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1. ⭐ GSE301351 单细胞转录组定义了人类胃肠道间质瘤 (GIST) 中效应 Vd1 gd T 细胞依赖性抗肿瘤免疫 [10X]

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、immunity、T cell、single-cell、10x、transcriptome
• 📝 描述：Contributors : Shan Zeng ; Jonathan H Sussman ; Yuntian Fu ; Juan Esteban Perez ; Jiazhen Rong ; Katherine Tardy ; Hyunjee Kwak ; Taylor Hartlein ; Kevin Do ; Ferdinando Rossi ; Jennifer Q Zhang ; Ronald P DeMatteoSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensGamma-delta (gd) T cells bridge innate and adaptive immunity and have the ability to recognize diverse tumor-associated antigens. However, the function of gd T cells in human gastrointestinal stromal tumor (GIST), the most common type of human sarcoma, is unknown. Here, we combined single-cell RNA-seq (scRNA-seq), immunophenotyping, and next-generation T-cell receptor (TCR) sequencing of sorted human circulating and intratumoral gd T cells to query their impact on tumor immunity in GIST. We identified major subtypes of Vd1 and Vd2 cells, which were more differentiated in tumors. The effector Vd1 subset exhibited higher expression of cytotoxicity-related transcription and exhaustion molecules, and highly expressed the key transcription factors TBX21 and EOMES. Tyrosine kinase inhibitor (TKI) treatment induced the tumor-enriched Vd1 cells to undergo profound phenotype differentiation, alternative clonal expansion, and TCR diversity. Upon antigen exposure, the Vd1 subset maintained enhanced cytotoxicity properties through an innate-effector phenotype and adaptive-like activation. In a genetically engineered murine GIST model, combination therapy of imatinib with a checkpoint inhibitor increased the adaptive immune response of gd T cell subsets in GIST. Collectively, our findings highlight the importance of Vd1-dependent anti-tumor immunity and open the possibility of specific targeting of gd T subsets based on V gene usage for immunotherapy of GIST.
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2. ⭐ GSE300283 单细胞转录组定义了人类胃肠道间质瘤 (GIST) 中效应 Vd1 gd T 细胞依赖性抗肿瘤免疫

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、immunity、T cell、single-cell、transcriptome
• 📝 描述：Contributors : Shan Zeng ; Jonathan H Sussman ; Yuntian Fu ; Juan Esteban Perez ; Jiazhen Rong ; Katherine Tardy ; Hyunjee Kwak ; Taylor Hartlein ; Kevin Do ; Ferdinando Rossi ; Jennifer Q Zhang ; Ronald P DeMatteoSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusGamma-delta (gd) T cells bridge innate and adaptive immunity and have the ability to recognize diverse tumor-associated antigens. However, the function of gd T cells in human gastrointestinal stromal tumor (GIST), the most common type of human sarcoma, is unknown. Here, we combined single-cell RNA-seq (scRNA-seq), immunophenotyping, and next-generation T-cell receptor (TCR) sequencing of sorted human circulating and intratumoral gd T cells to query their impact on tumor immunity in GIST. We identified major subtypes of Vd1 and Vd2 cells, which were more differentiated in tumors. The effector Vd1 subset exhibited higher expression of cytotoxicity-related transcription and exhaustion molecules, and highly expressed the key transcription factors TBX21 and EOMES. Tyrosine kinase inhibitor (TKI) treatment induced the tumor-enriched Vd1 cells to undergo profound phenotype differentiation, alternative clonal expansion, and TCR diversity. Upon antigen exposure, the Vd1 subset maintained enhanced cytotoxicity properties through an innate-effector phenotype and adaptive-like activation. In a genetically engineered murine GIST model, combination therapy of imatinib with a checkpoint inhibitor increased the adaptive immune response of gd T cell subsets in GIST. Collectively, our findings highlight the importance of Vd1-dependent anti-tumor immunity and open the possibility of specific targeting of gd T subsets based on V gene usage for immunotherapy of GIST.
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3. ⭐ GSE341413 布氏拟管虫肠道的单细胞RNA测序图谱

