keyword
https://read.qxmd.com/read/38429174/lung-cancer-reirradiation-exploring-modifications-to-utilization-treatment-modalities-and-factors-associated-with-outcomes
#21
JOURNAL ARTICLE
Anna Gullhaug, Vilde D Haakensen, Dirk De Ruysscher, Charles B Simone, Alexandra E Hotca-Cho, Arpit M Chhabra, Taran P Hellebust, Erna E Paulsen, Maria P Dimopoulos, Safora Johansen
BACKGROUND: Patients treated for lung cancer (LC) often experience locoregional failure after initial treatment. Due to technological advances, thoracic reirradiation (re-RT) has become a viable treatment option. We sought to investigate the use of thoracic re-RT in LC patients over a time period characterized by technological advances in a large, multi-center cohort. METHODS AND MATERIALS: LC patients treated with thoracic re-RT in two University Hospitals from 2010-2020 were identified...
February 29, 2024: Journal of Medical Imaging and Radiation Sciences
https://read.qxmd.com/read/38417480/histone-h3k4ac-as-a-marker-of-active-transcription-start-sites-and-enhancers-plays-roles-in-histone-eviction-and-rna-transcription
#22
JOURNAL ARTICLE
Jin Kang, Yujin Kang, AeRi Kim
The lysine 4 of histone H3 (H3K4) can be methylated or acetylated into four states: H3K4me1, H3K4me2, H3K4me3, or H3K4ac. Unlike H3K4 methylation, the genome-wide distribution and functional roles of H3K4ac remain unclear. To understand the relationship of acetylation with methylation at H3K4 and to explore the roles of H3K4ac in the context of chromatin, we analyzed H3K4ac across the human genome and compared it with H3K4 methylation in K562 cells. H3K4ac was positively correlated with H3K4me1/2/3 in reciprocal analysis...
February 26, 2024: Biochimica et Biophysica Acta. Gene Regulatory Mechanisms
https://read.qxmd.com/read/38409232/interplay-between-coding-and-non-coding-regulation-drives-the-arabidopsis-seed-to-seedling-transition
#23
JOURNAL ARTICLE
Benjamin J M Tremblay, Cristina P Santini, Yajiao Cheng, Xue Zhang, Stefanie Rosa, Julia I Qüesta
Translation of seed stored mRNAs is essential to trigger germination. However, when RNAPII re-engages RNA synthesis during the seed-to-seedling transition has remained in question. Combining csRNA-seq, ATAC-seq and smFISH in Arabidopsis thaliana we demonstrate that active transcription initiation is detectable during the entire germination process. Features of non-coding regulation such as dynamic changes in chromatin accessible regions, antisense transcription, as well as bidirectional non-coding promoters are widespread throughout the Arabidopsis genome...
February 26, 2024: Nature Communications
https://read.qxmd.com/read/38403903/exploration-of-global-and-specialized-near-infrared-calibrations-for-the-quantification-of-nutritional-content-in-grapevine-organs-berry-phenological-stages-and-shoot-lignification
#24
JOURNAL ARTICLE
Elizma van Wyngaard, Erna Blancquaert, Hélène Nieuwoudt, Jose Luis Aleixandre-Tudo
Current infrared spectroscopy applications in the field of viticulture are moving toward direct in-field measuring techniques. However, limited research is available on quantitative applications using direct measurement of fresh tissue. The few studies conducted have combined the spectral data from various cultivars, growing regions, grapevine organs, and phenological stages during model development. The spectral data from these heterogeneous samples are combined into a single data set and analyzed jointly during quantitative analysis...
February 25, 2024: Applied Spectroscopy
https://read.qxmd.com/read/38384468/complexation-of-fungal-extracellular-nucleic-acids-by-host-ll-37-peptide-shapes-neutrophil-response-to-candida-albicans-biofilm
#25
JOURNAL ARTICLE
Magdalena Juszczak, Marcin Zawrotniak, Maria Rapala-Kozik
Candida albicans remains the predominant cause of fungal infections, where adhered microbial cells form biofilms - densely packed communities. The central feature of C. albicans biofilms is the production of an extracellular matrix (ECM) consisting of polymers and extracellular nucleic acids (eDNA, eRNA), which significantly impedes the infiltration of host cells. Neutrophils, as crucial players in the innate host defense, employ several mechanisms to eradicate the fungal infection, including NETosis, endocytosis, or the release of granules containing, among others, antimicrobial peptides (AMPs)...
