详细内容（前10条）

1. ⭐ GSE299050 单细胞和高分辨率空间转录组学揭示掌跖脓疱病的免疫动力学 [scRNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：immune、single-cell、scRNA、spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Series Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensPalmoplantar pustulosis (PPP) is a chronic and relapsing inflammatory skin disorder marked by the appearance of sterile pustules on the palms and/or soles, with an underlying pathogenesis that remains only partially understood. In this study, we mapped the immune landscape underlying PPP progression using single-cell RNA sequencing (scRNA-seq) integrated with high-resolution spatial transcriptomics (ST). Keratinocytes and fibroblasts in PPP showed enhanced activation of the JAK–STAT signaling pathway, alongside a progressive accumulation of myeloid dendritic cells and Th17 cells across disease stages—from healthy control (HC) to non-pustular lesion (NPL), and then to pustular lesion (PL). Cell–cell interaction analysis revealed CCL19–CCR7 signaling between fibroblastic reticular cell (FRC)-like fibroblasts and LAMP3⁺/CCR7⁺ migratory dendritic cells, as well as CCL22/CCL17–CCR4 signaling between these dendritic cells and CD4⁺ T cells, including Th17 subsets. These interactions were spatially validated, with dendritic cells localized both within pustules and in the upper dermis. Within the CCL19⁺ dermal compartment, activated antigen-presenting cells and lymphocytes coalesced into a lymphoid-like immune structure. Moreover, pustular and surrounding keratinocytes emerged as key sources of CXCL1/6/8–ACKR1 signaling, promoting neutrophil infiltration via endothelial engagement. These coordinated cellular interactions contribute to the establishment of a spatially organized and densely populated immune niche during PPP progression. Lastly, transcriptome-based drug prediction analysis highlighted JAK inhibitors and phosphodiesterase-4 (PDE4) inhibitors as promising therapeutic candidates capable of targeting multiple components of PPP pathology. Overall, this work provides an integrative view of immune dynamics in PPP and offers potential avenues for more targeted and effective therapies.
• 🔗 查看原文

2. ⭐ GSE322964 脑转移瘤微环境中癌症相关成纤维细胞的单细胞和空间测序分析 [多组学]

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、cancer、tumor microenvironment、sequencing、spatial
• 📝 描述：Contributors : Thomas Simon ; David N Buckley ; Zeyi Yang ; Chikako Matsuba ; Ben Y Tew ; Gerald C Gooden ; Kyle Hurth ; Steven A Toms ; David D Tran ; Gabriel Zada ; Matthew P Salomon ; Bodour SalhiaSeries Type : Expression profiling by high throughput sequencing ; Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensBrain metastasis (BM) remains largely incurable. Cancer-associated fibroblasts (CAFs) can either support or inhibit tumor growth in the tumor microenvironment (TME), yet their roles in BM remain under-described. Here we report a single-cell and spatial sequencing analysis of human BM tissues and define four transcriptionally distinct CAF subpopulations. BM CAF subpopulations are characterized by either extracellular matrix (ECM), immune, contractile, or neural features, and show distinct spatial distributions within the BM TME. Further analyses reveal that BM CAFs engage extensively in cell-cell communication and adopt distinct cell states, including an ECM CAF cell state marked by high levels of immunoglobulin superfamily containing leucine rich repeat expression (ISLR-CAFs). Functionally, ISLR-CAFs reduce BM tumor cell viability in vitro, consistent with a tumor-inhibitory role. These findings highlight the heterogeneity and plasticity of CAFs in BM, emphasizing the importance of precision in defining stromal contributions to disease progression and therapeutic response.
• 🔗 查看原文

3. ⭐ GSE299051 单细胞和高分辨率空间转录组学揭示掌跖脓疱病的免疫动力学 [空间转录组学]

