Suppressing recurrence in Sonic Hedgehog subgroup medulloblastoma using the OLIG2 inhibitor CT-179 by Yuchen Li, Chaemin Lim, Taylor Dismuke, Daniel S. Malawsky, Sho Oasa, Zara C. Bruce, Carolin Offenhäuser, Ulrich Baumgartner, Rochelle C. J. D’Souza, Stacey L. Edwards, Juliet D. French, Lucy S. H. Ock, Sneha Nair, Haran Sivakumaran, Lachlan Harris, Andrey P. Tikunov, Duhyeong Hwang, Coral Del Mar Alicea Pauneto, Mellissa Maybury, Timothy Hassall, Brandon Wainwright, Santosh Kesari, Gregory Stein, Michael Piper, Terrance G. Johns, Marina Sokolsky-Papkov, Lars Terenius, Vladana Vukojević, Leon F. McSwain, Timothy R. Gershon, Bryan W. Day

“…Single cell transcriptomic studies (scRNA-seq) confirm that CT-179 increases differentiation and implicate Cdk4 up-regulation in maintaining proliferation during treatment. …”
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Airway microbiota dysbiosis and metabolic disorder in ozone and PM2.5 co-exposure induced lung inflammatory injury in mice by Lin Yang, Fei Xu, Shuaiqi Zhao, Yuling Zeng, Qiong Wu, Ling Zhang, Saige Shi, Fengquan Zhang, Juan Li, Zhen An, Huijun Li, Hui Wu, Jie Song, Weidong Wu

“…After last exposure, bronchoalveolar lavage fluids (BALF) were collected for inflammatory biomarker measurement, 16S rRNA sequencing and metabolite profiling. Lung tissues were processed for histological examination. …”
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Impact of hepatic steatosis on the efficacy of antiviral treatment for chronic hepatitis B and the establishment of predictive model: a cohort study by Guanghui Ren, Kaining Jia, Shi Yin, Yunpeng Guan, Qingwei Cong, Ying Zhu

“…Results At weeks 24 and 48, the CHB + MASLD group displayed a higher HBsAg response rate than the CHB group (24 weeks: 11.5% vs. 3.8%, p = 0.026; 48 weeks: 24.4% vs. 8.4%, p = 0.001). The pgRNA response was also higher in the CHB + MASLD group at both time points (24 weeks: 30.9% vs. 19.7%, p = 0.163; 48 weeks: 48.8% vs. 28.3%, p = 0.049). …”
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Helicobacter pylori SlyD stabilizes TPT1 via hnRNPK and enhances OCT1-mediated CDX2 transcriptional activation to drive gastric intestinal metaplasia by Shuwen Zheng, Yingying Wang, Chuxuan Ni, Rui Guo, Xunan Qiu, Jijun Chen, Lu Wang, Xiaohu Sun, Moye Chen, Yunen Liu, Yuan Yuan, Yuehua Gong

“…Real-time qPCR and western blot were subsequently used to assess the expression levels of hnRNPK, TPT1, OCT1, and GIM markers. RNA sequencing was employed to identify differentially expressed genes associated with H. pylori SlyD infection. …”
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A Comprehensive Dataset on Microbiome Dynamics in Rheumatoid Arthritis from a Large-Scale Cohort Study by Jing Li, Jun Xu, Jiayang Jin, Congmin Xu, Yuzhou Gan, Yifan Wang, Ruiling Feng, Wenqiang Fan, Yingni Li, Xiaozhen Zhao, Yucui Li, Shushi Gong, Linchong Su, Yueming Cai, Lianjie Shi, Xiaolin Sun, Yang Xiang, Qingwen Wang, Ru Li, Jinxia Zhao, Yulan Liu, Junjie Qin, Zhanguo Li, Jing He

“…This dataset is enriched with detailed clinical metadata, including patient profiles, treatment histories, and environmental factors, providing a comprehensive “disease exposome” for RA. By integrating 16S rRNA gene sequencing with demographic, clinical, and environmental data, we offer a valuable resource to explore the complex relationships between gut microbiota and RA progression. …”
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Phase II trial of nab-paclitaxel plus ramucirumab in combination with nivolumab for unresectable advanced or recurrent gastric cancer after progression on first-line treatment incl... by Hidekazu Hirano, Naoki Takahashi, Yusuke Amanuma, Nobumi Suzuki, Daisuke Takahari, Takeshi Kawakami, Chie Kudo-Saito, Kengo Nagashima, Narikazu Boku, Ken Kato, Hirokazu Shoji

