详细内容（前10条）

1. ⭐ GSE313445 卵巢肿瘤 FAK 抑制剂释放 Omega-3 脂肪酸刺激 GATA6 腹膜巨噬细胞产生 CXCL13 增强免疫疗法

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、macrophage、regex:immuno(logy|therapy|suppression)
• 📝 描述：Contributors : Dwayne Stupack ; Duygu Ozmadenci ; David Schlaepfer ; James LeeSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGenetic or pharmacolgic inhibition of Focal Adhesion Kinase in the murine KMF tumor model is compared to the growth of untreated tumors and with those treated with first line or second line chemotherapies. Impact upon the tumor subpopulations and immune compartment is evaluated via scRNAseq..
• 🔗 查看原文

2. ⭐ GSE196882 玉米胚叶的空间转录组学

• ✍️ 作者：未知作者
• 🏷️ 关键词：spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Contributor : Chi-Chih WuSeries Type : Expression profiling by high throughput sequencing ; OtherOrganism : Zea maysTo explore spatial genetic profiling with histological and cellular features, we conducted 10x Visium transcriptomic system from 8 maize seedling shoots, comprising SAM and serial 5 developing embryonic leaves.
• 🔗 查看原文

3. ⭐ GSE311419 解析 BRAFV600E 驱动的小鼠甲状腺癌中的功能性肿瘤内异质性，揭示 EMT 轨迹和代谢重塑

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、metabolic、trajectory
• 📝 描述：Contributors : Hao Ying ; Ling Zhang ; Siyi Shen ; Jing YuSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusA better understanding of functional heterogeneity of tumor cells may lead to the improvement of the diagnosis and development of effective therapies for patients with papillary thyroid cancer (PTC). Here, the transcriptional heterogeneity and hierarchical trajectory of malignant thyrocytes were investigated by single-cell RNA sequencing analysis in an adult-onset autochthonous mouse model of PTC driven by a BRAFV600E. Within BRAFV600E thyrocytes, we identified distinct subpopulations exhibiting varying degrees of mesenchymal transformation and stability. Further analysis uncovered an epithelial-mesenchymal transition (EMT) trajectory, where malignant subpopulations progress from an intermediate to a more mesenchymal and malignant state. The EMT-related phenotype of each subpopulation was validated with an organoid culture system. Further analysis demonstrated that major malignant subpopulations maintain distinct EMT states through subpopulation-specific pathway usage, whereas transitioning cells undergo a dynamic shift in molecular strategy by using different pathway combinations or distinct gene sets within the same EMT-related pathways along the EMT trajectory. Moreover, metformin diminished the most malignant subpopulation in the PTC mouse model and inhibited EMT potential in both regular and organoid cultures. Importantly, the functional heterogeneity of tumor cells identified in PTC mouse model have clinical relevance. Furthermore, transcriptome dynamics analysis revealed an EMT trajectory-related gene module with substantial predictive value for human PTCs with BRAFV600E. Lastly, our analysis reveals that p53 deficiency lowers the tumorigenic threshold for BRAFV600E and promotes cell state transition towards a more malignant state, rather than altering cellular heterogeneity or the transition trajectory. Subsequent analysis in vitro demonstrated that p53 loss might confer more malignant potential to BRAFV600E thyrocytes through modulating metabolic plasticity. Collectively, our work not only deciphers the functional intra-tumoral heterogeneity of BRAFV600E-drieven PTC but also thereby provides a theoretical foundation for developing EMT-targeted treatment.
• 🔗 查看原文