2024: Frontiers in Immunology
https://read.qxmd.com/read/38364279/detection-of-evoked-resonant-neural-activity-in-parkinson-s-disease
#26
JOURNAL ARTICLE
Wee-Lih Lee, Nicole Ward, Matthew Petoe, Ashton Moorhead, Kiaran Kohtaro Katori Lawson, San San Xu, Kristian Bulluss, Wesley Thevathasan, Hugh McDermott, Thushara Perera
This study investigated a machine-learning approach to detect the presence of evoked resonant neural activity (ERNA) recorded during deep brain stimulation (DBS) of the subthalamic nucleus (STN) in people with Parkinson's disease (PD). 
Methods: Seven binary classifiers were trained to distinguish ERNA from the background neural activity using eight different time-domain signal features. 
Results: Nested cross-validation revealed a strong classification performance of 99.1% accuracy, with 99...
February 16, 2024: Journal of Neural Engineering
https://read.qxmd.com/read/38362420/understanding-the-initial-events-of-the-oxidative-damage-and-protection-mechanisms-of-the-aa9-lytic-polysaccharide-monooxygenase-family
#27
JOURNAL ARTICLE
Marlisa M Hagemann, Erna K Wieduwilt, Erik D Hedegård
Lytic polysaccharide monooxygenase (LPMO) is a new class of oxidoreductases that boosts polysaccharide degradation employing a copper active site. This boost may facilitate the cost-efficient production of biofuels and high-value chemicals from polysaccharides such as lignocellulose. Unfortunately, self-oxidation of the active site inactivates LPMOs. Other oxidoreductases employ hole-hopping mechanisms as protection against oxidative damage, but little is generally known about the details of these mechanisms...
February 14, 2024: Chemical Science
https://read.qxmd.com/read/38351277/guidelines-for-the-development-performance-evaluation-and-validation-of-new-sleep-technologies-devsleeptech-guidelines-a-protocol-for-a-delphi-consensus-study
#28
REVIEW
Gabriel Natan Pires, Erna S Arnardóttir, Sébastien Bailly, Walter T McNicholas
New sleep technologies are being developed, refined and delivered at a fast pace. However, there are serious concerns about the validation and accuracy of new sleep-related technologies being made available, as many of them, especially consumer-sleep technologies, have not been tested in comparison with gold-standard methods or have been approved by health regulatory agencies. The importance of proper validation and performance evaluation of new sleep technologies has already been discussed in previous studies and some recommendations have already been published, but most of them do not employ standardized methodology and are not able to cover all aspects of new sleep technologies...
February 13, 2024: Journal of Sleep Research
https://read.qxmd.com/read/38343866/covid-19-vaccine-uptake-and-effectiveness-by-time-since-vaccination-in-the-western-cape-province-south-africa-an-observational-cohort-study-during-2020-2022
#29
Reshma Kassanjee, Mary-Ann Davies, Alexa Heekes, Hassan Mahomed, Anthony J Hawkridge, Milani Wolmarans, Erna Morden, Theuns Jacobs, Cheryl Cohen, Harry Moultrie, Richard J Lessells, Nicolette Van Der Walt, Juanita O Arendse, Hilary Goeiman, Vanessa Mudaly, Nicole Wolter, Sibongile Walaza, Waasila Jassat, Anne von Gottberg, Patrick L Hannan, Petro Rousseau, Daniel Feikin, Keith Cloete, Andrew Boulle
BACKGROUND: There are few data on the real-world effectiveness of COVID-19 vaccines and boosting in Africa, which experienced high levels of SARS-CoV-2 infection in a mostly vaccine-naïve population, and has limited vaccine coverage and competing health service priorities. We assessed the association between vaccination and severe COVID-19 in the Western Cape, South Africa. METHODS: We performed an observational cohort study of >2 million adults during 2020-2022...