• ✍️ 作者：未知作者
• 🏷️ 关键词：immune、single-cell、spatial、spatial transcriptomics、transcriptomics
• 📝 描述：Series Type : OtherOrganism : Homo sapiensPalmoplantar pustulosis (PPP) is a chronic and relapsing inflammatory skin disorder marked by the appearance of sterile pustules on the palms and/or soles, with an underlying pathogenesis that remains only partially understood. In this study, we mapped the immune landscape underlying PPP progression using single-cell RNA sequencing (scRNA-seq) integrated with high-resolution spatial transcriptomics (ST). Keratinocytes and fibroblasts in PPP showed enhanced activation of the JAK–STAT signaling pathway, alongside a progressive accumulation of myeloid dendritic cells and Th17 cells across disease stages—from healthy control (HC) to non-pustular lesion (NPL), and then to pustular lesion (PL). Cell–cell interaction analysis revealed CCL19–CCR7 signaling between fibroblastic reticular cell (FRC)-like fibroblasts and LAMP3⁺/CCR7⁺ migratory dendritic cells, as well as CCL22/CCL17–CCR4 signaling between these dendritic cells and CD4⁺ T cells, including Th17 subsets. These interactions were spatially validated, with dendritic cells localized both within pustules and in the upper dermis. Within the CCL19⁺ dermal compartment, activated antigen-presenting cells and lymphocytes coalesced into a lymphoid-like immune structure. Moreover, pustular and surrounding keratinocytes emerged as key sources of CXCL1/6/8–ACKR1 signaling, promoting neutrophil infiltration via endothelial engagement. These coordinated cellular interactions contribute to the establishment of a spatially organized and densely populated immune niche during PPP progression. Lastly, transcriptome-based drug prediction analysis highlighted JAK inhibitors and phosphodiesterase-4 (PDE4) inhibitors as promising therapeutic candidates capable of targeting multiple components of PPP pathology. Overall, this work provides an integrative view of immune dynamics in PPP and offers potential avenues for more targeted and effective therapies.
• 🔗 查看原文

4. ⭐ GSE314339 早期 B 细胞记忆储存在小鼠 B-1 细胞区室中，并驱动慢性淋巴细胞白血病样疾病 [scRNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：leukemia、B cell、scRNA
• 📝 描述：Contributors : Niklas Segrén ; Stefano Vergani ; Giorgia Montano ; Shamit Soneji ; Joan YuanSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusThe adult B cell pool is a developmental mosaic comprising short-lived naïve B cells and long-lived memory. Using genetic time-stamping, we previously showed that early life origin (ELO) B cells contributed substantially to the adult mouse immune system. In this study, we found that ELO B cells share a memory-like signature. Notably, B-1 cells exhibited an enrichment for the PD-L2/CD80 double positive (DP) immunophenotype associated with highly differentiated memory. Indeed, microbial antigen exposure in neonates expanded distinct specificities within the DP B-1 cell compartment, identifying the latter as a reservoir of IgM memory. B cell chronic lymphocytic leukemia (CLL) is a disease marked by the accumulation of memory-like B cells. By applying time-stamping to a mouse model for unmutated CLL (U-CLL), we demonstrated that leukemic expansion is driven by B-1 cell clones arising prior to postnatal day 10. Importantly, B-1 cells in mice and man closely mirrored the molecular profile of U-CLL. These results suggest that an age-associated leukemia can originate from ELO B cells.
• 🔗 查看原文

5. GSE323170 单个胚胎的单细胞转录组分析。

• ✍️ 作者：未知作者
• 🏷️ 关键词：single-cell、transcriptome
• 📝 描述：Contributor : Fernando BiaseSeries Type : Expression profiling by high throughput sequencingOrganism : Bos taurusBackground: Single-cell RNA sequencing (scRNA-seq) integration methods remove technical variation while preserving biological signal, yet systematic frameworks for evaluating how parameter choices influence biological interpretation remain limited. Traditional benchmarking approaches evaluate single-parameter configurations per method, potentially missing systematic patterns in functional outcomes and method convergence. A framework for systematic integration parameter evaluation was developed and applied to bovine embryo development. Results: Six integration methods (FastMNN, CCA, RPCA, scVI, Harmony, STACAS) combined with multiple parameters, including those for neighbor identification and clustering, yielded 8232 combinations. The main outputs evaluated were specific cell counts and marker identification. After filtering for extremely poor cell and marker identification, 4,287 integration parameter combinations were retained for analysis. There were three major patterns (clusters) with integration methods distributed non-randomly across clusters and distinct biological outcomes. One pattern emerged, composed of scVI and STACAS integration, dominated by the lack of identification of epiblast cells. Cluster 2 (n=29), also composed of scVI and STACAS integration, identified the most epiblast markers (n=7, 8, or 9) but had a limited number of epiblast cells (median=10). Cluster 1 (n=4,120 combinations) had the highest method diversity. Across clusters, trophoblast and mesoderm showed high functional distinctness, while epiblast and hypoblast showed moderate overlap in gene ontology classes. Conclusions: The approach reveals that parameter choices influence cell type classification, functional interpretation, and the degree of method convergence, with implications for identifying specific biological inferences for further orthogonal validation. A systematic approach to evaluating integration methods, along with other parameters, is advisable for accurate biological inference.
• 🔗 查看原文

