A reproducible framework for monitoring the impact of randomized clinical trials on clinical practice using large-scale real-world data: application to gynaecological surgical tria... by Floriane Jochum, Madeleine Doll, Anne-Sophie Hamy, Lou Donval, Paul Gougis, Élise Dumas, Lise Lecointre, Thomas Gaillard, Fabien Reyal, Fabrice Lecuru, Cherif Akladios, Enora Laas

“…Interpretation: This study demonstrates that large-scale real-world data can effectively monitor the impact of RCTs on clinical practice. While validated here using surgical trials, this reproducible framework is adaptable to various health domains and can be implemented in any country with national electronic health databases. …”
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Transcriptome-wide dynamics of m6A methylation in ISKNV and Siniperca chuatsi cells infected with ISKNV by Qijin Miao, Jing Jiang, Siyou Huang, Jie Gao, Qingqing Liu, Rui Zheng, Yiling Kang, Changjun Guo, Jianguo He, Junfeng Xie

“…However, the impact of m6A RNA methylation on the pathogenicity of ISKNV remains unexplored. Here, methylated RNA immunoprecipitation sequencing (MeRIP-seq) coupled with RNA sequencing (RNA-seq) was used to systematically detect variations in m6A methylation and gene expression between ISKNV-infected and noninfected MFF-1 cells, followed by functional enrichment and co-expression joint analysis. …”
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Pan-inhibition of super-enhancer-driven oncogenic transcription by next-generation synthetic ecteinascidins yields potent anti-cancer activity by Max Cigrang, Julian Obid, Maguelone Nogaret, Léane Seno, Tao Ye, Guillaume Davidson, Philippe Catez, Pietro Berico, Clara Capelli, Clara Marechal, Amélie Zachayus, Clémence Elly, Marie Jose Guillen Navarro, Marta Martinez Diez, Gema Santamaria Nunez, Tsai-Kun Li, Emmanuel Compe, Pablo Avilés, Irwin Davidson, Jean-Marc Egly, Carmen Cuevas, Frédéric Coin

“…Specific gene expression programs, driven in part by super-enhancers (SEs), underlie cancer cell states. Here we successfully inhibit SE-driven transcription in phenotypically distinct metastatic melanoma cells using next-generation synthetic ecteinascidins. …”
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Unconventional hexagonal open Prussian blue analog structures by Jinwen Yin, Jing Wang, Mingzi Sun, Yajie Yang, Jia Lyu, Lei Wang, Xinglong Dong, Chenliang Ye, Haibo Bao, Jun Guo, Bo Chen, Xichen Zhou, Li Zhai, Zijian Li, Zhen He, Qinxin Luo, Xiang Meng, Yangbo Ma, Jingwen Zhou, Pengyi Lu, Yunhao Wang, Wenxin Niu, Zijian Zheng, Yu Han, Daliang Zhang, Shibo Xi, Ye Yuan, Bolong Huang, Peng Guo, Zhanxi Fan

“…However, PBAs typically adopt cubic structure that features small pore size and low specific surface area, which greatly limits their practical applications in various fields ranging from gas adsorption/separation to energy conversion/storage and biomedical treatments. Here we report the facile and general synthesis of unconventional hexagonal open PBA structures. …”
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New Species of <i>Diaporthales</i> (<i>Ascomycota</i>) from Diseased Leaves in Fujian Province, China by Xiayu Guan, Taichang Mu, Nemat O. Keyhani, Junya Shang, Yuchen Mao, Jiao Yang, Minhai Zheng, Lixia Yang, Huili Pu, Yongsheng Lin, Mengjia Zhu, Huajun Lv, Zhiang Heng, Huiling Liang, Longfei Fan, Xiaoli Ma, Haixia Ma, Zhenxing Qiu, Junzhi Qiu