January 25, 2024: medRxiv
https://read.qxmd.com/read/38326888/the-implementation-of-disaster-preparedness-training-integration-model-based-on-public-health-nursing-ilatgana-phn-to-increase-community-capacity-in-natural-disaster-prone-areas
#30
JOURNAL ARTICLE
Haris Sofyana, Kusman Ibrahim, Irvan Afriandi, Erna Herawati
Indonesia is at high risk of disasters. Therefore, nursing is expected to play a role in disaster risk reductions in communities. This study aimed to implement the Disaster Preparedness Training Integration Model based on Public Health Nursing (ILATGANA-PHN) to increase the Capacity of community in natural disaster-prone areas by assessing the preparedness level of families and communities in disaster-prone areas. The research method was developed in two stages, including the model preparation stage and the model implementation stage...
February 7, 2024: BMC Nursing
https://read.qxmd.com/read/38325179/identification-and-characterization-of-chd4-associated-erna-as-a-novel-modulator-of-fetal-hemoglobin-levels-in-%C3%AE-thalassemia
#31
JOURNAL ARTICLE
Yida Jiang, Yuhua Ye, Xinhua Zhang, Yanping Yu, Liping Huang, Xiuqin Bao, Xiangmin Xu
Fetal-to-adult hemoglobin switching is controlled by programmed silencing of γ-globin while the re-activation of fetal hemoglobin (HbF) is an effective strategy for ameliorating the clinical severity of β-thalassemia and sickle cell disease. The identification of enhancer RNAs (eRNAs) related to the fetal (α2γ2) to adult hemoglobin (α2β2) switching remains incomplete. In this study, the transcriptomes of GYPA+ cells from six β-thalassemia patients with extreme HbF levels were sequenced to identify differences in patterns of noncoding RNA expression...
March 15, 2024: Biochemical and Biophysical Research Communications
https://read.qxmd.com/read/38302497/pig-ernadb-a-comprehensive-enhancer-and-erna-dataset-of-pigs
#32
JOURNAL ARTICLE
Yifei Wang, Weiwei Jin, Xiangchun Pan, Weili Liao, Qingpeng Shen, Jiali Cai, Wentao Gong, Yuhan Tian, Dantong Xu, Yipeng Li, Jiaqi Li, Jing Gong, Zhe Zhang, Xiaolong Yuan
Enhancers and the enhancer RNAs (eRNAs) have been strongly implicated in regulations of transcriptions. Based the multi-omics data (ATAC-seq, ChIP-seq and RNA-seq) from public databases, Pig-eRNAdb is a dataset that comprehensively integrates enhancers and eRNAs for pigs using the machine learning strategy, which incorporates 82,399 enhancers and 37,803 eRNAs from 607 samples across 15 tissues of pigs. This user-friendly dataset covers a comprehensive depth of enhancers and eRNAs annotation for pigs. The coordinates of enhancers and the expression patterns of eRNAs are downloadable...
February 1, 2024: Scientific Data
https://read.qxmd.com/read/38290976/histone-deacetylases-maintain-expression-of-the-pluripotent-gene-network-via-recruitment-of-rna-polymerase-ii-to-coding-and-noncoding-loci
#33
JOURNAL ARTICLE
Richard D W Kelly, Kristy R Stengel, Aditya Chandru, Lyndsey C Johnson, Scott W Hiebert, Shaun M Cowley
Histone acetylation is a dynamic modification regulated by the opposing actions of histone acetyltransferases (HATs) and histone deacetylases (HDACs). Deacetylation of histone tails results in chromatin tightening, and therefore, HDACs are generally regarded as transcriptional repressors. Counterintuitively, simultaneous deletion of Hdac1 and Hdac2 in embryonic stem cells (ESCs) reduces expression of the pluripotency-associated transcription factors Pou5f1 , Sox2 , and Nanog (PSN). By shaping global histone acetylation patterns, HDACs indirectly regulate the activity of acetyl-lysine readers, such as the transcriptional activator BRD4...
