keyword
https://read.qxmd.com/read/38509973/fgr-associated-placental-insufficiency-and-capillary-angiogenesis-involves-disruptions-in-human-placental-mirnas-and-mrnas
#21
JOURNAL ARTICLE
Wenhui Song, Qing Guo, Muraly Puttabyatappa, Venkateswaran Ramamoorthi Elangovan, Jianping Wang, Fang Li, Fangfang Liu, Xuejie Bi, Haiying Li, Guangping Fu, Vasantha Padmanabhan, XiaoHua Wu
Fetal growth restriction (FGR) is one of the most common pregnancy complications culminating in adverse fetal outcome, including preterm birth, neonatal mortality and stillbirth. Compromised placental development and function, especially disruption in angiogenesis and inadequate nutrient supply are contributing factors. Fetal sex also influences placental function. Knowledge of gene expression changes and epigenetic factors contributing to placental dysfunction in FGR pregnancies will help identify biomarkers and help target interventions...
March 30, 2024: Heliyon
https://read.qxmd.com/read/38504345/epigenetic-mlh1-silencing-concurs-with-mismatch-repair-deficiency-in-sporadic-naturally-occurring-colorectal-cancer-in-rhesus-macaques
#22
JOURNAL ARTICLE
Simon Deycmar, Brendan J Johnson, Karina Ray, George W Schaaf, Declan Patrick Ryan, Cassandra Cullin, Brandy L Dozier, Betsy Ferguson, Benjamin N Bimber, John D Olson, David L Caudell, Christopher T Whitlow, Kiran Kumar Solingapuram Sai, Emily C Romero, Francois J Villinger, Armando G Burgos, Hannah C Ainsworth, Lance D Miller, Gregory A Hawkins, Jeff W Chou, Bruno Gomes, Michael Hettich, Maurizio Ceppi, Jehad Charo, J Mark Cline
BACKGROUND: Naturally occurring colorectal cancers (CRC) in rhesus macaques share many features with their human counterparts and are useful models for cancer immunotherapy; but mechanistic data are lacking regarding the comparative molecular pathogenesis of these cancers. METHODS: We conducted state-of-the-art imaging including CT and PET, clinical assessments, and pathological review of 24 rhesus macaques with naturally occurring CRC. Additionally, we molecularly characterized these tumors utilizing immunohistochemistry (IHC), microsatellite instability assays, DNAseq, transcriptomics, and developed a DNA methylation-specific qPCR assay for MLH1, CACNA1G, CDKN2A, CRABP1, and NEUROG1, human markers for CpG island methylator phenotype (CIMP)...
March 19, 2024: Journal of Translational Medicine
https://read.qxmd.com/read/38501111/where-are-we-in-the-implementation-of-tissue-specific-epigenetic-clocks
#23
JOURNAL ARTICLE
Claudia Sala, Pietro Di Lena, Danielle Fernandes Durso, Italo Faria do Valle, Maria Giulia Bacalini, Daniele Dall'Olio, Claudio Franceschi, Gastone Castellani, Paolo Garagnani, Christine Nardini
Introduction: DNA methylation clocks presents advantageous characteristics with respect to the ambitious goal of identifying very early markers of disease, based on the concept that accelerated ageing is a reliable predictor in this sense. Methods: Such tools, being epigenomic based, are expected to be conditioned by sex and tissue specificities, and this work is about quantifying this dependency as well as that from the regression model and the size of the training set. Results: Our quantitative results indicate that elastic-net penalization is the best performing strategy, and better so when-unsurprisingly-the data set is bigger; sex does not appear to condition clocks performances and tissue specific clocks appear to perform better than generic blood clocks...
2024: Front Bioinform
https://read.qxmd.com/read/38500239/a-review-on-expression-and-regulatory-mechanisms-of-mir-337-3p-in-cancer
#24
REVIEW
Ghafour Yarahmadi, Sadegh Tavakoli Ataabadi, Zahra Dashti, Mehran Dehghanian
A group of diseases generally referred to as cancer represents a serious threat to people's health all over the world and has a significant negative influence on every aspect of the lives of patients. The development of cancer is influenced by several environmental, genetic, and epigenetic factors. MicroRNAs (miRNAs), a class of non-coding RNAs, can alter the expression of genes involved in cell proliferation, migration, metastasis, and apoptosis, lead to the pathogenesis of cancer. Additionally, several effectors modify miRNAs directly, including methylation, circular RNAs, and long non-coding RNAs (lncRNAs)...