“…However, many phyllosphere <i>Diaporthales</i> species remain uncharacterized, with studies examining their diversity needed. Here, we report on the identification of several diaporthalean taxa samples collected from diseased leaves of <i>Cinnamomum camphora</i> (<i>Lauraceae</i>), <i>Castanopsis fordii</i> (<i>Fagaceae</i>) and <i>Schima superba</i> (<i>Theaceae</i>) in Fujian province, China. …”
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Protocol for a phase IV double-blind randomised controlled trial to investigate the effect of the 13-valent pneumococcal conjugate vaccine and the 23-valent pneumococcal polysaccha... by Tao Chen, Duolao Wang, Konstantinos Liatsikos, Stephen B Gordon, Hassan Burhan, Ben Morton, Tinashe K Nyazika, Bradford D Gessner, Helen Hill, Andrea Collins, Josh Hamilton, Kelly Davies, Fred Fyles, Phoebe Hazenberg, Elizabeth Begier, Angela Hyder-Wright, Sherin Pojar, Christopher Myerscough, Jesus Reine, Ryan E Robinson, Britta Urban, Elena Mitsi, Carla Solorzano, Angela Quinn, Kaijie Pan, Annaliesa S Anderson, Christian Theilacker, Daniela M Ferreira, Kelly Convey, James Court, Madlen Farrar, Lisa Hitchins, Ashleigh Howard, Lauren Kerruish, Samuel Latham, Annabel Murphy, Elissavet Nikolaou, Angelina Peterson

“…Introduction Despite widely available vaccinations, Streptococcus pneumoniae (SPN) remains a major cause of morbidity and mortality worldwide, causing community-acquired pneumonia, meningitis, otitis media, sinusitis and bacteraemia. Here, we summarise an ethically approved protocol for a double-blind, randomised controlled trial investigating the effect of the 13-valent pneumococcal conjugate vaccine (PCV13) and the 23-valent pneumococcal polysaccharide vaccine (PPV23) on pneumococcal nasopharyngeal colonisation acquisition, density and duration using experimental human pneumococcal challenge (EHPC).Methods and analysis Healthy adult participants aged 18–50 years will be randomised to receive PCV13, PPV23 or placebo and then undergo one or two EHPCs involving intranasal administration of SPN at 1-month post-vaccination with serotype 3 (SPN3) and 6 months with serotype 6B (SPN6B). …”
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Oxidative stress induced protein aggregation via GGCT produced pyroglutamic acid in drug resistant glioblastoma by Deanna Tiek, Xiao Song, Xiaozhou Yu, Runxin Wu, Rebeca Iglesia, Alicia Catezone, Katy McCortney, Jordain Walshon, Craig Horbinski, Pouya Jamshidi, Rudolph Castellani, Robert Vassar, Jason Miska, Bo Hu, Shi-Yuan Cheng

“…Recently, non-mutational mechanisms of drug resistance have been proposed where a more plastic metabolic response can play a major role. Here, we show that upon drug resistance, glioblastoma (GBM) cells have increased oxidative stress, mitochondria function, and protein aggregation. …”
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Epigenetic Regulation of Mesenchymal Stem Cells: A Focus on Osteogenic and Adipogenic Differentiation by Chad M. Teven, Xing Liu, Ning Hu, Ni Tang, Stephanie H. Kim, Enyi Huang, Ke Yang, Mi Li, Jian-Li Gao, Hong Liu, Ryan B. Natale, Gaurav Luther, Qing Luo, Linyuan Wang, Richard Rames, Yang Bi, Jinyong Luo, Hue H. Luu, Rex C. Haydon, Russell R. Reid, Tong-Chuan He

“…Nevertheless, MSC epigenetic profiles reflect a more restricted differentiation potential as compared to ES cells. Here we review the effect of epigenetic modifications on MSC multipotency and differentiation, with a focus on osteogenic and adipogenic differentiation. …”
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A novel ddPCR™ assay for eDNA detection and quantification of Greater Amberjack Seriola dumerilli and three congeners in US waters: challenges and application to fisheries independ... by P. Joana Dias, Ryan Lehman, Bryan L. Huerta-Beltrán, Ana Wheeler, Crystal L. Hightower, Jessica Heise, Theodore Switzer, Clint Rhode, J. Marcus Drymon, Lynne Stokes, Mark A. Albins, Sean Powers, Nicole Phillips

“…Atlantic Ocean and the Gulf of Mexico, with the S. dumerili Gulf of Mexico stock being overfished for over three decades. The study presented here is part of a fisheries-independent project initiated to determine an absolute abundance of S. dumerili, to expand biological knowledge of the species and to develop novel tools for fisheries management. …”
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Intratumoural CD8+ CXCR5+ follicular cytotoxic T cells have prognostic value and are associated with CD19+ CD38+ B cells and tertiary lymphoid structures in colorectal cancer by Fangze Wei, Xiaotian Xu, Jing Wang, Shi Wen Mei, Fu Qiang Zhao, Fei Huang, Ti Xian Xiao, Guo Jing Wang, Baojun Wei, Shengkai Huang, Wei Cui