4. ⭐ GSE286177 异染色质在癌细胞中通过 HDAC7 介导的组蛋白 H3.3 结构重编程扩散 [RNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、RNA-seq、histone
• 📝 描述：Contributors : Ola Hassan ; Mattia Pizzagalli ; Owen Leary ; John Zepecki ; Laura Jinxuan Wu ; Daniel Lee ; Lindsey R Howard ; Jorge E Fajardo ; Andras Fiser ; David Karambizi ; Nikos TapinosSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensClass IIa histone deacetylases (HDACs) are a family of enzymes that despite their name, do not have any measurable histone deacetylase activity but they function as multi-protein interaction hubs due to the presence of a prolonged N-terminal domain. Here we show that HDAC7, a member of the Class IIa HDAC family, is a chaperone for Histone H3.3 and, interacts with H3.3 and HIRA on chromatin. Specific inhibition of HDAC7 expression with subtype specific siRNAs results in inhibition of the interaction of H3.3 with HIRA, while the association of H3.3 with DAXX and H3K9me3 is significantly increased, resulting in H3.3 being deposited on H3K9me3+/DAPI+ heterochromatin nuclear foci with observed changes in RNA expression. This drives substantial alteration of cancer cell gene expression as well as inhibition of the stemness phenotype for cancer cells. To understand the genome wide effect on expression, we perform RNA-seq following HDAC7 knockdown.
• 🔗 查看原文

5. ⭐ GSE286176 通过 HDAC7 介导的组蛋白 H3.3 结构重编程在癌细胞中扩散异染色质 [ChIP-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、ChIP-seq、histone
• 📝 描述：Contributors : Ola Hassan ; Mattia Pizzagalli ; Owen Leary ; John Zepecki ; Laura Jinxuan Wu ; Daniel Lee ; Lindsey R Howard ; Jorge E Fajardo ; Andras Fiser ; David Karambizi ; Nikos TapinosSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensSpecific inhibition of HDAC7 expression with subtype specific siRNAs results in inhibition of the interaction of H3.3 with HIRA, while the association of H3.3 with DAXX and H3K9me3 is significantly increased, resulting in H3.3 being deposited on H3K9me3+/DAPI+ heterochromatin nuclear foci with observed changes in RNA expression. Inhibition of HDAC7 triggers a significant increase of heterochromatin marks H3K9me3 and H3K27me3, global heterochromatin spreading in cancer cells, and reprogramming of the H3.3 chromatin landscape. We performed H3K9me3 chip-seq in glioma stem cells following HDAC7 knockdown in order to identify specific sites of heterochromatin spreading and/or increased occupancy.
• 🔗 查看原文

6. GSE314987 CSF3 通过 p65/NF-κB 信号通路促进 TMEM74 表达并增强自噬，从而驱动结直肠癌进展

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、pathway
• 📝 描述：Contributors : Junfeng Xu ; Xinyan LiuSeries Type : Expression profiling by arrayOrganism : Homo sapiensCSF3 is overexpressed in CRC, correlating positively with poor patient prognosis.We want to find out the specific sets of genes are down-regulated.We used microarrays to detail the global programme of gene expression between HCT116 cells with Ctrl and CSF3 and identified distinct classes of down-regulated genes during this process.
• 🔗 查看原文

7. GSE302019 批量 RNA 测序，用于研究从野生型 C57BL/6J 和 Spp1-EGFP 敲入报告基因小鼠中分离的肺巨噬细胞亚群的转录谱，这些小鼠接受了气管内注射博来霉素或 PBS。

• ✍️ 作者：未知作者
• 🏷️ 关键词：macrophage、sequencing
• 📝 描述：Contributor : Kohsuke ShirakawaSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusThis study aimed to characterize the transcriptomic landscape of Spp1-expressing interstitial macrophages (IMs) in the lungs of a bleomycin-induced pulmonary fibrosis mouse model using single-cell RNA sequencing (scRNA-seq). We utilized Spp1-EGFP knock-in reporter mice, in which EGFP marks Spp1-expressing cells. Pulmonary fibrosis was induced by intratracheal administration of bleomycin. Lung cells were isolated, and Spp1-EGFP⁺ SiglecF⁻ CD11b⁺ interstitial macrophages were enriched by flow cytometric sorting. Approximately 10,000 viable sorted cells were processed for single-cell transcriptome profiling using the Chromium Next GEM Single Cell 3’ Reagent Kits v3.1 (10x Genomics), and libraries were sequenced on a DNBSEQ-G400 platform. This dataset provides a high-resolution view of the cellular states and gene expression profiles of interstitial macrophages during lung fibrosis.
• 🔗 查看原文

