1,177,699 results match your criteria gene regulation


Patient-specific iPSC-derived cellular models of LGMDR1.

Stem Cell Res 2021 Apr 8;53:102333. Epub 2021 Apr 8.

Neuroscience Area, Biodonostia Research Institute, San Sebastian, Spain; CIBERNED, Instituto de Salud Carlos III, Madrid, Spain; Department of Neuroscience, University of the Basque Country, San Sebastian, Spain; Department of Neurology, Hospital Universitario Donostia, San Sebastian, Spain. Electronic address:

Limb-girdle muscular dystrophy recessive 1 (LGMDR1) represents one of the most common types of LGMD in the population, where patients develop a progressive muscle degeneration. The disease is caused by mutations in calpain 3 gene, with over 500 mutations reported to date. However, the molecular events that lead to muscle wasting are not clear, nor the reasons for the great clinical variability among patients, and this has so far hindered the development of effective therapies. Read More

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Effect of biochar-immobilized Sphingomonas sp. PJ2 on bioremediation of PAHs and bacterial community composition in saline soil.

Chemosphere 2021 Mar 31;279:130427. Epub 2021 Mar 31.

College of Land and Environment, Shenyang Agricultural University, Shenyang, 110866, PR China; Key Laboratory of Northeast Arable Land Conservation of Ministry of Agriculture, Shenyang Agricultural University, Shenyang, 110866, PR China.

This study aimed to investigate the bioremediation efficiency and bacterial regulation mechanism of biochar-immobilized bacterium (BM) in polycyclic aromatic hydrocarbon (PAH)-contaminated saline soil by conducting pot experiments. In BM treatment, PAH-degrading strain Sphingomonas sp. PJ2 was inoculated into biochar produced at 400 °C and 600 °C using the pine needles (BM400 and BM600). Read More

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Carotenogenesis of Staphylococcus aureus: New insights and impact on membrane biophysical properties.

Biochim Biophys Acta Mol Cell Biol Lipids 2021 Apr 13:158941. Epub 2021 Apr 13.

Laboratory of Advanced Analytical Techniques in Natural Products (LATNAP), Chemistry Department, Universidad de los Andes, Bogotá, D.C., Colombia. Electronic address:

Staphyloxanthin (STX) is a saccharolipid derived from a carotenoid in Staphylococcus aureus involved in oxidative-stress tolerance and antimicrobial peptide resistance. STX influences the biophysical properties of the bacterial membrane and has been associated to the formation of lipid domains in the regulation of methicillin-resistance. In this work, a targeted metabolomics and biophysical characterization study was carried out to investigate the biosynthetic pathways of carotenoids, and their impact on the membrane biophysical properties. Read More

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A dosage-effect assessment of acute toxicology tests of microplastic exposure in filter-feeding fish.

Fish Shellfish Immunol 2021 Apr 13. Epub 2021 Apr 13.

Joint Laboratory of Guangdong Province and Hong Kong Region on Marine Bioresource Conservation and Exploitation, College of Marine Sciences, South China Agricultural University, Guangzhou, 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, South China Agricultural University, Guangzhou, 510642, China. Electronic address:

Abundant microplastics was found in aquatic ecosystem and aquatic organisms, which raised many concerns in public. Silver carp (Hypophthalmichthys molitrix), a species filter-feeding planktivorous fish, feed on particle between 4 to 85 μm in size, and the respiratory process works together with feeding mechanism when filtering plankton from water. The aim of this study was to assess the physiological response of silver carp exposed to 5 μm polystyrene microspheres during 48 h of exposure followed by 48 h of depuration through the gill histology, and oxidative stress biomarkers in intestine. Read More

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Mucin expression, epigenetic regulation and patient survival: A toolkit of prognostic biomarkers in epithelial cancers.

Biochim Biophys Acta Rev Cancer 2021 Apr 13:188538. Epub 2021 Apr 13.