• ✍️ 作者：未知作者
• 🏷️ 关键词：RNA-seq、single-cell、regex:intestin(e|al)
• 📝 描述：Contributors : Hanyu Wang ; Wencong Long ; Xuebing Han ; Wenli Xin ; Yaojun YangSeries Type : Expression profiling by high throughput sequencingOrganism : Cyrtotrachelus buquetiSingle-cell RNA sequencing was performed on gut tissues of Cyrtotrachelus buqueti, including larval anterior midgut, larval posterior midgut, larval hindgut, and adult hindgut, to characterize intestinal cell-type composition and transcriptomic heterogeneity associated with bamboo digestion.
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4. GSE342540 储存调控钙信号调节剂可改善基于树突状细胞的抗黑色素瘤疫苗

• ✍️ 作者：未知作者
• 🏷️ 关键词：vaccine、dendritic cell
• 📝 描述：Contributors : María Cruz Cobo ; Laure Garnier ; Marion Mandavit ; Maral Azam ; Isabelle Dentand Quadri ; Julien Angelillo ; Dale Brighouse ; Mathilde Bausart ; Valérie Dutoit ; Achille Schild ; Valeria M Oliva ; Martin Lochner ; Bénédicte Manoury ; Stéphanie Hugues ; Paula Nunes-HaslerSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensDendritic cells (DCs) are crucial for eliciting cytotoxic CD8+ T cell responses against intracellular pathogens, viruses and cancer. DC-based vaccines can stimulate both cytotoxic and humoral immunity, as well as memory against cancer. However, efficacy has remained low, leaving room for improvement. Our previous work using conditional Stim1 knock-out mice highlighted the importance of store-operated calcium entry (SOCE) in promoting DC migration, phagosome maturation and DC_x0002_driven CD8+ T cell responses. Yet its potential as a target to improve DC-mediated immune stimulation remains incompletely understood. We hypothesized that transient pharmacological modulation of SOCE signaling could boost DC-mediated T cell activity. Here, a targeted screen of SOCE modulators identified two compounds, thapsigargin (Tg) and para-bromo-2-aminoethyl diphenylborinate (pBr), that improved T cell proliferation, IL-2, and IFNG secretion in mouse and human DC:T cell co-cultures. In a B16 melanoma model, DC vaccines boosted with either compound reduced tumor growth by 50% and doubled the median survival benefit, increasing infiltration of activated CD8+ T cells, CD4+ T, natural killer, CD80+ B cells, and M1 macrophages. Neither compound affected the surface expression of MHC-I-peptide complexes, MHC-II, CD86, nor DC migration, although thapsigargin promoted antigen retention. Bulk RNA sequencing revealed instead broad changes in pathways regulating secretion, where cytokine array analysis confirmed both compounds boosted secretion of several immunomodulatory factors. Together, this work identifies SOCE as a druggable axis that may be exploited to boost DC-mediated T cell activation and improve DC-based anticancer therapies.
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5. GSE342939 衰老活化的幼稚B细胞促进抗瓜氨酸化抗原T细胞反应和向临床类风湿性关节炎的转变

• ✍️ 作者：未知作者
• 🏷️ 关键词：T cell、antigen
• 📝 描述：Contributors : Xiaohao Wu ; Mengrui ZhangSeries Type : Other ; Expression profiling by high throughput sequencingOrganism : Homo sapiensThis study profiles peripheral B cells from individuals at risk for rheumatoid arthritis (RA), including ACPA-positive converters to clinical RA, ACPA-positive non-converters, and healthy controls, at paired pre and post time points. Using 10x Genomics Chromium single-cell gene expression (scRNA-seq), antibody-derived tag / CITE-seq surface protein profiling, and B cell receptor (BCR) V(D)J sequencing, we characterize activated naive B cell states associated with progression toward clinical RA.
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6. GSE330029 代谢的时间变化引导衰老和多发性硬化症中少突胶质细胞前体细胞的动态变化 [BulkRNAseq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、metabolism
• 📝 描述：Contributors : Tess Dierckx ; Sarah E Wilson ; Rebecca Buchanan ; Themistoklis M Tsarouchas ; Yuhsiang Cheng ; Maria Sacconi Nunez ; Kelly Strickland ; Dena Kumsa ; Yohan Auguste ; Sam Vanherle ; Sander Bouwman ; Daniela Rojo ; Louisa Dal Cengio ; Celia Lerma Martin ; Yassene Mohammed ; Lucas Schirmer ; Jeroen Bogie ; Bart Eggen ; Erin M GibsonSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensImpaired oligodendrocyte precursor cell (OPC) differentiation limits myelin renewal in aging and contributes to multiple sclerosis (MS) progression. How aging drives OPC deficits remains incompletely understood. We find dysregulation of genes associated with the circadian clock, including Bmal1, and metabolism in aged compared with young OPCs. Targeted loss of Bmal1 in OPCs drives metabolic dysfunction, leading to cellular senescence and impaired dynamics. OPC proliferation and differentiation occur at different rates throughout the day in young adult mice and become disrupted with aging. Chronotherapeutic targeting of BMAL1-controlled sirtuin signaling restores Bmal1-disrupted OPC dynamics after demyelination via sirtuin 2 (Sirt2)-dependent mechanisms. Induced pluripotent stem cell (iPSC)-derived OPCs from MS patients and MS lesion oligodendroglia recapitulate BMAL1 and SIRT2 disruptions. These findings establish BMAL1 as a key regulator of OPC energy metabolism, sirtuin homeostasis, and senescence. We anticipate that this work will provide a foundation for future studies investigating the interconnected roles of aging, circadian disruption, and myelin biology.
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7. GSE300591 代谢的时间变化引导衰老和多发性硬化症中少突胶质细胞前体细胞的动态变化