8. GSE290386 肿瘤抑制素M通过中性粒细胞依赖性机制驱动特应性皮炎样炎症的多方面免疫发病机制

• ✍️ 作者：未知作者
• 🏷️ 关键词：immune、inflammation
• 📝 描述：Contributors : YunJae Jung ; Minji Park ; Jin-Ok BaekSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusAtopic dermatitis (AD) is a chronic inflammatory skin disease characterized by T helper 2 cell dysregulation and accumulation of innate immune cells. While recent studies have highlighted a role for neutrophils in the onset and progression of AD, their precise contributions remain incompletely defined. In a mouse model of AD-like inflammation induced by calcipotriol and ovalbumin, neutrophils were identified as a major source of the cytokine oncostatin M (OSM). Neutrophil-derived OSM promoted broad immune cell recruitment, exacerbated skin inflammation, and enhanced the expression of neuronal markers associated with pruritus. Knockdown of OSM and neutrophil depletion both attenuated inflammatory responses and neuronal activation. Publicly available single-cell RNA-sequencing datasets further confirmed increased OSM expression in neutrophils from lesional AD skin, underscoring the translational relevance of our findings. These results reveal a previously unrecognized intercellular communication axis in which neutrophil-derived OSM orchestrates multifaceted immune and neuroinflammatory responses in AD. Targeting this signaling pathway may offer a novel therapeutic avenue for AD and related inflammatory disorders.
• 🔗 查看原文

9. GSE238259 Akr1b7 在卵巢衰老中起着关键调控作用 [RNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、RNA-seq
• 📝 描述：Contributors : Keishiro Isayama ; Kenji Watanabe ; Masato Ohtsuka ; Seisuke Kimura ; Tomoaki Murata ; Takeshi Honda ; Masataka Asagiri ; Shun Sato ; Hiroshi Tamura ; Norihiro Sugino ; Yoichi MizukamiSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusAt the beginning of ovarian aging, the ovulation of immature oocytes is accelerated, finally leading to the arrest of ovulation despite the remaining oocytes. Here RNA expression in ovarian aging of mice is comprehensively analyzed during the estrous cycle after ovulation stimulation, and an aldo-keto reductase Akr1b7 pathway transiently increased in the young ovary is eliminated in the aged mice. Akr1b7-/- mice enhance the ovulation of immature oocytes, and the KITL expression in Akr1b7-expressed stromal is attenuated, accompanied by oocyte Akt essential for the follicular development inactivation in primordial follicles. The estrous cycle is extended due to the prolonged diestrous stage by a sustained progesterone level in Akr1b7-/- mice ovaries, which is caused by the decline of Cyp17a1, a major metabolite enzyme of progesterone in Akr1b7-expressed theca cell layers. Taken together, the decreased Akr1b7 pathway causes the ovulation of immature oocytes and the prolonged estrous cycle, typical symptoms of ovarian aging.
• 🔗 查看原文

10. GSE315481 组蛋白赖氨酸甲基化动态调控 EGFR DNA 拷贝数扩增

• ✍️ 作者：未知作者
• 🏷️ 关键词：methylation、histone
• 📝 描述：Contributors : Johnathan Whetstine ; Kashish Chetal ; Ruslan SadreyevSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensAcquired chromosomal DNA copy gains are a feature of many tumors; however, the mechanisms that underpin oncogene amplifi cation are poorly understood. Recent studies have begun to uncover the importance of epigenetic states and histone lysine methyltrans_x0002_ferases (KMT) and demethylases (KDM) in regulating transient site-specifi c DNA copy-number gains (TSSG). In this study, we reveal a critical interplay between a myriad of lysine methyltransferases and demethylases in modulating H3K4/9/27 methylation balance to control extrachromosomal amplifi ca_x0002_tion of the EGFR oncogene. This study further establishes that cellular signals (hypoxia and EGF) are able to directly promote EGFR amplifi cation through modulation of the enzymes controlling EGFR copy gains. Moreover, we demonstrate that chemical inhibitors targeting specifi c KMTs and KDMs are able to promote or block extrachromosomal EGFR amplifi cation, which identifi es potential therapeu
• 🔗 查看原文