January 30, 2024: Genome Research
https://read.qxmd.com/read/38289619/identification-of-an-immune-related-erna-prognostic-signature-for-clear-cell-renal-cell-carcinoma
#34
JOURNAL ARTICLE
Yang Lv, Lili Niu, Qiang Li, Wenchuan Shao, Xinghan Yan, Yang Li, Yulin Yue, Hongqi Chen
BACKGROUND: Immune-related enhancer RNAs (eRNAs) have garnered significant attention in cancer metabolism research, yet their specific roles in ccRCC have remained elusive. METHODS: We retrieved eRNA expression profiles from TCGA database and identified immune-related eRNAs (IREs) by assessing their co-expression with immune genes. Utilizing consensus clustering, we organized these IREs into two distinct clusters. The construction of an IREs signature was accomplished through the LASSO and multivariate Cox analysis...
January 29, 2024: Aging
https://read.qxmd.com/read/38282889/the-tricot-approach-an-agile-framework-for-decentralized-on-farm-testing-supported-by-citizen-science-a-retrospective
#35
REVIEW
Kauê de Sousa, Jacob van Etten, Rhys Manners, Erna Abidin, Rekiya O Abdulmalik, Bello Abolore, Kwabena Acheremu, Stephen Angudubo, Amilcar Aguilar, Elizabeth Arnaud, Adventina Babu, Mirna Barrios, Grecia Benavente, Ousmane Boukar, Jill E Cairns, Edward Carey, Happy Daudi, Maryam Dawud, Gospel Edughaen, James Ellison, Williams Esuma, Sanusi Gaya Mohammed, Jeske van de Gevel, Marvin Gomez, Joost van Heerwaarden, Paula Iragaba, Edith Kadege, Teshale M Assefa, Sylvia Kalemera, Fadhili Salum Kasubiri, Robert Kawuki, Yosef Gebrehawaryat Kidane, Michael Kilango, Heneriko Kulembeka, Adofo Kwadwo, Brandon Madriz, Ester Masumba, Julius Mbiu, Thiago Mendes, Anna Müller, Mukani Moyo, Kiddo Mtunda, Tawanda Muzhingi, Dean Muungani, Emmanuel T Mwenda, Ganga Rao V P R Nadigatla, Ann Ritah Nanyonjo, Sognigbé N'Danikou, Athanase Nduwumuremyi, Jean Claude Nshimiyimana, Ephraim Nuwamanya, Hyacinthe Nyirahabimana, Martina Occelli, Olamide Olaosebikan, Patrick Obia Ongom, Berta Ortiz-Crespo, Richard Oteng-Fripong, Alfred Ozimati, Durodola Owoade, Carlos F Quiros, Juan Carlos Rosas, Placide Rukundo, Pieter Rutsaert, Milindi Sibomana, Neeraj Sharma, Nestory Shida, Jonathan Steinke, Reuben Ssali, Jose Gabriel Suchini, Béla Teeken, Theophilus Kwabla Tengey, Hale Ann Tufan, Silver Tumwegamire, Elyse Tuyishime, Jacob Ulzen, Muhammad Lawan Umar, Samuel Onwuka, Tessy Ugo Madu, Rachel C Voss, Mary Yeye, Mainassara Zaman-Allah
Matching crop varieties to their target use context and user preferences is a challenge faced by many plant breeding programs serving smallholder agriculture. Numerous participatory approaches proposed by CGIAR and other research teams over the last four decades have attempted to capture farmers' priorities/preferences and crop variety field performance in representative growing environments through experimental trials with higher external validity. Yet none have overcome the challenges of scalability, data validity and reliability, and difficulties in capturing socio-economic and environmental heterogeneity...
