Ferroptosis Transcriptional Regulation and Prognostic Impact in Medulloblastoma Subtypes Revealed by RNA-Seq by Christophe Desterke, Yuanji Fu, Jenny Bonifacio-Mundaca, Claudia Monge, Pascal Pineau, Jorge Mata-Garrido, Raquel Francés

“…One module, associated with disease recurrence, included epigenetic regulators and nucleosome organizers. Univariable survival analyses identified a 45-gene ferroptosis prognostic signature associated with nutrient sensing, cysteine and methionine metabolism, and trans-sulfuration within a one-carbon metabolism. …”
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HDC1 Promotes Primary Root Elongation by Regulating Auxin and K⁺ Homeostasis in Response to Low-K⁺ Stress by Xiaofang Kuang, Hao Chen, Jing Xiang, Juan Zeng, Qing Liu, Yi Su, Chao Huang, Ruozhong Wang, Wanhuang Lin, Zhigang Huang

“…Histone modifications, such as de-/acetylation, can function as epigenetic markers of stress-inducible genes. However, the signaling network between histone modifications and low-K⁺ (LK) response pathways remains unclear. …”
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DNA Methylation and Transcriptome Profiling Reveal the Role of the Antioxidant Pathway and Lipid Metabolism in <i>Plectropomus leopardus</i> Skin Color Formation by Yang Liu, Linna Wang, Zhentong Li, Linlin Li, Tangtang Ding, Shuai Chen, Pengfei Duan, Xinyi Wang, Yishu Qiu, Xiaoyu Ding, Yongsheng Tian

“…Our results provide new insight into the molecular and epigenetic mechanisms of body color variation, representing a significant step towards breeding for the red skin trait in <i>P. leopardus</i>.…”
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Characterization and functional analysis of conserved non-coding sequences among poaceae: insights into gene regulation and phenotypic variation in maize by Yi Luo, Hang Zhai, Xiu Zhong, Bo Yang, Yang Xu, Tianhong Liu, Qi Wang, Yang Zhou, Yan Mao, Yaxi Liu, Qi Tang, Yanli Lu, Yao Wang, Jie Xu

“…To investigate the epigenetic modification patterns in CNS, ChIP-Seq data for histone modifications H3K9ac, H3K4me3, H3K36me3, H3K9me3, and H3K27ac were further analyzed to depict the changes along CNS. …”
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DNMT3a Downregulation Ttriggered Upregulation of GABAA Receptor in the mPFC Promotes Paclitaxel‐Induced Pain and Anxiety in Male Mice by Lixia Tian, Xu‐Hui Li, Yu‐Long Zhao, Hui‐Yuan Yi, Xue‐Ru Liu, Rongrong Yao, Xue‐Mei Hou, Xuan Zhu, Fu‐Quan Huo, Tao Chen, Lingli Liang

“…These findings suggest that the DNMT3a‐mediated upregulation of GABAARβ1 in the mPFC contributes to PTX‐induced neuropathic pain and anxiety, highlighting DNA methylation‐dependent epigenetic regulation as a potential therapeutic target for addressing chemotherapy‐induced cortical dysfunction.…”
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ALKBH5 suppresses gastric cancer tumorigenesis and metastasis by inhibiting the translation of uncapped WRAP53 RNA isoforms in an m6A-dependent manner by Ziqi Zheng, Feizhi Lin, Baiwei Zhao, Guoming Chen, Chengzhi Wei, Xiaojiang Chen, Runcong Nie, Ruopeng Zhang, Zhoukai Zhao, Zhiwei Zhou, Yuanfang Li, Weigang Dai, Yijia Lin, Yongming Chen

“…Abstract The N6-methyladenosine (m6A) modification serves as an essential epigenetic regulator in eukaryotic cells, playing a significant role in tumorigenesis and cancer progression. …”
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The methyl-CpG binding domain 2 regulates peptidylarginine deiminase 4 expression and promotes neutrophil extracellular trap formation via the Janus kinase 2 signaling pathway in e... by Biao Peng, Mu-Yun Yan, Yun-Rong Chen, Fei Sun, Xu-Dong Xiang, Da Liu