March 18, 2024: Journal of Biomolecular Structure & Dynamics
https://read.qxmd.com/read/38494386/suppressor-t-helper-type-17-cell-responses-in-intestinal-transplant-recipients-with-allograft-rejection
#25
JOURNAL ARTICLE
Leonid Belyayev, Jiman Kang, Mohammed Sadat, Katrina Loh, Digvijay Patil, Vinona Muralidaran, Khalid Khan, Stuart Kaufman, Sukanya Subramanian, Yuriy Gusev, Krithika Bhuvaneshwar, Habtom Ressom, Rency Varghese, Udeme Ekong, Cal S Matsumoto, Simon C Robson, Thomas M Fishbein, Alexander Kroemer
BACKGROUND: Intestinal transplant (ITx) rejection is associated with memory T helper type 17 cell (Th17) infiltration of grafted tissues. Modulation of Th17 effector cell response is facilitated by T regulatory (Treg) cells, but a phenotypic characterization of this process is lacking in the context of allograft rejection. METHODS: Flow cytometry was performed to examine the expression of surface receptors, cytokines, and transcription factors in Th17 and Treg cells in ITx control (n = 34) and rejection patients (n = 23)...
March 16, 2024: Human Immunology
https://read.qxmd.com/read/38492362/label-free-plasmonic-spectral-profiling-of-serum-dna
#26
JOURNAL ARTICLE
Peng Zheng, Piyush Raj, Le Liang, Lintong Wu, Santosh Kumar Paidi, Jeong Hee Kim, Ishan Barman
Genetic and epigenetic modifications are linked to the activation of oncogenes and inactivation of tumor suppressor genes. Likewise, the associated molecular alternations can best inform precision medicine for personalized tumor treatment. Therefore, performing characterization of genetic and epigenetic alternations at the molecular level represents a crucial step in early diagnosis and/or therapeutics of cancer. However, the prevailing methods for DNA analysis involve a series of tedious and complicated steps, in which important genetic and epigenetic information could be lost or altered...
March 13, 2024: Biosensors & Bioelectronics
https://read.qxmd.com/read/38487265/mir-146a-is-a-critical-target-associated-with-multiple-biological-pathways-of-skin-aging
#27
JOURNAL ARTICLE
Klodjan Stafa, Antonella Rella, Whitby Eagle, Kelly Dong, Kelsey Morris, Dawn Layman, Krystle Corallo, Jacqueline Trivero, Robert Maidhof, Earl Goyarts, Nadine Pernodet
Introduction: The skin is the largest organ of the human body and fulfills protective, immune, and metabolic functions. Skin function and barrier integrity are actively regulated through circadian rhythm-associated genes and epigenetic mechanisms including DNA methylation/demethylation, histone acetylation/deacetylation, and microRNAs. MicroRNA-146a-5p (miR-146a) has been associated with immune activation and skin inflammation; however, the role of miR-146a in regulating skin aging is an open question. This study investigated the role of miR-146a in fibroblasts obtained from different donors in the context of aging, and a potential association of this miRNA with circadian rhythm...
2024: Frontiers in Physiology
https://read.qxmd.com/read/38485186/biomarkers-for-response-to-til-therapy-a-comprehensive-review
#28
REVIEW
Víctor Albarrán Fernández, Pablo Ballestín Martínez, Joachim Stoltenborg Granhøj, Troels Holz Borch, Marco Donia, Inge Marie Svane
Adoptive cell therapy with tumor-infiltrating lymphocytes (TIL) has demonstrated durable clinical responses in patients with metastatic melanoma, substantiated by recent positive results of the first phase III trial on TIL therapy. Being a demanding and logistically complex treatment, extensive preclinical and clinical effort is required to optimize patient selection by identifying predictive biomarkers of response. This review aims to comprehensively summarize the current evidence regarding the potential impact of tumor-related factors (such as mutational burden, neoantigen load, immune infiltration, status of oncogenic driver genes, and epigenetic modifications), patient characteristics (including disease burden and location, baseline cytokines and lactate dehydrogenase serum levels, human leucocyte antigen haplotype, or prior exposure to immune checkpoint inhibitors and other anticancer therapies), phenotypic features of the transferred T cells (mainly the total cell count, CD8:CD4 ratio, ex vivo culture time, expression of exhaustion markers, costimulatory signals, antitumor reactivity, and scope of target tumor-associated antigens), and other treatment-related factors (such as lymphodepleting chemotherapy and postinfusion administration of interleukin-2)...