“…However, the roles of TFC cells in MSI-high CRC and MSS CRC are unclear. Here, we aimed to explore the characteristics of TFC cells in CRC and compare their biological functions between MSI-high and MSS CRC. …”
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Potential of long-term satellite observations and reanalysis products for characterising soil drying: trends and drought events by M. Hirschi, P. Stradiotti, B. Crezee, B. Crezee, W. Dorigo, S. I. Seneviratne

“…Thus, it is crucial to monitor and characterise related drought events and to understand how underlying geophysical trends may affect them. Here, we compare the ability of long-term satellite observations and state-of-the-art reanalysis products to characterise soil drying. …”
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Sharks in Macaronesia and Cabo Verde: species richness, conservation status and anthropogenic pressures by Jaquelino Varela, Jaquelino Varela, Catarina Pereira Santos, Catarina Pereira Santos, Catarina Pereira Santos, Emanuel Nunes, Emanuel Nunes, Vasco Pissarra, Vasco Pissarra, Stiven Pires, Bárbara P. Ribeiro, Bárbara P. Ribeiro, Eduarda Vieira, Eduarda Vieira, Tiago Repolho, Tiago Repolho, Nuno Queiroz, Nuno Queiroz, Rui Freitas, Rui Rosa, Rui Rosa, Rui Rosa

“…In this context, updating knowledge on shark diversity and the threats affecting them in this region is essential to defining priorities and implementing the right management and conservation measures. Here, we show that Macaronesian and Cabo Verde marine ecoregions are home to 78 shark species (comprising 26 families), and 56% are threatened with extinction. …”
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Aminoglycoside tolerance in Vibrio cholerae engages translational reprogramming associated with queuosine tRNA modification by Louna Fruchard, Anamaria Babosan, Andre Carvalho, Manon Lang, Blaise Li, Magalie Duchateau, Quentin Giai Gianetto, Mariette Matondo, Frederic Bonhomme, Isabelle Hatin, Hugo Arbes, Céline Fabret, Enora Corler, Guillaume Sanchez, Virginie Marchand, Yuri Motorin, Olivier Namy, Valérie de Crécy-Lagard, Didier Mazel, Zeynep Baharoglu

“…Tgt is the enzyme modifying the guanine (G) in tRNAs with GUN anticodon to queuosine (Q). tgt is required for optimal growth of Vibrio cholerae in the presence of sub-lethal aminoglycoside concentrations. We further explored here the role of the Q34 in the efficiency of codon decoding upon tobramycin exposure. …”
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Urinary System Manifestation of IgG4-Related Disease: Clinical, Laboratory, Radiological, and Pathological Spectra of a Chinese Single-Centre Study by Fei Teng, Hui Lu, Ke Zheng, Gang Chen, Yubing Wen, Zheng Liu, Linyi Peng, Li Huo, Xiaofeng Zeng, Wen Zhang, Xuemei Li

“…IgG4-related disease is a new disease entity, but little attention was drawn to urinary system involvement besides nephritis or nephropathy. Here, we described clinical, radiological, and pathological manifestations of IgG4-related urinary disease (IgG4-RUD) and assess its treatment responses. …”
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Deep learning uncovers histological patterns of YAP1/TEAD activity related to disease aggressiveness in cancer patients by Benoit Schmauch, Vincent Cabeli, Omar Darwiche Domingues, Jean-Eudes Le Douget, Alexandra Hardy, Reda Belbahri, Charles Maussion, Alberto Romagnoni, Markus Eckstein, Florian Fuchs, Aurélie Swalduz, Sylvie Lantuejoul, Hugo Crochet, François Ghiringhelli, Valentin Derangere, Caroline Truntzer, Harvey Pass, Andre L. Moreira, Luis Chiriboga, Yuanning Zheng, Michael Ozawa, Brooke E. Howitt, Olivier Gevaert, Nicolas Girard, Elton Rexhepaj, Iris Valtingojer, Laurent Debussche, Emanuele de Rinaldis, Frank Nestle, Emmanuel Spanakis, Valeria R. Fantin, Eric Y. Durand, Marion Classe, Katharina Von Loga, Elodie Pronier, Matteo Cesaroni

