详细内容（前10条）

1. ⭐ GSE310955 上皮趋化因子CCL25整合T细胞发育和肠道稳态

• ✍️ 作者：未知作者
• 🏷️ 关键词：T cell、chemokine、regex:intestin(e|al)
• 📝 描述：Contributors : Yousuke Takahama ; Jie Li ; Mei-Ting Yang ; Mami Matsuda-Lennikov ; Felix Kalle-Youngoue ; Aya Ushio ; Kenta Kondo ; Meleca Gluckman ; Kana Bando ; Takaya Abe ; Kensuke Takada ; Michael C Kelly ; Felipe C Martinez ; Chuan WuSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusThe chemokine receptor CCR9 regulates thymic colonization of T-progenitors and intestinal accumulation of TCRgd+ intraepithelial cells (IELs). CCR9-ligand chemokine CCL25 is expressed predominantly in the thymus and the small intestine. By engineering tissue-specific CCL25-deficient mice, we demonstrate that CCL25 locally produced by thymic and intestinal epithelial cells individually supports developing T cell localization in the thymus and TCRgd+ IEL accumulation in the small intestine, respectively. More interestingly, our results reveal that thymic epithelial CCL25 facilitates T-cell positive selection in the thymic cortex. We further find that intestinal epithelial CCL25 promotes nutrient sensing in the small intestine. These results indicate that epithelial CCL25 directs thymic T-cell development and intestinal homeostasis in a tissue-specific paracrine manner.
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2. ⭐ GSE296425 染色质结构重编程揭示乳腺癌中新的表观遗传依赖性 [RNA-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、RNA-seq、epigenetic
• 📝 描述：Contributors : Liliana Garcia-Martinez ; Mengsheng Zha ; Rodrigo L Borges ; Tong Liu ; Gretter González-Blanco ; Hao Zhu ; Zheng Wang ; Lluis MoreySeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensChromatin architecture plays a key role in development and cancer, yet most studies lack mechanistic depth due to widespread epigenomic remodeling. To address this, we tracked chromatin structure dynamics during the progression of endocrine resistance in ER+ breast cancer using Hi-C, chromatin accessibility, epigenomic, and transcriptomic profiling. We uncovered a critical role for H3K9 methylation and the demethylase KDM4C in driving proliferation of cells fated to become resistant through a non-genomic estrogen-mediated mechanism. These findings highlight the mechanistic contribution of chromatin regulation in therapy resistance and offer a blueprint for studying similar processes in cancer, development, and cell fate decisions.
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3. ⭐ GSE296424 染色质结构重编程揭示乳腺癌中新的表观遗传依赖性 [Hi-C]

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、Hi-C、epigenetic
• 📝 描述：Contributors : Liliana Garcia-Martinez ; Mengsheng Zha ; Rodrigo L Borges ; Tong Liu ; Gretter González-Blanco ; Hao Zhu ; Zheng Wang ; Lluis MoreySeries Type : OtherOrganism : Homo sapiensChromatin architecture plays a key role in development and cancer, yet most studies lack mechanistic depth due to widespread epigenomic remodeling. To address this, we tracked chromatin structure dynamics during the progression of endocrine resistance in ER+ breast cancer using Hi-C, chromatin accessibility, epigenomic, and transcriptomic profiling. We uncovered a critical role for H3K9 methylation and the demethylase KDM4C in driving proliferation of cells fated to become resistant through a non-genomic estrogen-mediated mechanism. These findings highlight the mechanistic contribution of chromatin regulation in therapy resistance and offer a blueprint for studying similar processes in cancer, development, and cell fate decisions.
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4. ⭐ GSE296422 染色质结构重编程揭示乳腺癌中新的表观遗传依赖性 [ChIP-seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、ChIP-seq、epigenetic
• 📝 描述：Contributors : Liliana Garcia-Martinez ; Mengsheng Zha ; Rodrigo L Borges ; Tong Liu ; Gretter González-Blanco ; Hao Zhu ; Zheng Wang ; Lluis MoreySeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Homo sapiensChromatin architecture plays a key role in development and cancer, yet most studies lack mechanistic depth due to widespread epigenomic remodeling. To address this, we tracked chromatin structure dynamics during the progression of endocrine resistance in ER+ breast cancer using Hi-C, chromatin accessibility, epigenomic, and transcriptomic profiling. We uncovered a critical role for H3K9 methylation and the demethylase KDM4C in driving proliferation of cells fated to become resistant through a non-genomic estrogen-mediated mechanism. These findings highlight the mechanistic contribution of chromatin regulation in therapy resistance and offer a blueprint for studying similar processes in cancer, development, and cell fate decisions.
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5. GSE328488 BARX1作为高级别浆液性卵巢癌新型大网膜转移生物标志物的生物信息学分析