“…., flow cytometry, DNA sequencing [DNAseq]/RNA sequencing [RNAseq]). Recruitment started in November 2022. …”
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Standardization and validation of a novel reverse transcriptase polymerase chain reaction method for detecting virulent strains of the infectious bursal disease virus by Vladimir Longa-Bobadilla, Phillip Ormeño-Vásquez, Manuel Criollo-Orozco, Luis Tataje-Lavanda, Katherine Huamán-Gutierrez, Ángela Montalván, Mirko Zimic, Manolo Fernández-Sanchez, Manolo Fernández-Díaz

“…Then, a pathogenic strain of IBDV was propagated in embryonated chicken eggs, and the viral RNA was extracted. Finally, the conditions for this novel RT-PCR were evaluated using a commercial kit and the newly designed primers. …”
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T-cell receptor beta variable gene polymorphism predicts immune-related adverse events during checkpoint blockade immunotherapy by Linghua Wang, Siqing Fu, Aung Naing, Funda Meric-Bernstam, Carl Morrison, Joud Hajjar, Mingxuan Xu, Anas Alshawa, Bettzy Stephen, Ying Yuan, Jordi Rodon Ahnert, Abdulrazzak Zarifa, Shrutii Sarda, Timothy Looney, Sapna P Patel, Geoffrey M Lowman, Dzifa Yawa Duose, Jeffrey M Conroy, Evan Kwiatkowski

“…However, the repetitive nature of the TCRB locus and incomplete genome assembly has hampered the evaluation of TRBV polymorphisms in the past.Patients and methods We used a novel method for long-amplicon next generation sequencing of rearranged TCRB chains from peripheral blood total RNA to evaluate the link between TRBV polymorphisms and irAEs in patients treated with immunotherapy for cancer. …”
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Treating drug-resistant tuberculosis in an era of shorter regimens: Insights from rural South Africa by J-D K Lotz, J Porter, H Conradie, T Boyles, B Gaunt, S Dimanda, D Cort

“…Injectables (adjusted odds ratio (aOR) 3.00, 95% confidence interval (CI) 1.48 - 6.09), bedaquiline (aOR 3.16, 95% CI 1.36 - 7.35), increasing age (aOR 0.97, 95% CI 0.95 - 0.99) and HIV viraemia defined as final HIV-RNA viral load >1 000 copies/mL (aOR 0.16, 95% CI 0.07 - 0.37) were all significantly and independently associated with treatment success. …”
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Microbial community variations in adult Hyalomma dromedarii ticks from single locations in Saudi Arabia and Tunisia by Myriam Kratou, Apolline Maitre, Apolline Maitre, Apolline Maitre, Lianet Abuin-Denis, Lianet Abuin-Denis, Rachid Selmi, Hanène Belkahia, Abdullah D. Alanazi, Hattan Gattan, Hattan Gattan, Bassam M. Al-Ahmadi, Abdullah F. Shater, Lourdes Mateos-Hernández, Dasiel Obregón, Lilia Messadi, Alejandro Cabezas-Cruz, Mourad Ben Said, Mourad Ben Said

“…Despite prior studies on its microbiota, the effects of geographic origin and sex on microbial community structure and functional stability remain poorly understood.MethodsTo address this, we characterized the bacterial microbiota of H. dromedarii ticks collected from camels in Tunisia (TUN) and Saudi Arabia (SA) using 16S rRNA gene sequencing, microbial network analysis, and metabolic pathway prediction.ResultsOur findings indicate a dominant presence of Francisella endosymbionts in Tunisian ticks, suggesting adaptive roles of H. dromedarii ticks in arid ecosystems. …”
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DNGR-1 limits Flt3L-mediated antitumor immunity by restraining tumor-infiltrating type I conventional dendritic cells by Ignacio Melero, Ruth Conde-Garrosa, David Sancho, Santos Mañes, Alfonso R Sanchez-Paulete, Francisco J Cueto, Carlos del Fresno, Paola Brandi, Alexis J. Combes, Elena Hernández-García, Michel Enamorado, Christian P Bromley, Manuel J Gomez, Santiago Zelenay, Salvador Iborra, Matthew F. Krummel