Univ. Lille, CNRS, Inserm, CHU Lille, UMR9020-U1277, CANTHER - Cancer Heterogeneity, Plasticity and Resistance to Therapies, F-59000 Lille, France.

Twenty mucin genes have been identified and classified in two groups (encoding secreted and membrane-bound proteins). Secreted mucins participate in mucus formation by assembling a 3-dimensional network via oligomerization, whereas membrane-bound mucins are anchored to the outer membrane mediating extracellular interactions and cell signaling. Both groups have been associated with carcinogenesis progression in epithelial cancers, and are therefore considered as potential therapeutic targets. Read More

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Adenosine 5'-monophosphate induces hypothermia and alters gene expressions in the brain and liver of chicks.

Brain Res Bull 2021 Apr 13. Epub 2021 Apr 13.

Laboratory of Animal Behavior and Physiology, Graduate School of Integrated Sciences for Life, Hiroshima University, Higashi, Hiroshima, 739-8528, Japan. Electronic address:

The adenosine A1 receptor is important for body temperature regulation in mammals; however, little is known about its function in avian species. In this study, we investigated the effects of the adenosine A1 receptor agonist and antagonist (adenosine 5'-monophosphate [5'-AMP] and 8 p-sulfophenyl theophylline [8-SPT], respectively) on thermoregulation in chickens. Male chicks were used in this study. Read More

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Roles of microRNAs in renal disorders related to primary podocyte dysfunction.

Life Sci 2021 Apr 13:119463. Epub 2021 Apr 13.

Stem Cell Research Center, Tabriz University of Medical Sciences, Tabriz, Iran. Electronic address:

Through the regulation of gene expression, microRNAs (miRNAs) are capable of modulating vital biological processes, such as proliferation, differentiation, and apoptosis. Several mechanisms control the function of miRNAs, including translational inhibition and targeted miRNA degradation. Through utilizing high-throughput screening methods, such as small RNA sequencing and microarray, alterations in miRNA expression of kidneys have recently been observed both in rodent models and humans throughout the development of chronic kidney disease (CKD) and acute kidney injury (AKI). Read More

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Molecular cloning and characterization of CD63 in common carp infected with koi herpesvirus.

Dev Comp Immunol 2021 Apr 13:104102. Epub 2021 Apr 13.

Joint Laboratory of Guangdong Province and Hong Kong Regions on Marine Bioresource Conservation and Exploitation, College of Marine Sciences, South China Agricultural University, Guangzhou, 510642, PR China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, 510642, China. Electronic address:

CD63 is a member of the four-transmembrane-domain protein superfamily and is the first characterized tetraspanin protein. In the present study, we cloned the common carp (Cyprinus Carpio) CD63 (ccCD63) sequence and found that the ccCD63 ORF contained 711 bp and encoded a protein of 236 amino acids. Homology analysis revealed that the complete ccCD63 sequence had 84. Read More

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Migratory state and patterns of steroid hormone regulation in the pectoralis muscle of a nomadic migrant, the pine siskin (Spinus pinus).

Gen Comp Endocrinol 2021 Apr 13:113787. Epub 2021 Apr 13.

School of Biological Sciences, Washington State University, Pullman, WA, USA.

The endocrine system is known to mediate responses to environmental change and transitions between different life stages (e.g., a non-breeding to a breeding life stage). Read More

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Juvenile hormone in spiders. Is this the solution to a mystery?

Gen Comp Endocrinol 2021 Apr 13:113781. Epub 2021 Apr 13.

University of Silesia in Katowice, Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, Bankowa 9, 40007 Katowice, Poland.

The juvenile hormone (JH) plays a crucial role in arthropod physiological processes, e.g., the regulation of metamorphosis, development, and reproduction (the vitellogenesis, the development of gonads, egg production). Read More

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Identification of long regulatory elements in the genome of Plasmodium falciparum and other eukaryotes.