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、bioinformatics
• 📝 描述：Contributors : Wen Hu ; Shaolin MaSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensOmentum is one of the most preferred metastatic sites in patients with high-grade serous ovarian cancer, while the underlying mechanisms remain poorly understood. Here, we aim to identify biomarkers related to omental metastasis in high-grade serous ovarian cancer. In this study, we constructed a risk model comprising FAM9A, BARX1, SNORA79, CIDEA, FABP4, and TRARG1 as risk factors for omental metastasis using the machine-learning methods LASSO and Random Forest. And we identified BARX1 (BarH-like homeobox 1) as the gene with the highest predictive value. Further studies validated the high expression of BARX1 across pan-cancers and its association with immune cell infiltration using CIBERSORT analysis. Our research underscores the crucial role of BARX1 in OC and highlights its potential as a therapeutic target.
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6. GSE326388 Ngn3 通过转录和表观遗传机制重编程晚期视网膜祖细胞 [ATAC-Seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：ATAC-seq、epigenetic
• 📝 描述：Contributor : Shuyi ChenSeries Type : Genome binding/occupancy profiling by high throughput sequencingOrganism : Mus musculusNgn family transcription factors exhibit potent capacity to promote neurogenesis under diverse cellular context. Using in vivo electroporation on newbone mouse pups retinas, we demonstrate that overexpression of Ngn3 (Ngn3-OE) reprogramms the differentiation competent status of late retinal progenitor celle (RPC), promoting rod photoreceptor differentiation while repressing the fates of Müller glial cell and other interneurons. Herein, we perform RNA-seq and ATAC-seq to investigate the underlying molecular mechanism by which Ngn3 reprogramms late RPCs.
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7. GSE326387 Ngn3 通过转录和表观遗传机制重编程晚期视网膜祖细胞 [RNA-Seq]

• ✍️ 作者：未知作者
• 🏷️ 关键词：RNA-seq、epigenetic
• 📝 描述：Contributor : Shuyi ChenSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusNgn family transcription factors exhibit potent capacity to promote neurogenesis under diverse cellular context. Using in vivo electroporation on newbone mouse pups retinas, we demonstrate that overexpression of Ngn3 (Ngn3-OE) reprogramms the differentiation competent status of late retinal progenitor celle (RPC), promoting rod photoreceptor differentiation while repressing the fates of Müller glial cell and other interneurons. Herein, we perform RNA-seq and ATAC-seq to investigate the underlying molecular mechanism by which Ngn3 reprogramms late RPCs.
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8. GSE317591 小分子 MBD2 通路抑制剂 KCC-07 抑制乳腺癌细胞活力

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、pathway
• 📝 描述：Contributors : Niaz Mahmood ; Olivia Dumas ; Ani Arakelian ; Moshe Szyf ; Shafaat A RabbaniSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusElevated expression of the DNA methylation reader methyl-CpG-binding domain protein 2 (MBD2) reprograms the transcriptional landscape of cancer cells to promote proliferation and invasion. Despite its emerging importance in cancer biology, pharmacological targeting of MBD2 to treat cancer is underexplored because of the presence of intrinsically disordered regions, which confound drug discovery. Here, we pharmacologically target MBD2 using KCC-07, a small-molecule inhibitor that blocks its DNA-binding ability, to evaluate its therapeutic potential in well-established in vitro and in vivo models of breast cancer. We found that KCC-07 administration caused a dose-dependent decrease in proliferative and clonogenic survival capabilities of mouse PyMT-R221A and E0771 breast cancer cells and substantially reduced their invasiveness in vitro. The anti-cancer effects of KCC-07 were further validated in vivo, where it markedly reduced the growth of orthotopic PyMT-R221A primary breast tumors in immunocompetent mice compared to the controls. In contrast, KCC-07 treatment neither prevented nor reduced lung colonization by PyMT-R221A cells in an experimental lung colonization model. Biochemical analyses of blood from KCC-07-treated mice showed no hepatotoxicity or nephrotoxicity. Transcriptomic analyses revealed that KCC-07 treatment upregulated the p53-associated gene expression program, which likely mediates its anti-cancer effects. Overall, our findings suggest that KCC-07, with its high selectivity, could be a promising therapeutic modality for treating primary tumors with elevated MBD2 expression.
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9. GSE272805 tsRNA测序分析FFPE组织，揭示i-tRF-Gly-GCC可作为结直肠癌的生物标志物