“…To characterize the immune response, we performed flow cytometry and RNA-Seq of tumor-infiltrating cDC1s.Results Here, we found that cross-presentation of tumor antigens in the steady state was DNGR-1-independent. …”
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A novel truncated fusion gene ETV6::AC010198.2 in post-MPN acute myeloid leukemia caused by del(12)(p13p11) by Jiao Lu, Jiao Lu, Guanqun Yang, Qiurong Zhang, Man Wang, Man Wang, Lijun Wang, Lijun Wang, Lu Chen, Haoyue Chen, Xin Jiang, Chunhua Liu, Tong Lin, Qiaoyan Han, Zefa Liu, Shi Zhen, Zhao Zeng, Jinlan Pan, Jiannong Cen, Suning Chen, Suning Chen, Zheng Wang, Zheng Wang, Xingxia Zhang, Miao Sun

“…Here, we report a long-chain noncoding RNA AC010198.2 as a novel fusion partner of ETV6, showing a karyotype of del(12)(p13p11), with poor prognosis in a post-MPN AML that has never been reported, which may be an vital initial event in the transformation of MPN to AML and deterioration of disease.…”
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Mitochondrial reactive oxygen species trigger metformin-dependent antitumor immunity via activation of Nrf2/mTORC1/p62 axis in tumor-infiltrating CD8T lymphocytes by Kazuhiro Kakimi, Hirokazu Matsushita, Masaaki Komatsu, Eiryo Kawakami, Mikako Nishida, Nahoko Yamashita, Taisaku Ogawa, Keita Koseki, Eiji Warabi, Tomoyuki Ohue, Katsuyuki Shiroguchi, Heiichiro Udono

“…In addition, conditional knockout mice for Nrf2 and p62 were used to detect these markers, together with the monitoring of in vivo tumor growth. RNA sequencing was performed for CD8TILs and tumor cells. …”
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Exploring proteomic immunoprofiles: common neurological and immunological pathways in multiple sclerosis and type 1 diabetes mellitus by Fátima Cano-Cano, Almudena Lara-Barea, Álvaro Javier Cruz-Gómez, Francisco Martín-Loro, Laura Gómez-Jaramillo, María Carmen González-Montelongo, María Mar Roca-Rodríguez, Lucía Beltrán-Camacho, Lucía Forero, Javier J. González-Rosa, Mª Carmen Durán-Ruiz, Ana I. Arroba, Manuel Aguilar-Diosdado

“…Predictive analysis highlighted 15 common proteins, up- or downregulated in PBMCs from patients with T1DM and MS patients vs. healthy controls, involved in the immune system activity (BTF3, TTR, CD59, CSTB), diseases of the neuronal system (TTR), signal transduction (STMN1, LAMTOR5), metabolism of nucleotides (RPS21), proteins (TTR, ENAM, CD59, RPS21, SRP9) and RNA (SRSF10, RPS21). In addition, this study revealed both shared and distinct molecular patterns between the two conditions. …”
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Safety and efficacy of telaprevir in treatment of a chronic hepatitis C in patients of the Russian population included in early access program study by D. T. Abrurakhmanov, V. G. Morozov, I. G. Nikitin, P. O. Bogomolov, N. I. Geyvandova, Ye. N. Bessonova, I. G. Bakulin, V. A. Isakov, K. V. Zhdanov, M. V. Mayevskaya, Ye. A. Nurmukhametova, E. Z. Burnevich, Ye. V. Chesnokov, V. D. Pasechnikov, A. Hill, I. Lonjon-Domanec, S. N. Kizhlo