“…The methyl-CpG binding domain protein 2 (MBD2) participates in neutrophil-mediated severe asthma through epigenetic regulation. Neutrophil extracellular traps (NETs) play a critical role in the pathogenesis of severe asthma. …”
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Functional effect of adiponectin and body composition assessment in lung cancer subjects after video‐assisted thoracoscopic surgery (VATS) lobectomy by Gaetana Messina, Giovanni Natale, Alfonso Fiorelli, Maria Antonietta Puca, Fiorenzo Moscatelli, Vincenzo Monda, Marcellino Monda, Marina Di Domenico, Carminia Maria Della Corte, Gabriella Marsala, Giuseppe Vicario, Carmine Dalia, Paola Bassi, Beatrice Leonardi, Antonella De Maria, Antonietta Monda, Giovanni Messina, Antonietta Messina, Rita Polito

“…It is a multifactorial disease characterized by epigenetic and nutritional factors. Indeed, there is a strong association between adipose tissue and the pulmonary system, and low‐grade inflammation of obese and/or overweight subjects have a pivotal role in lung cancer establishment. …”
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Efficacy and cost-effectiveness of an ACT and compassion-based intervention for women with breast cancer: study protocol of two randomised controlled trials {1} by Inês A. Trindade, Andreia Soares, David Skvarc, Diogo Carreiras, Joana Pereira, Óscar Lourenço, Filipa Sampaio, Bruno de Sousa, Teresa C. Martins, Paula Boaventura, Joana Marta-Simões, Mind Project Team, Helena Moreira

“…Study 1 will also include immunological and epigenetic markers associated with breast cancer prognosis and mental health. …”
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The association of visceral and subcutaneous fat areas with phenotypic age in non-elderly adults, mediated by HOMA-IR and HDL-C by Yuanhong Liu, Min Xu, Liqing Wang, Linyun Meng, Mengran Li, Shumin Mu

“…Abstract Background Ageing results in diminished adaptability, as well as declines in physiological and psychological functions and resilience. The epigenetic clock ‘Phenotypic Age’ (PhenoAge) represents ‘preclinical ageing’. …”
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Cancer stem cells and tumor-associated macrophages as mates in tumor progression: mechanisms of crosstalk and advanced bioinformatic tools to dissect their phenotypes and interacti... by Francesco Verona, Sebastiano Di Bella, Roberto Schirano, Camilla Manfredi, Francesca Angeloro, Giulia Bozzari, Matilde Todaro, Matilde Todaro, Giuseppe Giannini, Giuseppe Giannini, Giorgio Stassi, Veronica Veschi

“…Interestingly, the bidirectional influence of CSCs and TME leads to an epigenetic reprogramming which sustains malignant transformation. …”
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Leveraging AI to automate detection and quantification of extrachromosomal DNA to decode drug responses by Kohen Goble, Aarav Mehta, Damien Guilbaud, Jacob Fessler, Jingting Chen, William Nenad, William Nenad, Christina G. Ford, Oliver Cope, Darby Cheng, William Dennis, Nithya Gurumurthy, Yue Wang, Kriti Shukla, Elizabeth Brunk, Elizabeth Brunk, Elizabeth Brunk, Elizabeth Brunk, Elizabeth Brunk

“…This pipeline is tailored to monitor ecDNA dynamics during drug treatment.ResultsOur approach effectively quantified ecDNA changes, providing a robust framework for analyzing the adaptive responses of cancer cells under therapeutic pressure.DiscussionThe pipeline not only serves as a valuable resource for automating ecDNA detection in metaphase FISH images but also highlights the role of ecDNA in facilitating swift and reversible adaptation to epigenetic remodeling agents such as JQ1.…”
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Intravesical BCG in patients with non-muscle invasive bladder cancer induces trained immunity and decreases respiratory infections by J Alfred Witjes, Alina Vrieling, Mihai G Netea, Leo A B Joosten, Katja K H Aben, Sita H Vermeulen, Joost L Boormans, Antoine G van der Heijden, Boris Novakovic, Jelmer H van Puffelen, Liesbeth van Emst, Denise Kooper, Tahlita C M Zuiverloon, Ursula T H Oldenhof, Tessel E Galesloot, Lambertus A L M Kiemeney, Egbert Oosterwijk

“…Ex vivo cytokine production by peripheral blood mononuclear cells, epigenetic modifications, and changes in the monocyte transcriptome were measured. …”
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EGFR inhibition augments the therapeutic efficacy of the NAT10 inhibitor Remodelin in Colorectal cancer by Yongbin Zheng, Dan Song, Ming Guo, Chenhong Wang, Mingzhen Ma, Gongcai Tao, Licui Liu, Xiaobo He, Fengyu Cao, Dan Luo, Qingchuan Zhao, Zhongyuan Xia, Yanxin An

