Disruption of hindgut microbiome homeostasis promotes postpartum energy metabolism disorders in dairy ruminants by inhibiting acetate-mediated hepatic AMPK-PPARA axis by Shuo Wang, Fanlin Kong, Xinyue Zhang, Dongwen Dai, Chen Li, Zhijun Cao, Yajing Wang, Wei Wang, Shengli Li

“…Multi-omics (metagenomics, metabolomics, and transcriptomics) analysis further identified key microbes, including Faecousia species (sp017465625 and sp017380435), Methanosphaera species (sp016282985), and Bifidobacterium globosum. …”
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Characterization of temporal expression of immune genes in female locust challenged by fungal pathogen, Aspergillus sp. by Muhammad Saad Waqas, Xiao Xu, Pengfei Zhang, Jin Guo, Shaojing Hu, Yinwei You, Long Zhang

“…IntroductionThe innate immune system provides defense against invading pathogens in insects and mammals. …”
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Eucommia ulmoides seed oil is a complementary food for suppressing digestive tumors by Jinzheng Wu, Liang Wen, Durairaj Karthick Rajan, Yan Liu, Xin Yang, Hao Jiang, Jinhua Yan, Jinhua Yan, Bo Shu, Shubing Zhang

“…Mechanistically, transcriptomic profiling (RNA-seq) and Western blotting were conducted to identify EUSO-regulated signaling pathways.ResultsEUSO exhibited dose-dependent suppression of HCC and pancreatic cancer cell proliferation, colony formation, and migration. …”
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Characterization and immunoprotective efficacy of a fumarate reductase frdA mutant of Salmonella enteritidis by Siping Zhu, Xinyi Sun, Xinyi Sun, Hong Li, Yongmei Su, Chihuan Li, Xintong Zhu, Chao Ren, Xiaochen Liu, Yulai Dong, Qiumei Shi, Zhiqiang Zhang

“…Moreover, immunization of mice with the frdA deletion strain provided promising immune protection for mice.ConclusionFumarate reductase FrdA is closely associated with pathogenicity of S. enteritidis and that is an attractive candidate target for vaccine design of Salmonella.…”
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Single‐cell dissection reveals immunosuppressive F13A1+ macrophage as a hallmark for multiple primary lung cancers by Chenglin Yang, Jiahao Qu, Jingting Wu, Songhua Cai, Wenyi Liu, Youjun Deng, Yiran Meng, Liuqing Zheng, Lishen Zhang, Li Wang, Xiaotong Guo

“…Results MPLCs and SPLCs share significant similarities in genetic, transcriptomic and immune profiles, suggesting common therapeutic strategies such as EGFR‐TKIs andICIs. …”
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Classification of acute myeloid leukemia based on multi‐omics and prognosis prediction value by Yang Song, Zhe Wang, Guangji Zhang, Jiangxue Hou, Kaiqi Liu, Shuning Wei, Yan Li, Chunlin Zhou, Dong Lin, Min Wang, Hui Wei, Jianxiang Wang, Tao Cheng, Yingchang Mi

“…We interrogated data from 1391 consecutive, newly diagnosed subjects with AML, integrating information on mutation topography, DNA methylation, and transcriptomics. We developed an unsupervised multi‐omics classification system (UAMOCS) with these data. …”
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Efficacy and pharmacodynamic effect of anti-CD73 and anti-PD-L1 monoclonal antibodies in combination with cytotoxic therapy: observations from mouse tumor models by Brajesh P. Kaistha, Gozde Kar, Andreas Dannhorn, Amanda Watkins, Grace Opoku-Ansah, Kristina Ilieva, Stefanie Mullins, Judith Anderton, Elena Galvani, Fabien Garcon, Jean-Martin Lapointe, Lee Brown, James Hair, Tim Slidel, Nadia Luheshi, Kelli Ryan, Elizabeth Hardaker, Simon Dovedi, Rakesh Kumar, Robert W. Wilkinson, Scott A. Hammond, Jim Eyles

“…These pre-clinical data reflect complementarity of adenosine blockade with cytotoxic therapy, and T-cell checkpoint inhibition, and provides new mechanistic insights in support of combination therapy.…”
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Akkermansia muciniphila reverses neuronal atrophy in Negr1 knockout mice with depression-like phenotypes by Hee-Gon Hwang, Ji-Woo Park, Hyo-Jin Lee, Moon Yi Ko, Minhan Ka, Yun Kyung Lee, Jaeyoon Choi, Su-A In, Ye-Eun Lee, Soojin Lee, Min-Soo Kim, Jeong-Yoon Kim