“…Total of 153 patients have completed 12-week course of triple therapy and 4-week course of peginterferon-alpha and ribavirin treatment (48% cirrhotic patients, 97% – HCV-1b). The level of HCV RNA was undetectable both at the 4-th week, and at the 12-th week (extended rapid virologic response) in 42 (75%) of 56 previously untreated patients, in 34 (89%) of 38 with relapses after previous treatment, in 4 (57%) of 7 with previous incomplete response, in 22 (52%) of 42 with the previous zero response and in 7 (70%) of 10 with previous virologic breakthrough. …”
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Dihydroquercetin attenuated Prevotella copri-caused intestinal injury by modulating gut microbiota and bile acids in weaned piglets by Long Wang, Ruizhi Hu, Siqi Ma, Xizi Yang, Jiatai Gong, Hongkun Xiang, Mingkun Shi, Xupeng Yuan, Liang Chen, Hongfu Zhang, Bie Tan, Xi He, Jianhua He, Shusong Wu

“…Moreover, DHQ increased the expression of tight junction proteins (claudin-2, occludin and tight junction protein zonula occludens protein-1 (ZO-1) and the mRNA expression of glutathione peroxidase 4 (GPX-4) in ileum (P < 0.001). …”
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EDF1 accelerates ganglioside GD3 accumulation to boost CD52-mediated CD8+ T cell dysfunction in neuroblastoma by Di Li, Meng Li, Zhenjian Zhuo, Huiqin Guo, Weixin Zhang, Yile Xu, Hai-Yun Wang, Jiabin Liu, Huimin Xia, Huiran Lin, Jue Tang, Jing He, Lei Miao

“…Methods We performed bulk-RNA sequencing and lipidomic analyses of children with mediastinal NB. …”
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Loss of MEF2C function by enhancer mutation leads to neuronal mitochondria dysfunction and motor deficits in mice by Ali Yousefian-Jazi, Suhyun Kim, Jiyeon Chu, Seung-Hye Choi, Phuong Thi Thanh Nguyen, Uiyeol Park, Min-gyeong Kim, Hongik Hwang, Kyungeun Lee, Yeyun Kim, Seung Jae Hyeon, Hyewhon Rhim, Hannah L. Ryu, Grewo Lim, Thor D. Stein, Kayeong Lim, Hoon Ryu, Junghee Lee

“…To verify the role of MEF2C-knockdown (MEF2C-KD) in mice, we developed AAV expressing shRNA for MEF2C based on AAV-U6 promoter vector. Neuropathological alterations of MEF2C-KD mice with mitochondrial dysfunction and motor neuronal damage were observed by confocal microscopy and transmission electron microscope (TEM). …”
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CD38 deficiency leads to a defective short-lived transcriptomic response to chronic graft-versus-host disease induction, involving purinergic signaling-related genes and distinct t... by Mercedes Zubiaur, Laura C. Terrón-Camero, Fernando Gordillo-González, Eduardo Andrés-León, Alicia Barroso-del Jesús, Luz María Canet-Antequera, María M. Pérez Sánchez-Cañete, África Martínez-Blanco, Marilú Domínguez-Pantoja, María Botia-Sánchez, Sonia Pérez-Cabrera, Nerea Bello-Iglesias, Antonio Alcina, Ana-Clara Abadía-Molina, Fuencisla Matesanz, Esther Zumaquero, Ramón Merino, Jaime Sancho

“…This study aimed to elucidate the transcriptomic signatures and dysregulated pathways associated with the autoimmune response in Cd38-/- mice compared to wild-type (WT) mice within the bm12 chronic graft-versus-host disease (cGVHD) lupus model. We conducted bulk RNA sequencing on peritoneal exudate cells (PECs) and spleen cells (SPC) at two and four weeks following adoptive cell transfer. …”
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Unveiling the prognostic value of ARID3A in breast cancer through bioinformatic analysis by Wen-Run Cai, Xu-Gang Sun, Yue Yu, Xin Wang, Xu-Chen Cao, Xiao-Feng Liu

“…This study investigates ARID3A's expression, prognostic relevance, clinicopathological correlations, co-expression profiles, and protein-protein interactions in breast cancer. Methods: ARID3A mRNA and protein expression levels were analyzed using UALCAN, GEPIA databases, and immunohistochemistry from our hospital samples. …”
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