• ✍️ 作者：未知作者
• 🏷️ 关键词：cancer、sequencing
• 📝 描述：Contributors : Xiaoyun Wang ; Yu Wan ; Yuting Jiao ; Anrui LiuSeries Type : Expression profiling by high throughput sequencingOrganism : Homo sapiensColorectal cancer (CRC) remains one of the most prevalent and deadly malignancies worldwide, requiring reliable biomarkers for detection. This study profiled tRNA-derived small RNAs in CRC tissues, identifying 1051 differentially expressed tsRNAs. Notably, i-tRF-Gly-GCC was significantly elevated in CRC tissues and patient sera compared to controls, with ROC analysis yielding an AUC > 0.7, underscoring its diagnostic potential. Weighted Gene Co-expression Network Analysis (WGCNA) revealed that i-tRF-Gly-GCC’s target genes, including RAC2, which was downregulated in the COAD and READ datasets, are closely related to CRC. Gene Ontology and KEGG pathway analyses further linked i-tRF-Gly-GCC to cancer-related processes. Functional experiments in HCT-116 cells demonstrated that i-tRF-Gly-GCC enhances cell proliferation and migration. These results highlight i-tRF-Gly-GCC as a novel non-invasive biomarker for CRC detection and a potential therapeutic target, advancing our understanding of tsRNA-mediated regulation in CRC and paving the way for clinical applications.
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10. GSE329088 STING 作为未折叠蛋白反应的调节器，在炎症期间调节抗原呈递。

• ✍️ 作者：未知作者
• 🏷️ 关键词：antigen、inflammation
• 📝 描述：Contributors : Michel Desjardins ; Ahmed M Fahmy ; Ali Ahmadi ; Joël Lanoix ; Tyler Cannon ; Moustafa N Elemeery ; Camberly Hernandez Paredes ; Benoit Barrette ; Eric Bonneil ; Yong Zhong Xu ; Maha Ibrahim ; Guillermo Arango-Duque ; Eric O Audemard ; Sébastien Lemieux ; Eric Chevet ; Erwin Schur ; Philippe Pierre ; Samantha Gruenheid ; Pierre Thibault ; Heidi M McBrideSeries Type : Expression profiling by high throughput sequencingOrganism : Mus musculusA growing body of evidence supports the contribution of the long-lasting adaptive immune system in Parkinson’s disease (PD). We showed that the PD-associated protein PINK1 negatively regulates the presentation of mitochondrial antigens (MitAP) on MHC-I molecules. In vivo evidence indicated that MitAP activation in mice, in the absence of PINK1, led to cytotoxic CD8+ T cell stimulation and severe motor impairments, reversible by L-DOPA. We show here that following TLR4 activation, MitAP is engaged through a pathway involving cGAS-STING, which acts as a rheostat to dampen the unfolded protein response (UPR). Without STING, the stress response is amplified, leading to a translational attenuation that inhibits the expression of XBP1s, a transcription factor required for MitAP. STING activity also regulates the repertoire of peptides displayed at the cell surface during inflammation, highlighting a potential role in immunosurveillance. These findings establish STING and the UPR as key immune regulators targetable for therapeutic intervention during autoimmune diseases and PD.
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1. 无需参考序列的RNA测序揭示了隐藏的转录组特征

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing、transcriptome
• 📝 描述：RNA sequencing using reference-free analysis uncovers novel transcripts and hidden gene features, expanding discovery beyond traditional genome-based approaches…
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2. RNA测序揭示了软骨发育过程中Sox9的动态调控

• ✍️ 作者：未知作者
• 🏷️ 关键词：sequencing
• 📝 描述：RNA sequencing reveals how Sox9 dynamically regulates gene expression during cartilage development, highlighting distinct cell populations and shifting genetic programs…
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3. 高级产品经理 | RNA-seq

• ✍️ 作者：未知作者
• 🏷️ 关键词：RNA-seq
• 📝 描述：Plasmidsaurus is hiring a Senior Product Manager who will define, own, and scale our Transcriptomics portfolio, including our recently launched and rapidly growing RNA-seq service…
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• GSE296423 染色质结构重编程揭示乳腺癌中新的表观遗传依赖性 [Cut&Run]
• GSE296037 脆弱的核小体与 RNA 聚合酶 II 的转录激活相关 [RNA-seq]
• GSE328711 人类混合表型急性白血病小鼠模型的多组学研究 [RRBS]
• GSE328593 人类混合表型急性白血病小鼠模型的多组学研究
• GSE328550 巨噬细胞-成纤维细胞相互作用在体外影响伤口修复信号传导
• GSE328588 高位胸段脊髓损伤对心脏转录组的影响
• GSE295819 新型红系特异性调控元件对 PKLR 基因的转录激活 [ChIP-Seq]
• GSE295702 人类指甲单细胞图谱鉴定出 KRT19+ NSCs 和 SOX2/SOX9-WNT 调控的分化
• GSE295682 Prevotella disiens 通过 p38 MAPK 介导的 WNT 抑制和色氨酸代谢紊乱破坏子宫内膜功能
• GSE295591 乳酸和RNA剪接因子的乳酸化触发代谢密码逆转中心法则，从而调节全能性发育
• GSE324273 E3泛素连接酶MARCHF6的缺失会改变肝脏脂质代谢并导致自发性肝脂肪变性