“…Remarkably, daily administration of an Akkermansia strain isolated from wild-type mice reversed the neuronal structural abnormalities and ameliorated anxiety- and depression-like behaviors in Negr1 KO mice. Transcriptomic profiling revealed upregulation of mitochondrial genome-encoded genes in the NAc and hippocampus of Negr1 KO mice, along with a predisposition toward a pro-inflammatory state in the colon of Negr1 KO mice. …”
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Regulatory role of CD177+ neutrophils in BMP signaling pathway and its implications for inflammatory bowel disease, sepsis, and intestinal tumors by Lin Yu, Haoyue Zhang, Ling Jia, Detian Lai, Lina Jia, Qingzhu Li, Enwei Guo, Feng Yang, Bingyu Zhang, Qiancheng Luo

“…Pan-cancer analysis showed diverse gene expression patterns and correlations with immune dynamics. Single-cell transcriptomics provided insights into the tumor microenvironment. …”
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Bacterial extracellular biomolecules-derived multimodal manganese nanoparticles control watermelon Fusarium wilt by dysregulating fusaric acid biosynthesis pathway and precise tuni... by Muhammad Noman, Temoor Ahmed, Mohammad Shafiqul Islam, Jing Wang, Yingying Cai, Shuang Liang, Zhongna Hao, Hayssam M. Ali, Haiping Qiu, Zhen Zhang, Rongyao Chai, Yanli Wang, Bin Li, Jiaoyu Wang

“…By integrating nanotechnology and plant-rhizopshere interactions, this study provides a novel approach to mitigating soilborne diseases, emphasizing the potential of nano-enabled disease management approaches to enhance crop protection and sustainability in agriculture.…”
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Cellular hierarchy framework based on single-cell/multi-patient sample sequencing reveals metabolic biomarker PYGL as a therapeutic target for HNSCC by Jiezhong Guan, Xi Xu, Guo Qiu, Chong He, Xiaoyue Lu, Kang Wang, Xinyu Liu, Yuanyuan Li, Zihang Ling, Xuan Tang, Yujie Liang, Xiaoan Tao, Bin Cheng, Bo Yang

“…Our study revealed the cellular hierarchy composition of HNSCC from the cell metabolism reprogramming perspective and may provide new inspirations and therapeutic targets for HNSCC in the future.…”
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Lactobacillus johnsonii HL79 mitigate plateau environment-induced hippocampal dysfunction in mice by Baoxing Gan, Xufei Zhang, Jinge Xin, Lixiao Duan, Ning Sun, Yu Chen, Junqi Zeng, Yueying Lian, Hao Li, Hesong Wang, Xueqin Ni, Hailin Ma

“…Combined hippocampal transcriptomic analyses suggested that HL79’s beneficial effects primarily involved modulation of lipid-related gene expression in the hippocampus, consistent with prior reports of plateau environmental impacts on gene expression. …”
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iPSC-modelling reveals genetic associations and morphological alterations of oligodendrocytes in schizophrenia by Man-Hsin Chang, Jan Benedikt Waldeck, Marius Stephan, Nirmal Kannaiyan, Valéria de Almeida, Emanuel Boudriot, Temmuz Karali, Lukas Röll, Laura Fischer, Damianos Demetriou, Nadia Gabellini, Sabrina Galinski, Andrea Schmitt, Sergi Papiol, Daniel Keeser, Peter Falkai, Moritz J. Rossner, Florian J. Raabe

“…Although imaging and postmortem studies also provide evidence for white matter alterations with implications of the oligodendroglial lineage in SCZ, it is unclear whether these disturbances are a secondary consequence of neuronal deficits or also, at least in parts, genetically driven and cell-autonomous. …”
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Single-cell transcriptional dissection illuminates an evolution of immunosuppressive microenvironment during pancreatic ductal adenocarcinoma metastasis by Xiaowei Liu, Jinen Song, Meiling Yuan, Fengli Zuo, Huihui Li, Leyi Tang, Xinmin Wang, Xueyan Wang, Qian Xiao, Li Li, Xinyu Liu, Zhankun Yang, Jianlin Wu, Jing Jing, Xuelei Ma, Hubing Shi

“…Here, we investigate the dynamics changes of the pancreatic ductal adenocarcinoma (PDAC) tumor microenvironment by profiling 132,115 single-cell transcriptomes derived from 51 tissues, including healthy pancreatic tissue, non-metastatic PDAC primary tumors, metastatic primary tumors, and patient-matched liver metastases. …”
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An assembled molecular signaling map of interleukin-24: a resource to decipher its multifunctional immunoregulatory role in pathophysiological conditions by Anjana Aravind, Vineetha Shaji, Mukhtar Ahmed, Shobha Dagamajalu, Manavalan Vijayakumar, Thottethodi Subrahmanya Keshava Prasad, Rajesh Raju, Rajesh Raju