March 13, 2024: Journal for Immunotherapy of Cancer
https://read.qxmd.com/read/38484979/hepatic-effects-of-low-carbohydrate-diet-associated-with-different-lipid-sources-insights-into-oxidative-stress-cytotoxicity-and-epigenetic-markers-in-a-mice-model-of-obesity
#29
JOURNAL ARTICLE
Aline Boveto Santamarina, Marcela Nascimento Sertorio, Laís Vales Mennitti, Esther Alves de Souza, Daniel Vitor de Souza, Daniel Araki Ribeiro, Luciana Pellegrini Pisani
BACKGROUND: Low-carbohydrate and high-fat diet (LCHF) models have been widely explored as alternatives for treating obesity and promoting weight loss. Their effect is attributed to the change in energy substrate that stimulates ketogenic pathways that can metabolically overload the liver. However, little has been studied about the impact of lipid sources prioritized in the LCHF diet. OBJECTIVE: This study aims to evaluate the impact of different fat sources in the LCHF diet on markers of liver injury, oxidative stress, and epigenetics in obesity...
March 12, 2024: Journal of Nutrition
https://read.qxmd.com/read/38482663/dna-methylation-marker-identification-and-poly-methylation-risk-score-in-prediction-of-healthspan-termination
#30
JOURNAL ARTICLE
Meiqi Yang, Mei Wang, Xiaoyu Zhao, Feifei Xu, Shuang Liang, Yifan Wang, Nanxi Wang, Muhammed Lamin Sambou, Yue Jiang, Juncheng Dai
Aim: To elucidate the epigenetic consequences of DNA methylation in healthspan termination (HST), considering the current limited understanding. Materials & methods: Genetically predicted DNA methylation models were established (n = 2478). These models were applied to genome-wide association study data on HST. Then, a poly-methylation risk score (PMRS) was established in 241,008 individuals from the UK Biobank. Results: Of the 63,046 CpGs from the prediction models, 13 novel CpGs were associated with HST...
March 14, 2024: Epigenomics
https://read.qxmd.com/read/38482131/nonpathogenic-leaf-colonizing-bacteria-elicit-pathogen-like-responses-in-a-colonization-density-dependent-manner
#31
JOURNAL ARTICLE
Moritz Miebach, Léa Faivre, Daniel Schubert, Paula Jameson, Mitja Remus-Emsermann
Leaves are colonized by a complex mix of microbes, termed the leaf microbiota. Even though the leaf microbiota is increasingly recognized as an integral part of plant life and health, our understanding of its interactions with the plant host is still limited. Here, mature, axenically grown Arabidopsis thaliana plants were spray inoculated with six diverse leaf-colonizing bacteria. The transcriptomic changes in leaves were tracked over time and significant changes in ethylene marker ( ARL2 ) expression were observed only 2-4 days after spray inoculation...
April 2024: Plant Environ Interact
https://read.qxmd.com/read/38480856/epigenetic-associations-in-hpa-axis-genes-related-to-bronchopulmonary-dysplasia-and-antenatal-steroids
#32
JOURNAL ARTICLE
Kenyaita M Hodge, Vasyl Zhabotynsky, Amber A Burt, Brian S Carter, Rebecca C Fry, Jennifer Helderman, Julie A Hofheimer, Elisabeth C McGowan, Charles R Neal, Steven L Pastyrnak, Lynne M Smith, Sheri A DellaGrotta, Lynne M Dansereau, Barry M Lester, Carmen J Marsit, T Michael O'Shea, Todd M Everson
BACKGROUND: Bronchopulmonary dysplasia (BPD), a common morbidity among very preterm infants, is associated with chronic disease and neurodevelopmental impairments. A hypothesized mechanism for these outcomes lies in altered glucocorticoid (GC) activity. We hypothesized that BPD and its treatments may result in epigenetic differences in the hypothalamic-pituitary-adrenal (HPA) axis, which is modulated by GC, and could be ascertained using an established GC risk score and DNA methylation (DNAm) of HPA axis genes...