“…In recent years, deep learning applied to histology slides have emerged as an effective way to predict molecular information from a data modality available in clinical routine. Here, we trained models to predict YAP1/TEAD activity from H&E-stained histology slides in multiple cancers. …”
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Chemo-proteomics reveals dihydrocaffeic acid exhibits anti-inflammation effects via Transaldolase 1 mediated PERK-NF-κB pathway by Guanjun Li, Huiying Li, Peili Wang, Xinzhou Zhang, Wenhua Kuang, Ling Huang, Ying Zhang, Wei Xiao, Qingfeng Du, Huan Tang, Jigang Wang

“…Purpose To investigate the anti-inflammation effects of DA and its target and its specific mechanisms. Methods Here, we conducted lipopolysaccharides (LPS)-induced acute pneumonia model mice. …”
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Massively parallel variant-to-function mapping determines functional regulatory variants of non-small cell lung cancer by Congcong Chen, Yang Li, Yayun Gu, Qiqi Zhai, Songwei Guo, Jun Xiang, Yuan Xie, Mingxing An, Chenmeijie Li, Na Qin, Yanan Shi, Liu Yang, Jun Zhou, Xianfeng Xu, Ziye Xu, Kai Wang, Meng Zhu, Yue Jiang, Yuanlin He, Jing Xu, Rong Yin, Liang Chen, Lin Xu, Juncheng Dai, Guangfu Jin, Zhibin Hu, Cheng Wang, Hongxia Ma, Hongbing Shen

“…Abstract Genome-wide association studies have identified thousands of genetic variants associated with non-small cell lung cancer (NSCLC), however, it is still challenging to determine the causal variants and to improve disease risk prediction. Here, we applied massively parallel reporter assays to perform NSCLC variant-to-function mapping at scale. …”
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A gut instinct for childhood leukemia prevention: microbiome-targeting recommendations aimed at parents and caregivers by Ersen Kameri, Ersen Kameri, Ersen Kameri, Vera Helena Jepsen, Pawel Stachura, Pawel Stachura, Nadine Rüchel, Rigveda Bhave, Leticia Benitez, Fatima Crispi, Eduard Gratacos, Nico Dragano, Stefan Janssen, Arndt Borkhardt, Arndt Borkhardt, Aleksandra Pandyra, Aleksandra Pandyra, Aleksandra Pandyra, Gesine Kögler, Gesine Kögler, Ute Fischer, Ute Fischer, Ute Fischer

“…The link between gut microbiome diversity and childhood ALL offers the opportunity to develop risk-reducing strategies that can be communicated to a broad target population of (future) parents and caregivers for childhood leukemia prevention. Here, we summarize evidence on how promoting a diverse gut microbiome in newborns through simple measures such as increasing social contacts early in life may decrease the risk of developing ALL in these children later on.…”
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In vivo production of engineered ACE2 decoy protects lungs from SARS-CoV-2 infection by Yuta Suzuki, Takayuki Miyazaki, Yoko Ida, Tatsuya Suzuki, Yumi Itoh, Shuto Nakao, Keita Kondo, Kenji Kubara, Keisuke Nishioka, Hiroki Muto, Ryuji Watari, Toshifumi Hirayama, Dai Kakiuchi, Shinya Sato, Satoshi Inoue, Yoshifumi Uemoto, Yohei Mukai, Atsushi Hoshino, Toru Okamoto, Junji Matsui

“…Thus, next-generation therapeutics that are resistant to mutations and can be rapidly supplied to individuals in an emergency are required. Here, we designed an mRNA encoding an engineered angiotensin-converting enzyme 2 (ACE2) decoy, 3N39v4, composed of high-affinity ACE2 and a human immunoglobulin G Fc domain. …”
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A single residue switch mediates the broad neutralization of Rotaviruses by Yang Huang, Feibo Song, Yuanjun Zeng, Hui Sun, Roufang Sheng, Xuechun Wang, Liqin Liu, Guoxing Luo, Yanan Jiang, Yaling Chen, Mengxuan Zhang, Shiyin Zhang, Ying Gu, Hai Yu, Shaowei Li, Tingdong Li, Qingbing Zheng, Shengxiang Ge, Jun Zhang, Ningshao Xia

“…The increasing challenge posed by viral evolution and immune evasion intensifies the importance of the discovery of bNAbs and their underlying neutralization mechanism. Here, focusing on the pivotal viral protein VP4 of rotavirus (RV), we identify a potent bNAb, 7H13, exhibiting broad-spectrum neutralization across diverse RV genotypes and demonstrating strong prevention of virus infection in female mice. …”
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