💡 该来源还有 36 条内容，详见 文末

详细内容（全部1条）

1. LazyMouse – 用于随机移动鼠标光标的 R 包

• ✍️ 作者：未知作者
• 🏷️ 关键词：R package
• 📝 描述：New R Package called LazyMouse with single function for randomly moving mouse cursor in your favorite R IDE. For every R developer, R data scientists and all those everyday R users, that also need a break and do not want…Read more › Continue reading: LazyMouse – R package for randomly moving mouse cursor
• 🔗 查看原文

详细内容（全部5条）

1. 口腔中的有害细菌可能诱发帕金森病

• ✍️ 作者：未知作者
• 🏷️ 关键词：bacteria、regex:bacter(ia|ial|ium)
• 📝 描述：A familiar mouth bacterium best known for causing cavities may also be quietly influencing the brain. Scientists found that when this microbe settles in the gut, it produces compounds that can travel through the bloodstream and harm neurons involved in movement. In animal studies, this process triggered inflammation, motor problems, and brain changes linked to Parkinson’s disease. The findings hint that protecting oral and gut health could help protect the brain as well.
• 🔗 查看原文

2. 整合单细胞多组学数据，将遗传变异与细胞类型调控网络连接起来

• ✍️ 作者：未知作者
• 🏷️ 关键词：single-cell
• 📝 描述：By combining single-cell RNA sequencing with chromatin data and GWAS signals, scMORE links genetic variants to cell-specific regulatory networks, revealing aging and disease…
• 🔗 查看原文

3. RNA剪接和加工是人类组织衰老的核心特征。

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging
• 📝 描述：By combining RNA sequencing with network connectivity analysis, researchers uncover conserved age-related changes in RNA splicing and processing genes that are missed by expression analysis alone…
• 🔗 查看原文

4. 全球癌症病例激增，世界尚未做好准备。

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer
• 📝 描述：Global cancer cases have surged dramatically, doubling since 1990 and reaching 18.5 million new diagnoses in 2023. Deaths have also climbed to over 10 million a year, with the steepest increases hitting low- and middle-income countries. Without urgent action, researchers project more than 30 million new cases annually by 2050. Alarmingly, around four in ten cancer deaths are tied to preventable risks such as smoking, poor diet, and high blood sugar.
• 🔗 查看原文

5. 磁性纳米粒子对抗骨癌并促进愈合

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer
• 📝 描述：Researchers have developed a magnetic nanomaterial that can kill bone cancer cells and support bone regeneration at the same time. The material heats up under a magnetic field to destroy tumors, while its bioactive coating helps it bond to bone and stimulate healing. Tests showed rapid formation of bone-like minerals, a key sign of successful integration. The breakthrough could lead to smarter, less invasive treatments for bone tumors.
• 🔗 查看原文