March 13, 2024: Pediatric Research
https://read.qxmd.com/read/38480537/cellular-senescence-gene-tacc3-associated-with-colorectal-cancer-risk-via-genetic-and-dna-methylated-alteration
#33
JOURNAL ARTICLE
Hengyang Shen, Yang Chen, Menghuan Xu, Jieyu Zhou, Changzhi Huang, Zhenling Wang, Yu Shao, Hongqiang Zhang, Yunfei Lu, Shuwei Li, Zan Fu
Cell senescence genes play a vital role in the pathogenesis of colorectal cancer, a process that may involve the triggering of genetic variations and reversible phenotypes caused by epigenetic modifications. However, the specific regulatory mechanisms remain unclear. Using CellAge and The Cancer Genome Atlas databases and in-house RNA-seq data, DNA methylation-modified cellular senescence genes (DMCSGs) were validated by Support Vector Machine and correlation analyses. In 1150 cases and 1342 controls, we identified colorectal cancer risk variants in DMCSGs...
March 14, 2024: Archives of Toxicology
https://read.qxmd.com/read/38478957/chromatin-and-nucleosome-associated-features-in-liquid-biopsy-implications-for-cancer-biomarker-discovery
#34
JOURNAL ARTICLE
Lucas Penny, Sasha Main, Steven De Michino, Scott Bratman
Cell-free DNA (cfDNA) from the bloodstream has been studied for cancer biomarker discovery, and chromatin-derived epigenetic features have come into the spotlight for their potential to expand clinical applications. Methylation, fragmentation, and nucleosome positioning patterns of cfDNA have previously been shown to reveal epigenomic and inferred transcriptomic information. More recently, histone modifications have emerged as a tool to further identify tumor-specific chromatin variants in plasma. A number of sequencing methods have been developed to analyze these epigenetic markers, offering new insights into tumor biology...
March 13, 2024: Biochemistry and Cell Biology
https://read.qxmd.com/read/38474285/the-transcriptional-landscape-of-immune-response-3-utr-alternative-polyadenylation-in-melanoma
#35
JOURNAL ARTICLE
Xiao Yang, Yingyi Wu, Xingyu Chen, Jiayue Qiu, Chen Huang
The prognosis of patients with malignant melanoma has been improved in recent decades due to advancements in immunotherapy. However, a considerable proportion of patients are refractory to treatment, particularly at advanced stages. This underscores the necessity of developing a new strategy to improve it. Alternative polyadenylation (APA), as a marker of crucial posttranscriptional regulation, has emerged as a major new type of epigenetic marker involved in tumorigenesis. However, the potential roles of APA in shaping the tumor microenvironment (TME) are largely unexplored...
March 6, 2024: International Journal of Molecular Sciences
https://read.qxmd.com/read/38473991/isothiocyanates-potentiate-tazemetostat-induced-apoptosis-by-modulating-the-expression-of-apoptotic-genes-members-of-polycomb-repressive-complex-2-and-levels-of-tri-methylating-lysine-27-at-histone-3-in-human-malignant-melanoma-cells
#36
JOURNAL ARTICLE
Ioannis Anestopoulos, Ioannis Paraskevaidis, Sotiris Kyriakou, Lambrini E Giova, Dimitrios T Trafalis, Sotiris Botaitis, Rodrigo Franco, Aglaia Pappa, Mihalis I Panayiotidis
In this study, we utilized an in vitro model consisting of human malignant melanoma as well as non-tumorigenic immortalized keratinocyte cells with the aim of characterizing the therapeutic effectiveness of the clinical epigenetic drug Tazemetostat alone or in combination with various isothiocyanates. In doing so, we assessed markers of cell viability, apoptotic induction, and expression levels of key proteins capable of mediating the therapeutic response. Our data indicated, for the first time, that Tazemetostat caused a significant decrease in viability levels of malignant melanoma cells in a dose- and time-dependent manner via the induction of apoptosis, while non-malignant keratinocytes were more resistant...