“…Moreover, this map is made available (https://ciods.in/il24/) for the researchers to explore the role of IL-24 in various pathophysiological conditions through the gene set enrichment of transcriptomics or proteomics datasets from various disease conditions.…”
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Prioritization of Kidney Cell Types Highlights Myofibroblast Cells in Regulating Human Blood Pressure by Mahboube Ganji-Arjenaki, Zoha Kamali, Soroush Sardari, Martin de Borst, Harold Snieder, Ahmad Vaez, Evangelos Evangelou, Helen R. Warren, He Gao, Georgios Ntritsos, Niki Dimou, Tonu Esko, Reedik Mägi, Lili Milani, Peter Almgren, Thibaud Boutin, Stéphanie Debette, Jun Ding, Franco Giulianini, Elizabeth G. Holliday, Anne U. Jackson, Ruifang Li -Gao, Wei -Yu Lin, Jian'an Luan, Massimo Mangino, Christopher Oldmeadow, Bram Peter Prins, Yong Qian, Muralidharan Sargurupremraj, Nabi Shah, Praveen Surendran, Sébastien Thériault, Niek Verweij, Sara M. Willems, Jing -Hua Zhao, Philippe Amouyel, John Connell, Renée de Mutsert, Alex S.F. Doney, Martin Farrall, Cristina Menni, Andrew D. Morris, Raymond Noordam, Guillaume Paré, Neil R. Poulter, Denis C. Shields, Alice Stanton, Simon Thom, Gonçalo Abecasis, Najaf Amin, Dan E. Arking, Kristin L. Ayers, Caterina M. Barbieri, Chiara Batini, Joshua C. Bis, Tineka Blake, Murielle Bochud, Michael Boehnke, Eric Boerwinkle, Dorret I. Boomsma, Erwin P. Bottinger, Peter S. Braund, Marco Brumat, Archie Campbell, Harry Campbell, Aravinda Chakravarti, John C. Chambers, Ganesh Chauhan, Marina Ciullo, Massimiliano Cocca, Francis Collins, Heather J. Cordell, Gail Davies, Martin H. de Borst, Eco J. de Geus, Ian J. Deary, Joris Deelen, Fabiola Del Greco M, Cumhur Yusuf Demirkale, Marcus Dörr, Georg B. Ehret, Roberto Elosua, Stefan Enroth, A. Mesut Erzurumluoglu, Teresa Ferreira, Mattias Frånberg, Oscar H. Franco, Ilaria Gandin, Paolo Gasparini, Vilmantas Giedraitis, Christian Gieger, Giorgia Girotto, Anuj Goel, Alan J. Gow, Vilmundur Gudnason, Xiuqing Guo, Ulf Gyllensten, Anders Hamsten, Tamara B. Harris, Sarah E. Harris, Catharina A. Hartman, Aki S. Havulinna, Andrew A. Hicks, Edith Hofer, Albert Hofman, Jouke-Jan Hottenga, Jennifer E. Huffman, Shih-Jen Hwang, Erik Ingelsson, Alan James, Rick Jansen, Marjo -Riitta Jarvelin, Roby Joehanes, Åsa Johansson, Andrew D. Johnson, Peter K. Joshi, Pekka Jousilahti, J. Wouter Jukema, Antti Jula, Mika Kähönen, Sekar Kathiresan, Bernard D. Keavney, Kay-Tee Khaw, Paul Knekt, Joanne Knight, Ivana Kolcic, Jaspal S. Kooner, Seppo Koskinen, Kati Kristiansson, Zoltan Kutalik, Maris Laan, Marty Larson, Lenore J. Launer, Benjamin Lehne, Terho Lehtimäki, David C.M. Liewald, Li Lin, Lars Lind, Cecilia M. Lindgren, YongMei Liu, Ruth J.F. Loos, Lorna M. Lopez, Yingchang Lu, Leo-Pekka Lyytikäinen, Anubha Mahajan, Chrysovalanto Mamasoula, Jaume Marrugat, Jonathan Marten, Yuri Milaneschi, Anna Morgan, Andrew P. Morris, Alanna C. Morrison, Peter J. Munson, Mike A. Nalls, Priyanka Nandakumar, Christopher P. Nelson, Teemu Niiranen, Ilja M. Nolte, Teresa Nutile, Albertine J. Oldehinkel, Ben A. Oostra, Paul F. O'Reilly, Elin Org, Sandosh Padmanabhan, Walter Palmas, Aarno Palotie, Alison Pattie, Brenda W.J.H. Penninx, Markus Perola, Annette Peters, Ozren Polasek, Peter P. Pramstaller, Quang Tri Nguyen, Olli T. Raitakari, Rainer Rettig, Kenneth Rice, Paul M. Ridker, Janina S. Ried, Harriëtte Riese, Samuli Ripatti, Antonietta Robino, Lynda M. Rose, Jerome I. Rotter, Igor Rudan, Daniela Ruggiero, Yasaman Saba, Cinzia F. Sala, Veikko Salomaa, Nilesh J. Samani, Antti-Pekka Sarin, Reinhold Schmidt, Helena Schmidt, Nick Shrine, David Siscovick, Albert V. Smith, Harold Snieder, Siim Sõber, Rossella Sorice, John M. Starr, David J. Stott, David P. Strachan, Rona J. Strawbridge, Johan Sundström, Morris A. Swertz, Kent D. Taylor, Alexander Teumer, Martin D. Tobin, Maciej Tomaszewski, Daniela Toniolo, Michela Traglia, Stella Trompet, Jaakko Tuomilehto, Christophe Tzourio, André G. Uitterlinden, Ahmad Vaez, Peter J. van der Most, Cornelia M. van Duijn, Germaine C. Verwoert, Veronique Vitart, Uwe Völker, Peter Vollenweider, Dragana Vuckovic, Hugh Watkins, Sarah H. Wild, Gonneke Willemsen, James F. Wilson, Alan F. Wright, Jie Yao, Tatijana Zemunik, Weihua Zhang, John R. Attia, Adam S. Butterworth, Daniel I. Chasman, David Conen, Francesco Cucca, John Danesh, Caroline Hayward, Joanna M.M. Howson, Markku Laakso, Edward G. Lakatta, Claudia Langenberg, Olle Melander, Dennis O. Mook-Kanamori, Colin N.A. Palmer, Lorenz Risch, Robert A. Scott, Rodney J. Scott, Peter Sever, Tim D. Spector, Pim van der Harst, Nicholas J. Wareham, Eleftheria Zeggini, Daniel Levy, Patricia B. Munroe, Christopher Newton-Cheh, Morris J. Brown, Andres Metspalu, Bruce M. Psaty, Louise V. Wain, Paul Elliott, Mark J. Caulfield