“…However, treatment with the NAT10 inhibitor Remodelin induced only a limited and reversible growth arrest in CRC cells. Further epigenetic and transcriptomic analysis revealed that NAT10 enhances the stability of ERRFI1 mRNA by binding to its coding sequence region in an ac4C-dependent manner. …”
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Stratification system with dual human endogenous retroviruses for predicting immunotherapy efficacy in metastatic clear-cell renal cell carcinoma by Li Xu, Stephane Oudard, Catherine Sautes-Fridman, Xiaoping Su, Gabriel G. Malouf, Virginie Verkarre, Salma Kotti, Fangrong Yan, Yann-Alexandre Vano, Wolf Herve Fridman, Cheng-Ming Sun, Xiaofan Lu, Wenxuan Cheng

“…Notably, this ERV-based classification outperformed traditional transcriptomic signatures in predicting ICI efficacy and showed further improvement when combined with epigenetic DNA methylation markers.Conclusions Our findings introduce a dual ERV-based stratification system that effectively categorizes patient risk and predicts clinical outcomes for ccRCC patients undergoing ICI therapy. …”
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scCamAge: A context-aware prediction engine for cellular age, aging-associated bioactivities, and morphometrics by Vishakha Gautam, Subhadeep Duari, Saveena Solanki, Mudit Gupta, Aayushi Mittal, Sakshi Arora, Anmol Aggarwal, Anmol Kumar Sharma, Sarthak Tyagi, Rathod Kunal Pankajbhai, Arushi Sharma, Sonam Chauhan, Shiva Satija, Suvendu Kumar, Sanjay Kumar Mohanty, Juhi Tayal, Nilesh Kumar Dixit, Debarka Sengupta, Anurag Mehta, Gaurav Ahuja

“…We present scCamAge, an advanced context-aware multimodal prediction engine that co-leverages image-based cellular spatiotemporal features at single-cell resolution alongside cellular morphometrics and aging-associated bioactivities such as genomic instability, mitochondrial dysfunction, vacuolar dynamics, reactive oxygen species levels, and epigenetic and proteasomal dysfunctions. scCamAge employed heterogeneous datasets comprising ∼1 million single yeast cells and was validated using pro-longevity drugs, genetic mutants, and stress-induced models. scCamAge also predicted a pro-longevity response in yeast cells under iterative thermal stress, confirmed using integrative omics analyses. …”
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FTO rs17817449 Variant Increases the Risk of Severe Obesity in a Brazilian Cohort: A Case-Control Study by Salum KCR, Assis ISS, Kopke ÚA, Palhinha L, Abreu GM, Gouvêa LW, Teixeira MR, Mattos FCC, Nogueira Neto JF, Felício RFM, Rosado EL, Zembrzuski VM, Campos Junior M, Maya-Monteiro CM, Cabello PH, Carneiro JRI, Bozza PT, Kohlrausch FB, da Fonseca ACP