• ✍️ 作者：未知作者
• 🏷️ 关键词：aging、metabolism
• 📝 描述：Contributors : Erin M Gibson ; Tess Dierckx ; Sarah E Wilson ; Maria Sacconi Nunez ; Dena Kumsa ; Daniela Rojo; ; Yohan Auguste ; Sam Vanherle ; Sander Bouwman ; Louisa Dal Cengio ; Kelly Strickland ; Celia Lerma-Martin ; Lucas Schirmer ; Jeroen Bogie ; Bart Eggen ; Yassene Mohammed ; Yuhsiang Cheng ; Themistoklis M Tsarouchas ; Rebecca BuchananSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusImpaired oligodendrocyte precursor cell (OPC) differentiation limits myelin renewal in aging and contributes to multiple sclerosis (MS) progression. How aging drives OPC deficits remains incompletely understood. We find dysregulation of genes associated with the circadian clock, including Bmal1, and metabolism in aged compared with young OPCs. Targeted loss of Bmal1 in OPCs drives metabolic dysfunction, leading to cellular senescence and impaired dynamics. OPC proliferation and differentiation occur at different rates throughout the day in young adult mice and become disrupted with aging. Chronotherapeutic targeting of BMAL1-controlled sirtuin signaling restores Bmal1-disrupted OPC dynamics after demyelination via sirtuin 2 (Sirt2)-dependent mechanisms. Induced pluripotent stem cell (iPSC)-derived OPCs from MS patients and MS lesion oligodendroglia recapitulate BMAL1 and SIRT2 disruptions. These findings establish BMAL1 as a key regulator of OPC energy metabolism, sirtuin homeostasis, and senescence. We anticipate that this work will provide a foundation for future studies investigating the interconnected roles of aging, circadian disruption, and myelin biology.
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8. GSE342477 具有抗肿瘤能力的、可与人和小鼠 TNFR2 反应的拮抗抗体的特性分析

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、antibody
• 📝 描述：Contributor : Yang GaoSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusAccumulating evidence indicate that tumor necrosis factor receptor type II (TNFR2) is a promising target for cancer immunotherapy, but the species-restricted reactivity of anti-human TNFR2 antibodies limits their mechanistic study in mouse tumor models.
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9. GSE342455 人类乳腺癌共培养模型中药理学抑制SYK后肿瘤相关巨噬细胞的转录组分析

• ✍️ 作者：未知作者
• 🏷️ 关键词：tumor、cancer
• 📝 描述：Contributors : Gonçalo Trindade ; Giacomo Domenici ; Miguel Pinto ; Viviana Correia ; Sofia Batalha ; Nádia Duarte ; Angelina S Palma ; Inês A Isidro ; Catarina BritoSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensTumor-associated macrophages contribute to immunosuppression in breast cancer. To investigate the transcriptional effects of pharmacological SYK inhibition, primary human monocytes from three healthy donors were co-cultured with BT474 breast cancer cells for 7 days in the presence of vehicle or 0.2 µM R406. CD45-positive tumor-associated macrophages were isolated by fluorescence-activated cell sorting and analyzed by bulk RNA sequencing. The dataset enables paired analysis of R406-induced transcriptional remodeling across independent donors.
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10. 利用立体测序技术对布氏拟管虫幼虫完整肠道进行空间转录组分析（GSE341412）。