6. GSE322759 F2代小鼠尾尖组织的全基因组亚硫酸氢盐测序（WGBS）分析

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing、genome
• 📝 描述：Contributors : Xiaoyang Zhao ; Fang Luo ; Kai Miao ; Cong Wan ; Qi LiSeries Type : Methylation profiling by high throughput sequencingOrganism : Mus musculusHere, we include data on the transmission of DNA methylation patterns to the F2 generation, which are derived from F1 progeny sired by either in vivo or O-Torgs-derived spermatids.
• 🔗 查看原文

7. GSE322525 PI3K-AKT 激活决定致癌 RAS 诱导的过度转录和复制压力 [RNASeq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：regex:onco(logy|logist|gene|genic)、RNAseq
• 📝 描述：Contributors : Richard D Kelly ; Claire Wilson ; Aditi Kanhere ; Eva PetermannSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensOncogenic RAS activation, hypertranscription and transcription-replication conflicts (TRCs) are frequent features of cancer cells that are under investigation for therapeutic targeting. RAS oncogenes promote RNA polymerase activity and hypertranscription for cell growth and proliferation, which can the lead to TRCs. Here, we investigated hypertranscription and replication stress induced by the HRAS and KRAS oncogenes, and their downstream signalling through the MAPK and PI3K pathways. We show that HRAS causes more TRCs than KRAS because HRAS specifically hyperactivates the PI3K-AKT signalling pathway. MAPK signalling is insufficient to cause hypertranscription and TRCs, which require PI3K activity. PI3K hyperactivation was associated with increased E2F and MYC transcription programmes, increased S phase entry, increased nascent transcription of genes encoding ribosome biogenesis factors and expression of small nucleolar RNAs (snoRNAs). Inhibiting S phase entry alone did not rescue hypertranscription and replication stress, which required both MAPK and PI3K signalling. We report that a main downstream effector of PI3K-induced hypertranscription is AKT-mediated phosphorylation of GSK3b, which stabilises MYC. Cancer datasets further support that PI3K mutations may be associated with hypertranscription and replication stress signatures. Our findings suggest a mechanistic explanation for replication stress variability across RAS models and identify potential new predictors of TRCs in cancer.
• 🔗 查看原文

8. GSE321734 沃勒米鱼转录组测序

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing、transcriptome
• 📝 描述：Contributors : Srividya Ramakrishnan ; Cristiane de Santis Alves Rosa ; Lais Araujo Coelho ; Melissa Kramer ; Sara Goodwin ; Olivia Mendivil Ramos ; Gil Eshel ; Veronica M Sondervan ; Samantha Frangos ; Cecilia Zumajo-Cardona ; Katharine M Jenike ; Shujun Ou ; Xiaojin Wang ; Yin Peng Lee ; Stella Loke ; Maurizio Rossetto ; Hannah McPherson ; Sebastiano Nigris ; Silivia Moschin ; Damon P. Little ; Manpreet S Katari ; Kranthi Varala ; Sergios-Orestis Kolokotronis ; Barbara A Ambrose ; Larry J Croft ; Gloria M Coruzzi ; Dennis W Stevenson ; Michael C Schatz ; W. Richard McCombie ; Robert A MartienssenSeries Type : Expression profiling by high throughput sequencingOrganism : Wollemia nobilisWe performed gene expression profiling analysis using data obtained from RNA-seq of 3 different tissues: leaf, ovule and pollen
• 🔗 查看原文

9. GSE314341 小鼠早期B细胞记忆储存在B-1细胞区室中，并驱动慢性淋巴细胞白血病样疾病

• ✍️ 作者：未知作者
• 🏷️ 关键词：leukemia、B cell
• 📝 描述：Series Type : Expression profiling by high throughput sequencing ; OtherOrganism : Mus musculusThis SuperSeries is composed of the SubSeries listed below.
• 🔗 查看原文