• GSE315399 RNA-seq 分析卵巢癌细胞系 JHOC-5 和 OVCA420 中 PRSS23 敲低的影响
• GSE315215 HAT1/p300-SIRT3 介导的赖氨酸丙酮酰化将糖酵解通量与表观遗传调控联系起来 [RNA-seq]
• GSE314136 Tfam介导的RORgt+淋巴细胞代谢紊乱影响肠道组织稳态并促进GATA3+RORgt+固有淋巴细胞
• GSE286178 通过 HDAC7 介导的组蛋白 H3.3 结构重编程在癌细胞中扩散异染色质
• GSE271684 表观遗传调控因子 BAP1 的破坏驱动染色质重塑，导致具有乳腺癌干细胞特性和异常糖基化的细胞出现 [gRNA_MiSeq]
• GSE271683 表观遗传调控因子 BAP1 的破坏驱动染色质重塑，导致具有乳腺癌干细胞特性和异常糖基化的细胞出现 [ChiPseq_2D]
• GSE271682 表观遗传调控因子 BAP1 的破坏驱动染色质重塑，导致具有乳腺癌干细胞特性和异常糖基化的细胞出现 [ATACseq_3D]
• GSE271681 表观遗传调控因子 BAP1 的破坏驱动染色质重塑，导致具有乳腺癌干细胞特性和异常糖基化的细胞出现 [RNAseq_3D]
• GSE271680 表观遗传调控因子 BAP1 的破坏驱动染色质重塑，导致具有乳腺癌干细胞特性和异常糖基化的细胞出现 [RNAseq_2D]
• GSE260580 GATA4 被 CRL4B 复合物泛素化以刺激溶酶体并促进卵巢癌 EMT 过程 [ChIP-seq]
• GSE259274 GATA4 泛素化被 CRL4B 复合物激活，从而刺激溶酶体并促进卵巢癌 EMT 过程 [RNA-seq]
• GSE315692 小核仁 RNA Snora61 通过启动 Lgr5 转录驱动小肠干细胞的自我更新
• GSE311314 KMT2A 是 IDH 突变型胶质瘤发生过程中恶性转化的先决条件 [RNA-Seq]
• GSE309206 高糖环境通过 ROS/Akt/ETV4 信号通路损害角质形成细胞的迁移和增殖
• GSE294900 星形胶质细胞 Sox9 在阿尔茨海默病模型中维持认知功能 [RNA-Seq]
• GSE283858 KMT2A 是 IDH 突变型胶质瘤发生过程中恶性转化的先决条件 [RNA-Seq]
• GSE269309 SRCAP 和 H2A.Z 基因调控的机制基础（RNA-Seq）
• GSE269304 SRCAP 和 H2A.Z 基因调控的机制基础（ChIP-Seq）
• GSE269302 SRCAP 和 H2A.Z 基因调控的机制基础 (ATAC-Seq)
• GSE310740 调节 AP-1 可使 CAR-T 细胞建立肿瘤内干细胞样储存库并克服对 PD-1 阻断的耐药性
• GSE310251 调节 AP-1 可使 CAR-T 细胞建立肿瘤内干细胞样储存库并克服对 PD-1 阻断的耐药性
• GSE310250 调节 AP-1 可使 CAR-T 细胞建立肿瘤内干细胞样储存库并克服对 PD-1 阻断的耐药性
• GSE310249 调节AP-1可使CAR-T细胞建立肿瘤内干细胞样储存库并克服对PD-1阻断的耐药性
• GSE288687 调节 AP-1 可使 CAR-T 细胞建立肿瘤内干细胞样储存库并克服对 PD-1 阻断的耐药性
• GSE281556 研究发现，PARP抑制剂在溶酶体中的隔离作用可导致其在卵巢癌中异质性积累，从而提高疗效。
• GSE314816 单细胞视角揭示选择性胎儿生长受限中滋养层异质性和适应性功能障碍
• GSE307431 含有2′-O-甲氧基乙基修饰的治疗性反义寡核苷酸可引发转录组的独特扰动
• GSE302018：Spp1-EGFP报告基因小鼠博来霉素诱导肺纤维化中肺间质巨噬细胞的单细胞转录组分析
• GSE292269 能量代谢紊乱与常染色体显性遗传性视神经萎缩中的视网膜神经节细胞变性相关
• GSE238261 Akr1b7 在卵巢衰老中发挥着关键调控作用
• GSE238260 Akr1b7 在卵巢衰老中起着关键调控作用 [superSAGE]
• GSE315216 HAT1/p300-SIRT3 介导的赖氨酸丙酮酰化将糖酵解通量与表观遗传调控联系起来 [CUT&Tag]
• GSE297767 靶向 p63 亚型调节可纠正 AEC 综合征中的显性突变，而不破坏表皮稳态 [人类 RNA-seq]
• GSE297766 靶向 p63 亚型调节可纠正 AEC 综合征中的显性突变，而不破坏表皮稳态 [ChIP-seq]
• GSE297765 靶向 p63 亚型调节可纠正 AEC 综合征中的显性突变，而不破坏表皮稳态 [RNA-seq 小鼠]
• GSE285771 胰管细胞中的Orai1通过分泌胰液中的抗菌肽REG3B介导实验性急性胰腺炎中的胰肠相互作用