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Keywords: gene expression
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The contribution of small RNAs to the evolution of separate sexes and sex chromosomes in the plant Silene latifolia
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Eddy Mendoza-Galindo and Aline Muyle
Journal of Evolutionary Biology, voaf051, https://doi.org/10.1093/jeb/voaf051
Published: 04 May 2025
... Y degeneration leads to the formation of sRNAs that can interact with both X and Y genes in males due to X-Y sequence homology. Our work calls for future investigation of the impact of these sRNAs generated from the Y chromosome on X gene expression in males. Graphical abstract Graphical Abstract...
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Endogenous regulation of behavior and reproductive physiology in a resident passerine songbird
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Shirin Fatima and others
Biology of Reproduction, ioaf073, https://doi.org/10.1093/biolre/ioaf073
Published: 02 May 2025
... and measured body weight, histological changes, active and sleep behavior, and hypothalamic gene expressions. Body fattening, gonadal recrudescence, and organ-specific lipid accumulation were observed during the breeding phase. Increased allopreening behavior coupled with reduced sleep suggested increased...
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Genetic mechanisms underlying gray matter atrophy in Parkinson’s disease: a combined transcriptome and neuroimaging study
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Yi Ji and others
Cerebral Cortex, Volume 35, Issue 4, April 2025, bhaf097, https://doi.org/10.1093/cercor/bhaf097
Published: 30 April 2025
... Journals Publication Model ( https://dbpia.nl.go.kr/pages/standard-publication-reuse-rights ) Abstract Extensive studies have demonstrated significant gray matter atrophy in patients with Parkinson’s disease (PD); however, the underlying gene expression mechanisms remain largely unknown...
Journal Article
Life history and chromosome organization determine chemoreceptor gene expression in rattlesnakes
Michael P Hogan and others
Journal of Heredity, esae078, https://doi.org/10.1093/jhered/esae078
Published: 28 April 2025
... includes hundreds of type-2 vomeronasal receptors and olfactory receptors, representing the two largest gene families found in the genome. To investigate the biological importance of this chemoreceptor diversity, we assessed gene expression in the eastern diamondback rattlesnake (Crotalus...
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CCAAT/Enhancer-Binding Proteins α and β Regulate Ovulation and Gene Expression via Dose- and Stage-Dependent Mechanisms
Hanxue Zhang and others
Endocrinology, bqaf081, https://doi.org/10.1210/endocr/bqaf081
Published: 28 April 2025
... ovulation, and provides a unique opportunity to interrogate gene regulatory mechanisms by C/EBPα/β during different preovulatory time windows and the impact of dysregulating C/EBPα/β on ovulation-associated biological processes. Our study revealed that C/EBPα/β regulate gene expression and distinct...
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Increased HSD11β1 Expression in Human Leiomyomatous Uteri: Implication for Enhanced Glucocorticoid Signaling
Carrie Malcom and others
The Journal of Clinical Endocrinology & Metabolism, dgaf255, https://doi.org/10.1210/clinem/dgaf255
Published: 28 April 2025
... matrix and smooth muscle genes to induce a myofibroblast phenotype, thereby possibly contributing to leiomyoma pathogenesis. FKBP51 HSD11β1 Leiomyoma Glucocorticoid Signaling Gene Expression 1 Increased HSD11 1 Expression in Human Leiomyomatous Uteri: Implication for 2 Enhanced Glucocorticoid...
Journal Article
Decoding migraine disorders: parathyroid hormone-related peptide receptors as key genetic drivers
Andreia Dias and others
Brain Communications, Volume 7, Issue 2, 2025, fcaf142, https://doi.org/10.1093/braincomms/fcaf142
Published: 28 April 2025
... in their genome, 8 with a significant portion located in non-coding regions, impacting gene expression and splicing patterns. 9 RNA-sequencing (RNA-seq) enables the quantification of gene expression levels, identification of novel transcripts, alternative splicing and gene fusion events...
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Gut microbiota dysbiosis and the anti-inflammatory effects of probiotic-derived cell-free supernatants in HT-29 cells: insights into early-stage colorectal cancer
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Nafiseh Erfanian and others
Letters in Applied Microbiology, ovaf060, https://doi.org/10.1093/lambio/ovaf060
Published: 24 April 2025
... microbial imbalances as potential biomarkers for early CRC detection and underscore the therapeutic promise of probiotic-derived CFSs, presenting innovative, non-invasive strategies for managing CRC-associated inflammation. Cell-free supernatants Colorectal cancer Gene expression IL-6 Microbiota...
Journal Article
Effects of elevated temperature on gene expression, energy metabolism, and physiology in brown trout, Salmo trutta
Buumba Hampuwo and others
Conservation Physiology, Volume 13, Issue 1, 2025, coaf025, https://doi.org/10.1093/conphys/coaf025
Published: 23 April 2025
... reuse, distribution, and reproduction in any medium, provided the original work is properly cited. Abstract Given the imminent threat of global warming and rising water temperatures in Austria, this study investigated the effects of elevated temperature on gene expression, energy reserves, and cellular...
Journal Article
Linking DNA methylation in brain regions to Alzheimer’s disease risk: a Mendelian randomization study
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Hua Zhong and others
Human Molecular Genetics, ddaf053, https://doi.org/10.1093/hmg/ddaf053
Published: 23 April 2025
... two-sample MR, colocalization, and SMR/HEIDI analyses. These included one CpG site in CRBLM, 286 in DLPFC, one in FCTX, two in PONS, and two in TCTX ( Supplementary Table 6 ). To investigate whether DNA methylation of these CpGs in DLPFC influences ad risk through regulating gene expression...