2024: Agronomy for Sustainable Development
https://read.qxmd.com/read/38282575/integrated-analysis-of-transcriptome-and-epigenome-reveals-ensr00000272060-as-a-potential-biomarker-in-gastric-cancer
#36
JOURNAL ARTICLE
Basireh Bahrami, Markus Wolfien, Parvaneh Nikpour
Background: Enhancer RNAs (eRNAs) are involved in gene expression regulation. Although functional roles of eRNAs in the pathophysiology of neoplasms have been reported, their involvement in gastric cancer (GC) is less known. Materials & methods: A network-based integrative approach was utilized for analyzing transcriptome and epigenome alterations in GC, and an eRNA was selected for experimental validation. Survival analysis and clinicopathological associations were also performed. Results: A hub eRNA, ENSR00000272060 , showed significantly increased expression in tumor versus nontumor tissues, as well as an association with clinicopathological features...
January 29, 2024: Epigenomics
https://read.qxmd.com/read/38253167/context-matters-neural-processing-of-food-flavored-e-cigarettes-and-the-influence-of-smoking
#37
JOURNAL ARTICLE
Ina M Hellmich, Erna J Z Krüsemann, Joris R H van der Hart, Paul A M Smeets, Reinskje Talhout, Sanne Boesveldt
E-cigarettes are harmful, addictive, and popular. In e-cigarettes, nicotine is often paired with food-flavors. How this pairing of nicotine and food cues influences neural processing warrants investigation, as in smokers, both types of cues activate similar brain regions. Additionally, while most e-cigarettes are sweet, savory e-cigarettes are seemingly absent, although savory flavors are commonly liked in food. To understand how smoking status and type of flavor modulate reactions to food-flavored e-cigarettes, in comparison to actual food, neural and subjective responses to food odors were measured in a 2 (sweet vs...
January 20, 2024: Biological Psychology
https://read.qxmd.com/read/38251589/colchicine-twice-a-day-for-hand-osteoarthritis-color-a-double-blind-randomised-placebo-controlled-trial
#38
JOURNAL ARTICLE
Anna Døssing, Marius Henriksen, Karen Ellegaard, Sabrina Mai Nielsen, Lisa K Stamp, Felix C Müller, Margreet Kloppenburg, Ida K Haugen, Geraldine M McCarthy, Philip G Conaghan, Louise Ulff-Møller Dahl, Lene Terslev, Roy D Altman, Fabio Becce, Elisabeth Ginnerup-Nielsen, Lene Jensen, Mikael Boesen, Robin Christensen, Ulla Dal, Henning Bliddal
BACKGROUND: Colchicine has been suggested for osteoarthritis treatment, but evidence is contradictory. We aimed to investigate colchicine's efficacy and safety compared with placebo in people with hand osteoarthritis. METHODS: In this single-centre, double-blind, randomised, placebo-controlled trial we recruited adults with symptomatic hand osteoarthritis and finger pain of at least 40 mm on a 100 mm visual analogue scale from an outpatient clinic in Denmark. The hand with the most severe finger pain at inclusion was the target hand...
May 2023: Lancet Rheumatology
https://read.qxmd.com/read/38236481/super-enhancer-loci-of-egfr-regulate-egfr-variant-8-through-enhancer-rna-and-strongly-associate-with-survival-in-hnsccs
#39
JOURNAL ARTICLE
Sundaram Reddy Chakkarappan, Karuppiah Vijayamuthuramalingam Umadharshini, Shankar Dhamodharan, Mathew Maria Rose, Govindasamy Gopu, Avaniyapuram Kannan Murugan, Ituro Inoue, Arasambattu Kannan Munirajan
Epidermal growth factor receptor (EGFR) has been shown to be overexpressed in human cancers due to mutation, amplification, and epigenetic hyperactivity, which leads to deregulated transcriptional mechanism. Among the eight different EGFR isoforms, the mechanism of regulation of full-length variant 1 is well-known, no studies have examined the function & factors regulating the expression of variant 8. This study aimed to understand the function of EGFR super-enhancer loci and its associated transcription factors regulating the expression of EGFR variant 8...
January 18, 2024: Molecular Genetics and Genomics: MGG
https://read.qxmd.com/read/38219052/looking-for-clues-in-the-hypnogram-the-human-eye-and-the-machine
#40
EDITORIAL
Dirk A Pevernagie, Erna S Arnardottir
No abstract text is available yet for this article.
January 14, 2024: Sleep
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