February 27, 2024: International Journal of Molecular Sciences
https://read.qxmd.com/read/38473892/exploring-the-genetic-landscape-of-mild-behavioral-impairment-as-an-early-marker-of-cognitive-decline-an-updated-review-focusing-on-alzheimer-s-disease
#37
REVIEW
Efthalia Angelopoulou, Christos Koros, Alexandros Hatzimanolis, Leonidas Stefanis, Nikolaos Scarmeas, Sokratis G Papageorgiou
The clinical features and pathophysiology of neuropsychiatric symptoms (NPSs) in dementia have been extensively studied. However, the genetic architecture and underlying neurobiological mechanisms of NPSs at preclinical stages of cognitive decline and Alzheimer's disease (AD) remain largely unknown. Mild behavioral impairment (MBI) represents an at-risk state for incident cognitive impairment and is defined by the emergence of persistent NPSs among non-demented individuals in later life. These NPSs include affective dysregulation, decreased motivation, impulse dyscontrol, abnormal perception and thought content, and social inappropriateness...
February 24, 2024: International Journal of Molecular Sciences
https://read.qxmd.com/read/38473317/melatonin-and-its-role-in-the-epithelial-to-mesenchymal-transition-emt-in-cancer
#38
REVIEW
Carlos Martínez-Campa, Virginia Álvarez-García, Carolina Alonso-González, Alicia González, Samuel Cos
The epithelial-to-mesenchymal transition (EMT) is a cell-biological program that occurs during the progression of several physiological processes and that can also take place during pathological situations such as carcinogenesis. The EMT program consists of the sequential activation of a number of intracellular signaling pathways aimed at driving epithelial cells toward the acquisition of a series of intermediate phenotypic states arrayed along the epithelial-mesenchymal axis. These phenotypic features include changes in the motility, conformation, polarity and functionality of cancer cells, ultimately leading cells to stemness, increased invasiveness, chemo- and radioresistance and the formation of cancer metastasis...
February 27, 2024: Cancers
https://read.qxmd.com/read/38472317/prenatal-dexamethasone-exposure-impairs-rat-blood-testis-barrier-function-and-sperm-quality-in-adult-offspring-via-gr-kdm1b-fstl3-tgf%C3%AE-signaling
#39
JOURNAL ARTICLE
Yi Liu, Si-Jia Chen, Can Ai, Peng-Xia Yu, Man Fang, Hui Wang
Both epidemiological and animal studies suggest that adverse environment during pregnancy can change the offspring development programming, but it is difficult to achieve prenatal early warning. In this study we investigated the impact of prenatal dexamethasone exposure (PDE) on sperm quality and function of blood-testis barrier (BTB) in adult offspring and the underlying mechanisms. Pregnant rats were injected with dexamethasone (0.1, 0.2 and 0.4 mg·kg-1 ·d-1 , s.c.) from GD9 to GD20. After weaning (PW4), the pups were fed with lab chow...
March 12, 2024: Acta Pharmacologica Sinica
https://read.qxmd.com/read/38468193/diseasenet-a-transfer-learning-approach-to-noncommunicable-disease-classification
#40
JOURNAL ARTICLE
Steven Gore, Bailey Meche, Danyang Shao, Benjamin Ginnett, Kelly Zhou, Rajeev K Azad
As noncommunicable diseases (NCDs) pose a significant global health burden, identifying effective diagnostic and predictive markers for these diseases is of paramount importance. Epigenetic modifications, such as DNA methylation, have emerged as potential indicators for NCDs. These have previously been exploited in other contexts within the framework of neural network models that capture complex relationships within the data. Applications of neural networks have led to significant breakthroughs in various biological or biomedical fields but these have not yet been effectively applied to NCD modeling...
March 11, 2024: BMC Bioinformatics
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