Journal Article
Cell-free biosensor with automated acoustic liquid handling for rapid and scalable characterization of cellobiohydrolases on microcrystalline cellulose
Taeok Kim and others
Synthetic Biology, Volume 10, Issue 1, 2025, ysaf005, https://doi.org/10.1093/synbio/ysaf005
Published: 14 April 2025
... biosensor cell-free gene expression enzyme engineering Echo 525 liquid handler biofoundry Research Initiative Program KGM1302511 Ministry of Science and ICT, South Korea 10.13039/501100014188 Basic Science Research Program / RS-2024-00336627 Bio & Medical Technology Development Program...
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Living in poverty is associated with gene expression changes in immune cells
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Nicole S Arnold and others
in
Genetics
Genetics, iyaf072, https://doi.org/10.1093/genetics/iyaf072
Published: 11 April 2025
..., EEF1DP7 and VIL1 are also associated with hypertension in transcriptome-wide association studies. Our results suggest that living in poverty influences inflammation and the risk for cardiovascular disease through gene expression changes in immune cells. Poverty Gene Expression RNA-seq Health...
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Regulation of DNA translocation of chromatin remodeler enzyme Chd1 by exit DNA unwrapping
Yuanyuan Tian and others
Life Metabolism, loaf013, https://doi.org/10.1093/lifemeta/loaf013
Published: 09 April 2025
... in the regulation of gene expression in eukaryotes. It is involved in important physiological processes such as development, immune response and metabolic regulation. During gene expression regulation, chromatin remodelers slide nucleosomes along genomic DNA and play a major role in chromatin organization. Chd1...
Journal Article
Effects of long-term administration of exogenous dietary protease and humic substance on growth, immunity, and survival of Channel Catfish overwintered in an in-pond raceway system
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Abdulmalik A Oladipupo and others
North American Journal of Aquaculture, Volume 87, Issue 1, January 2025, Pages 1–14, https://doi.org/10.1093/naaqua/vrae002
Published: 09 April 2025
...-supplemented diet (C28+HS). Growth sampling was performed every 30 d, and the final growth metrics, survival, immune responses, and gene expression were evaluated poststudy. Results Monthly sampling showed that growth performance in all groups declined with temperature reduction and was lowest during...
Journal Article
Changes in the skeletal muscle transcriptome due to the intramuscular administration of lidocaine in wether lambs
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Mackenzie C Batt and others
Journal of Animal Science, Volume 103, 2025, skaf116, https://doi.org/10.1093/jas/skaf116
Published: 08 April 2025
... that of untreated tissue. This study investigated how intramuscular lidocaine injection influenced skeletal muscle gene expression in sheep, aiming to understand how transcriptomic changes could affect data interpretation. Approximately 10 min before euthanasia, the left biceps brachii muscle from each...
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mirrorCheck: an R package facilitating informed use of DESeq2’s lfcShrink() function for differential gene expression analysis of clinical samples
Katherine Elise Scull and others
Bioinformatics Advances, vbaf070, https://doi.org/10.1093/bioadv/vbaf070
Published: 02 April 2025
... cited. Abstract Motivation The sophisticated lfcShrink() function implemented in the DESeq2 package for differential gene expression analysis aims to reduce noise from low read count and/or highly variable genes in bulk RNA-sequencing data, thus circumventing the need for arbitrary filtering...
Journal Article
Regulation of meiotic gene expression is functional in the human fungal pathogen Candida glabrata
Natalia Klimova and others
FEMS Yeast Research, Volume 25, 2025, foaf018, https://doi.org/10.1093/femsyr/foaf018
Published: 02 April 2025
... sequence. Importantly, expression profiling using a Zcf11 knock-down strain revealed that this factor is a negative regulator of meiotic genes expression as well as some genes involved in mating. Thus, regulation of the expression of meiotic genes is functional in this organism reinforcing the view...
Journal Article
Repeated Evolution of Transcript Dosage Compensation of Independently Formed Nematode Neo-X Chromosomes
Jiachen Li and others
Genome Biology and Evolution, Volume 17, Issue 4, April 2025, evaf061, https://doi.org/10.1093/gbe/evaf061
Published: 02 April 2025
... of X upregulation at the transcript level in eutherian mammals, Ohno's hypothesis is strongly supported in both nematode lineages investigated. Caenorhabditis elegans Brugia malayi sex chromosome Ohno's hypothesis gene expression Significance Ohno proposed that, in the origin...
Journal Article
Statistical analysis of correlated expression data from high throughput experiments
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Peng Wang and others
in
Genetics
Genetics, iyaf060, https://doi.org/10.1093/genetics/iyaf060
Published: 28 March 2025
... of ACE to a microRNA dataset, a neuroblastoma gene expression dataset, and a Huntington’s disease dataset resulted in some novel findings that were missed by existing methods. dependence factor model false discovery rate gene expression high throughput experiment multiple testing National Natural...
Journal Article
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Piglet birth weight but not timing of zinc supplementation in gestation diets affects tissue mineral concentrations and gene expression
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Kelsey L Hammers and others
Journal of Animal Science, skaf097, https://doi.org/10.1093/jas/skaf097
Published: 27 March 2025
... in gestation to determine effects on piglet tissue mineral concentrations and gene expression. Ten sSows per treatment were assigned to dietary treatments: 1) Control – sows fed a corn-soybean meal-based diet containing 206 ppm total supplemental zinc supplied by zinc hydroxychloride from mating to farrowing...
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