“…Conclusion: Our findings provide a solid basis for follow-up studies to further identify genes and mechanisms in myofibroblast cells that underlie the regulation of BP.…”
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RNA-Seq and WGCNA Identify Key Regulatory Modules and Genes Associated with Water-Holding Capacity and Tenderness in Sheep by Liming Zhao, Fadi Li, Xiaoxue Zhang, Huibin Tian, Zongwu Ma, Xiaobin Yang, Qi Zhang, Mengru Pu, Peiliang Cao, Deyin Zhang, Yukun Zhang, Yuan Zhao, Jiangbo Cheng, Quanzhong Xu, Dan Xu, Xiaolong Li, Weimin Wang

“…LTN) groups. Comparative transcriptomics identified 270 differentially expressed genes (DEGs) linked to WHC, enriched in pathways like the regulation of the ATP metabolic process and the inhibition of canonical Wnt signaling. …”
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PACAP/PAC1 regulation in cystitis rats: induction of bladder inflammation cascade leading to bladder dysfunction by Hanwei Ke, Hanwei Ke, Lin Zhu, Weiyu Zhang, Weiyu Zhang, Huanrui Wang, Huanrui Wang, Zehua Ding, Zehua Ding, Dongyu Su, Dongyu Su, Qi Wang, Qi Wang, Kexin Xu, Kexin Xu

“…Intervention with PACAP/PAC1 pathway modulation in rats resulted in a marked reduction in bladder inflammation and improvement in bladder function, suggesting the pathway’s pivotal role in disease progression.DiscussionThe findings provide compelling evidence that the PACAP/PAC1 pathway is involved in the inflammatory and sensory changes observed in IC/BPS. …”
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RIPK2 promotes colorectal cancer metastasis by protecting YAP degradation from ITCH-mediated ubiquitination by Chen Lu, Hongda Liu, Tianyu Liu, Sizheng Sun, Yanan Zheng, Tao Ling, Xiagang Luo, Yiming E, Yuting Xu, Jie Li, Lei Liu, Lin Miao, Zhengxia Liu, Chunzhao Yu

“…Single-cell RNA sequencing and spatial transcriptomics revealed that a tumor cell cluster with high RIPK2 expression exhibited enhanced metastatic potential, closely linked to bacterial invasion. …”
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Alanine metabolism mediates energy allocation of the brown planthopper to adapt to resistant rice by Kai Lin, Lei Yue, Longyu Yuan, Kui Kang, Yibing Zhang, Rui Pang, Wenqing Zhang

“…An integrated analysis of metabolomes and transcriptomes from different BPH populations were conducted to identify the biomarkers. …”
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