• ✍️ 作者：未知作者
• 🏷️ 关键词：spatial、regex:intestin(e|al)
• 📝 描述：Contributors : Hanyu Wang ; Wencong Long ; Xuebing Han ; Wenli Xin ; Yaojun YangSeries Type : OtherOrganism : Cyrtotrachelus buquetiStereo-seq was used to generate a spatial transcriptomic profile of one complete larval intestine of Cyrtotrachelus buqueti. The sample was collected from Leshan, Sichuan, China in July 2023. The processed data file CY_A02600D6.h5ad contains the processed spatial transcriptomic expression matrix and associated annotations.
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1. 维生素C或许可以抗癌——但并非像科学家们曾经认为的那样。

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer
• 📝 描述：Linus Pauling was widely mocked for claiming that vitamin C could fight cancer, especially after trials using vitamin C pills showed no benefit. Researchers now know that intravenous vitamin C reaches vastly higher concentrations and can behave more like an experimental cancer drug than an ordinary supplement. Early studies suggest it may damage vulnerable cancer cells, reduce treatment side effects, and possibly improve outcomes for some patients.
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• GSE338012 浮萍相关细菌对多根浮萍宿主生长、生物量组成和转录组反应的菌株特异性调控
• GSE342791 受发育启发的方法从人类多能干细胞衍生出功能性和可移植的唾液腺类器官 [scRNA-Seq]
• GSE342790 受发育启发的方法从人类多能干细胞衍生出功能性和可移植的唾液腺类器官 [RNA-Seq]
• GSE334689 m6Am-seq 分析巨噬细胞特异性 Pcif1 敲除小鼠在实验性结肠炎中的表达谱
• GSE324562 单周期重组VSV平台尼帕病毒疫苗对非人灵长类动物的亨德拉病毒具有交叉保护作用
• GSE342363 多平台人类线粒体DNA甲基化重新评估揭示了与技术伪影一致的信号
• GSE337190 CAR-NKT 细胞通过靶向过度炎症的巨噬细胞诱导低细胞因子释放综合征，而 GM-SCF 抑制可减轻这种综合征。
• GSE332623 不同年龄组特应性皮炎的免疫学差异：来自单细胞多组学的见解
• GSE329758 D3多巴胺受体提示纹状体神经元亚型与喹硫平的厌恶效应有关
• GSE326791 CAR-NKT细胞通过靶向过度炎症的巨噬细胞诱导低细胞因子释放综合征，而GM-SCF抑制可减轻这种综合征。
• GSE316746 靶向 CDK12/细胞周期蛋白 K 诱导由 P-TEFb 介导的基因激活程序 [ChIP-seq]
• GSE308077 分析 KSHV 感染细胞的 RNA 结合蛋白质组，揭示了病毒通过 RNA 依赖性相互作用劫持宿主信号的策略。
• GSE109563 MITF对PD-L1的黑素细胞特异性调控赋予对紫外线诱变的免疫耐受性
• GSE342954 BRANCHED1 在腋芽发育中作为核因子 Y 依赖性表观遗传调控的调节器
• GSE342462 利用 SdFFF 和 UHF-DEP 对结直肠癌干细胞样细胞状态进行整合转录组学和生物电学分析
• GSE304706 巨噬细胞中持续的内质网应激加剧了与年龄相关的炎症和感染易感性
• GSE285471 APOE基因型改变小胶质细胞和星形胶质细胞对衰老反应的基因特征
• GSE274335 RNA-Seq 分析 LPCAT3 敲低对原代人子宫内膜间质细胞 (HESC) 的影响。
• GSE274275 NSUN4 缺失对 NCI-H226 细胞基因表达的影响 [RNA-seq]
• GSE272020 液泡分选蛋白AoVps18通过调控寡孢节丛孢菌（Arthrobotrys oligospora）中液泡、线粒体和脂滴的形态来调控菌丝生长、次级代谢和陷阱形成。
• GSE237489 RNA-seq 用于检测经脂多糖 (LPS) 刺激/未刺激的 iPSC 衍生巨噬细胞。
• GSE222656 RNA-seq 和 Cut & Tag 分析小鼠 2 细胞胚胎，其中核纤层蛋白 B1 从核膜解离受到抑制