together, these factors render HF-TACs more vulnerable to the sudden calcium surges triggered by norepinephrine. HF-TAC necrosis releases cellular debris that triggers macrophage clearance and dendritic cell activation, ultimately leading to the activation and amplification of autoreactive T cells that can attack the hair follicle. Our findings reveal mechanistically how stress causes immediate tissue damage in the highly proliferative HF-TACs via sympathetic nerve-induced necrosis, which in turn fuels the activation of a T cell-mediated response against the hair follicle.
• 🔗 查看原文

10. GSE308506 外显子6截短的p53抑制先天免疫反应，从而促进膀胱癌的免疫逃逸

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、immune
• 📝 描述：Contributor : Chi ZhangSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusPrevious studies have reported that truncated p53 exhibits pro-tumorigenic properties; however, whether it contributes to immune evasion by influencing the immune microenvironment remains unclear.
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💡 该来源还有 26 条内容，详见 文末

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1. 新南威尔士州扩大消防员的癌症保险覆盖范围

• ✍️ 作者：未知作者
• 🏷️ 关键词：癌症
• 📝 描述：Secret hovertext:
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1. 隐藏的血液分子展现出惊人的抗衰老能力

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging
• 📝 描述：Scientists have identified new anti-aging compounds produced by a little-studied blood bacterium. These indole metabolites were able to reduce inflammation, oxidative stress, and collagen-damaging activity in skin cell cultures. Three of the compounds, including two never seen before, showed particularly strong effects. The findings hint at a surprising new source for future skin-rejuvenation therapies.
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• 最新11+生信，聚焦基质细胞-免疫细胞的互作网络。本文实验完美证实生信结果，干湿结合恰到好处！
• 最新10+生信，识别DPP7+TAMs，呈现M2极化表型，接着进行实验验证！靶向基因增加免疫治疗疗效。经典干湿结合思路！
• GWAS | Nat.Genet. | 泛英国生物样本库全基因组关联分析增强了对祖先富集效应的发现与解析能力
• Nature | 重塑肿瘤演化模型：高达 40% 的家族性腺瘤性息肉病（FAP）癌前病变源于多细胞谱系协同
• 单细胞RNA测序的大规模基准测试分析
• Science新发现：靶向“肿瘤酸中毒”，有望破解治疗耐药难题！这3个靶点值得关注
• 武汉大学周荣家团队：揭示线粒体 NAD+ 调控线粒体自噬及炎症反应的新机制
• 肠道里的“隐形内鬼”：Nature子刊揭秘550种细菌酶如何“复活”致癌毒素，加速肠癌恶化！
• 刘光慧团队建立血管和神经类器官模型，揭示人类衰老与疾病机制
• 中国博后一作Cell论文：发现全新细胞死亡方式——Mitoxyperilysis，由线粒体氧化驱动，可用于癌症治疗
• 基于深度学习的单细胞整合方法的基准研究
• 维生素D体内代谢过程（建议收藏）
• 这篇的聪明之处适合学！靠“TFAM-核心基因-通路”轴搭框架，就能快速积累国自然前期数据！
• 谁还在找巨噬细胞新思路？IF:10.1广州大学发现PGE2-EP4-C/EBPβ正反馈回路
• 氨基酸代谢是真的火，干湿结合轻松发7.5分2区文章。现在下手还不晚！
• 斩获157项资助的DNA甲基化：机制套路解析！
• 基因组 | Nature | 基于四代家系参考的人类新生突变率
• 集成机器学习打通肿瘤预后模型的“最后一公里”—-2025多项研究深度解析
• 胆管癌治疗重大突破：靶向PARG调控Hippo，化疗、免疫双增效
• 抑制自噬！南京中医药大学/哈尔滨医科大学附属肿瘤医院合作发文：乳腺癌治疗新方法
• 突破技术瓶颈！中科院叶明亮团队开发新型蛋白质组学方法首次在活细胞中原位、高通量地解析药物作用早期分子事件
• Cell重磅定义！2025年首个新型细胞死亡方式“Mitoxyperilysis”诞生：线粒体氧化周亡
• 空间聚类分析之cellcharter
• 赫捷院士团队证实，铜死亡可克服肺癌靶向治疗耐药性
• Nature Metabolism揭示芳香氨基酸代谢物在预防肥胖中的关键作用

• GSE303338 糖酵解异质性驱动胰腺癌代谢靶向治疗
• GSE296515 A Natural Cyclic Peptide Enhances Cytotoxic Th9 Differentiation and Antitumor Immunity (ATACseq)
• GSE295054 天然环状肽增强细胞毒性 Th9 分化和抗肿瘤免疫
• GSE246085 铜抑制 ATR 并与 PARP 抑制剂产生协同作用（RNA-seq）
• GSE311829 AP-1 介导细胞适应和记忆形成 [ATAC-seq]
• GSE311827 AP-1 介导细胞适应和记忆形成 [批量 RNA 测序]
• GSE311825 AP-1介导细胞适应和记忆形成[scRNA-seq]
• GSE310423 乳腺癌患者来源的异种移植中对帕妥珠单抗德鲁替康（HER3-DXd）长期反应的决定因素。
• GSE310422 乳腺癌患者来源异种移植中帕妥珠单抗德鲁替康（HER3-DXd）长期反应的决定因素 [NanoString]
• GSE307574 乳腺癌患者来源异种移植模型中帕妥珠单抗德鲁替康（HER3-DXd）长期疗效的决定因素
• GSE300420 RNA 促进染色质相关凝聚体的成核和致癌活性 [CLAP-seq]
• GSE298498 转座子衍生调控元件的组织特异性限制保护细胞类型特性 [ATAC-seq]
• GSE298495 转座子衍生调控元件的组织特异性限制保护细胞类型特性 [RNA-Seq]
• GSE296537 CDK9 是 GATA-3 驱动和 MCL-1 非依赖性 T 细胞淋巴瘤的依赖因子 [ChIP-seq]
• GSE296506 CDK9 是 GATA-3 驱动和 MCL-1 非依赖性 T 细胞淋巴瘤的依赖基因 [RNA-seq]
• GSE291610 剪接异构体扰动结合单细胞转录组分析揭示微外显子在神经发生和自闭症相关通路中的功能 [snRNA-Seq]
• GSE282088 前列腺素 E2-EP2/EP4 信号诱导肿瘤浸润性 Treg 表型促进肿瘤生长 [iTreg]
• GSE282087 前列腺素 E2-EP2/EP4 信号传导诱导肿瘤浸润性 Treg 表型促进肿瘤生长 [TITreg]
• GSE282086 前列腺素 E2-EP2/EP4 信号传导诱导肿瘤浸润性 Treg 表型促进肿瘤生长 [nTreg]
• GSE248839 灵长类动物进化过程中 XIST 调控网络的广泛重塑 [ATAC-Seq]
• GSE248837 灵长类动物进化过程中 XIST 调控网络的广泛重塑 [Capture Hi-C]
• GSE246893 铜抑制 ATR 并与 PARP 抑制剂产生协同作用（DTP 模型 RNA-seq 和 Ola-ATRi-EC cGAS-STING RNA-seq）
• GSE311382 人类小胶质细胞在体内对β-淀粉样蛋白、tau蛋白以及阿尔茨海默病病理的联合作用表现出不同的反应
• GSE311304 HIV Nef 放大机械异质性以促进免疫逃逸
• GSE311248 泛素特异性肽酶32稳定YAP并促进三阴性乳腺癌进展
• GSE311236 肥大细胞 CRFR1 通过 MAPK/SPHK1 信号通路促进胰腺癌疼痛