10. GSE314340 早期 B 细胞记忆储存在小鼠 B-1 细胞区室中，并驱动慢性淋巴细胞白血病样疾病 [bulkVDJ-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：leukemia、B cell
• 📝 描述：Contributors : Niklas Segrén ; Stefano Vergani ; Giorgia Montano ; Joan YuanSeries Type : Expression profiling by high throughput sequencing ; OtherOrganism : Mus musculusThe adult B cell pool is a developmental mosaic comprising short-lived naïve B cells and long-lived memory. Using genetic time-stamping, we previously showed that early life origin (ELO) B cells contributed substantially to the adult mouse immune system. In this study, we found that ELO B cells share a memory-like signature. Notably, B-1 cells exhibited an enrichment for the PD-L2/CD80 double positive (DP) immunophenotype associated with highly differentiated memory. Indeed, microbial antigen exposure in neonates expanded distinct specificities within the DP B-1 cell compartment, identifying the latter as a reservoir of IgM memory. B cell chronic lymphocytic leukemia (CLL) is a disease marked by the accumulation of memory-like B cells. By applying time-stamping to a mouse model for unmutated CLL (U-CLL), we demonstrated that leukemic expansion is driven by B-1 cell clones arising prior to postnatal day 10. Importantly, B-1 cells in mice and man closely mirrored the molecular profile of U-CLL. These results suggest that an age-associated leukemia can originate from ELO B cells.
• 🔗 查看原文

💡 该来源还有 19 条内容，详见 文末

详细内容（全部2条）

1. 科学家表示，这种简单的饮食改变就能改善你的肠道健康。

• ✍️ 作者：未知作者
• 🏷️ 关键词：gut、regex:gut(-?microbiome)?
• 📝 描述：A growing trend called “fibermaxxing” is putting dietary fiber in the spotlight—and for good reason. Fiber plays a powerful role in keeping the body healthy, from supporting digestion and feeding beneficial gut microbes to helping regulate blood sugar and cholesterol. Researchers say getting enough fiber may even lower the risk of conditions like obesity, diabetes, and certain cancers.
• 🔗 查看原文

2. 科学家发现隐藏的脑细胞，可能阻止阿尔茨海默病中tau蛋白的积累

• ✍️ 作者：未知作者
• 🏷️ 关键词：Alzheimer
• 📝 描述：Scientists have uncovered a surprising new role for little-known brain cells called tanycytes that may influence the development of Alzheimer’s disease. These specialized cells appear to help remove toxic tau protein from the brain by transporting it from the cerebrospinal fluid into the bloodstream. When tanycytes become damaged or dysfunctional, tau can accumulate in the brain, a hallmark of Alzheimer’s.
• 🔗 查看原文

• GSE314338 早期 B 细胞记忆储存在小鼠 B-1 细胞区室中，并驱动慢性淋巴细胞白血病样疾病 [bulkRNA-seq]
• GSE277651 胚胎起源决定成人肠道干细胞的功能异质性和肿瘤形成潜能 [scRNA-seq_adult_SI_crypts]
• GSE270074 自噬通过调控WNT/DVL信号通路控制神经元分化
• GSE322752 正常小鼠和模型小鼠睾丸组织的批量 RNA-seq 分析
• GSE318054 上皮细胞对维生素A的感知塑造肠道抗菌防御
• GSE324029 心肌细胞特异性 ADGRF5 通过 Gαq 偶联介导心脏稳态
• GSE323399 GADD45A 将 Hippo-TEAD 信号通路与 HR 阳性乳腺癌中的雌激素反应和管腔特性联系起来
• GSE323362 噬菌体编码的 CasPR 转录沉默多种 CRISPR-Cas 系统 [ChIP-seq]
• GSE322526 PI3K-AKT激活决定致癌RAS诱导的过度转录和复制应激
• GSE322524 PI3K-AKT 激活决定致癌 RAS 诱导的过度转录和复制压力 [ChrRNAseq]
• GSE319705 CD47促进MAPK和上皮间质转化分子程序，从而驱动非小细胞肺癌的促转移表型
• GSE310446 暴露的磷脂酰丝氨酸是 CD8 T 细胞耗竭过程中的一种非经典抑制分子 [scRAN-seq]
• GSE310046 暴露的磷脂酰丝氨酸是 CD8 T 细胞耗竭过程中的一种非经典抑制分子
• GSE305208 研究表明，内聚素辅因子剂量决定了环状结构挤出的速率，使得基因组折叠可调控，但也容易受到基因破坏的影响。
• GSE292338 对健康对照组、体弱者和类风湿性关节炎患者的人类中性粒细胞进行 RNA 测序分析
• GSE291780 YAP诱导心肌细胞进入促更新代谢状态：富集心肌细胞的数据集
• GSE285762 微生物组产生的烟酸控制结肠区域特性和损伤易感性（批量RNA测序）
• GSE274283 线粒体未折叠蛋白反应 (UPRmt) 激活的 iPSC 衍生神经元、小胶质细胞和星形胶质细胞模型的批量 RNA 测序分析。
• GSE271500 血清小RNA测序鉴定出循环microRNA作为冠状动脉疾病的生物标志物