“…Kaio Cezar Rodrigues Salum,1,2 Izadora Sthephanie da Silva Assis,1,2 Úrsula de Almeida Kopke,3 Lohanna Palhinha,4 Gabriella de Medeiros Abreu,2,5 Laura Wendling Gouvêa,1,2 Myrela Ribeiro Teixeira,2,6,7 Fernanda Cristina C Mattos,5 José Firmino Nogueira Neto,8 Rafaela de Freitas Martins Felício,9,10 Eliane Lopes Rosado,5 Verônica Marques Zembrzuski,2 Mario Campos Junior,2 Clarissa Menezes Maya-Monteiro,4 Pedro Hernán Cabello,2 João Regis Ivar Carneiro,1 Patrícia Torres Bozza,4 Fabiana Barzotto Kohlrausch,6 Ana Carolina Proença da Fonseca2,4,11 1Medical Clinic Department, Federal University of Rio de Janeiro, Rio de Janeiro, Brazil; 2Human Genetics Laboratory, Oswaldo Cruz Institute, Rio de Janeiro, Brazil; 3Chester Medical School, University of Chester, Chester, UK; 4Laboratory of Immunopharmacology, Oswaldo Cruz Institute, Rio de Janeiro, Brazil; 5Institute of Nutrition Josué de Castro, Federal University of Rio de Janeiro, Rio de Janeiro, Brazil; 6Human Genetics Laboratory, Institute of Biology, Federal Fluminense University Niterói, Rio de Janeiro, Brazil; 7Postgraduate in Sciences and Biotechnology, Fluminense Federal University Niterói, Rio de Janeiro, Brazil; 8Department of Pathology and Laboratory, Rio de Janeiro State University, Rio de Janeiro, Brazil; 9Birth Defect Epidemiology laboratory, Oswaldo Cruz Institute, Rio de Janeiro, Brazil; 10Health Care Network for Congenital Anomalies of the Central Nervous System, Instituto Oswaldo Cruz, Rio de Janeiro, Brazil; 11Genetics Laboratory, Grande Rio University, Rio de Janeiro, BrazilCorrespondence: Ana Carolina Proença da Fonseca, Laboratory of Immunopharmacology, Oswaldo Cruz Institute, Oswaldo Cruz Foundation (Fiocruz), 4365 Brasil Avenue, 108 Building – Office 44, Rio de Janeiro, 21040-360, Brazil, Tel +55(21)38658192, Email ana.proenca@ioc.fiocruz.br Kaio Cezar Rodrigues Salum, Human Genetics Laboratory, Oswaldo Cruz Institute, Oswaldo Cruz Foundation (Fiocruz), 4365 Brasil Avenue, Leônidas Deane Building – Office 611/615, Rio de Janeiro, 21040-360, Brazil, Tel +55 21 38658213, Fax +55 21 38658239, Email kaio.salum@hotmail.comPurpose: Obesity is a complex disease caused by a combination of genetic, environmental, and epigenetic factors, and is associated with an increased risk of chronic diseases. …”
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Associations of HLA-G 3’UTR polymorphisms and increased HLA-G expression with gastric cancer susceptibility and prognosis by Ines Zemni, Daria Bortolotti, Sabrine Dhouioui, Sana Baroudi, Malek Ferjani, Inès Nasri, Yosr Zenzri, Md Ataur Rahman, Abdel Halim Harrath, Roberta Rizzo, Nadia Boujelbene, Inès Zidi

“…Background: Gastric cancer (GC) remains a serious health concern and is characterized by a multifactorial etiology involving both genetic and epigenetic factors. The aim of the current study was to examine the relationship between Human leukocyte antigen (HLA)-G 3’UTR polymorphisms and the expression of HLA-G in both tumor tissues and plasma samples from patients with GC in the Tunisian population. …”
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Patient-derived follicular lymphoma spheroids recapitulate lymph node signaling and immune profile uncovering galectin-9 as a novel immunotherapeutic target by Cèlia Dobaño-López, Juan García Valero, Ferran Araujo-Ayala, Ferran Nadeu, Fabien Gava, Carla Faria, Marine Norlund, Renaud Morin, Pascale Bernes-Lasserre, Fabian Arenas, Marta Grau, Cristina López, Irene López-Oreja, Neus Serrat, Ares Martínez-Farran, Lluís Hernández, Heribert Playa-Albinyana, Rubén Giménez, Silvia Beà, Elías Campo, Jean-Michel Lagarde, Armando López-Guillermo, Laura Magnano, Dolors Colomer, Christine Bezombes, Patricia Pérez-Galán

“…FL-PDLS recapitulates the most relevant B-cell transcriptional pathways present in FL-LN (proliferation, epigenetic regulation, mTOR, adaptive immune system, among others). …”
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Mapping naturally presented T cell antigens in medulloblastoma based on integrative multi-omics by Julia Velz, Lena K. Freudenmann, Gioele Medici, Marissa Dubbelaar, Malte Mohme, David R. Ghasemi, Jonas Scheid, Daniel J. Kowalewski, Angelica B. Patterson, Anna M. Zeitlberger, Katrin Lamszus, Manfred Westphal, Matthias Eyrich, Martina Messing-Jünger, Andreas Röhrig, Harald Reinhard, Kévin Beccaria, Rogeiro B. Craveiro, Beat M. Frey, Martin Sill, Sven Nahnsen, Marie Gauder, Konstantina Kapolou, Manuela Silginer, Tobias Weiss, Hans-Georg Wirsching, Patrick Roth, Michael Grotzer, Niklaus Krayenbühl, Oliver Bozinov, Luca Regli, Hans-Georg Rammensee, Elisabeth J. Rushing, Felix Sahm, Juliane S. Walz, Michael Weller, Marian C. Neidert

“…Integration of immunopeptidomics, transcriptomics, and epigenetic data leads to the identification of a large set of actionable targets that can be further used for the translation into the clinical setting by facilitating the informed design of immunotherapeutic approaches to children with medulloblastoma.…”
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