PLoS Comput Biol 2021 Apr 16;17(4):e1008909. Epub 2021 Apr 16.

LIRMM, Univ Montpellier, CNRS, Montpellier, France.

Long regulatory elements (LREs), such as CpG islands, polydA:dT tracts or AU-rich elements, are thought to play key roles in gene regulation but, as opposed to conventional binding sites of transcription factors, few methods have been proposed to formally and automatically characterize them. We present here a computational approach named DExTER (Domain Exploration To Explain gene Regulation) dedicated to the identification of candidate LREs (cLREs) and apply it to the analysis of the genomes of P. falciparum and other eukaryotes. Read More

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CSNK1G2 differently sensitizes tamoxifen-induced decrease in PI3K/AKT/mTOR/S6K and ERK signaling according to the estrogen receptor existence in breast cancer cells.

PLoS One 2021 16;16(4):e0246264. Epub 2021 Apr 16.

Department of Bioactive Material Sciences, Jeonbuk National University, Jeonju, Jeollabuk-do, Republic of Korea.

Tamoxifen (TAM) is a selective estrogen receptor modulator used for breast cancer patients. Prolonged use of tamoxifen is not recommended for some patients. In this study, we aimed to identify molecular targets sensitive to TAM using a genome-wide gene deletion library screening of fission yeast heterozygous mutants. Read More

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Enhancers, gene regulation, and genome organization.

Genes Dev 2021 Apr;35(7-8):427-432

Laboratory of Muscle Stem Cells and Gene Regulation, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA.

How transcriptional enhancers function to activate distant genes has been the subject of lively investigation for decades. "Enhancers, gene regulation, and genome organization" was the subject of a virtual meeting held November 16-17, 2020, under sponsorship of the National Cancer Institute (NCI), the National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIAMS), and the National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK) at the National Institutes of Health (NIH). The goal of the meeting was to advance an understanding of how transcriptional enhancers function within the framework of the folded genome as we understand it, emphasizing how levels of organization may influence each other and may contribute to the spatiotemporal specification of transcription. Read More

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Effects of Supplementary Selenium and Vitamin E on the Growth Performance, Antioxidant Enzyme Activity, and Gene Expression of Sea Cucumber Apostichopus japonicus.

Biol Trace Elem Res 2021 Apr 16. Epub 2021 Apr 16.

Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao, 266003, Shandong, China.

A 60-day feeding experiment was conducted to evaluate the effects of single selenomethionine (Se) and its mixture with vitamin E (VE) on the growth, antioxidant enzyme activities, and gene expression of juvenile sea cucumber Apostichopus japonicus. The design of the experiment contained two factors and 5 × 2 levels by means of adding various levels of Se and VE in the feed, i.e. Read More

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Clonal haematopoiesis of indeterminate potential: intersections between inflammation, vascular disease and heart failure.

Clin Sci (Lond) 2021 Apr;135(7):991-1007

BHF Glasgow Cardiovascular Research Centre, University of Glasgow, Glasgow, U.K.

Ageing is a major risk factor for the development of cardiovascular disease (CVD) and cancer. Whilst the cumulative effect of exposure to conventional cardiovascular risk factors is important, recent evidence highlights clonal haematopoiesis of indeterminant potential (CHIP) as a further key risk factor. CHIP reflects the accumulation of somatic, potentially pro-leukaemic gene mutations within haematopoietic stem cells over time. Read More

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Activated p53 in the anti-apoptotic milieu of tuberous sclerosis gene mutation induced diseases leads to cell death if thioredoxin reductase is inhibited.

Apoptosis 2021 Apr 16. Epub 2021 Apr 16.

Department of Pharmaceutical Biotechnology, University of Pecs, Pecs, Hungary.

Tuberous sclerosis, angiomyolipoma and lymphangioleiomyomatosis are a group of diseases characterized by mutation in tuberous sclerosis genes (TSC 1-2). TSC mutation leads to continuous activation of the mTOR pathway that requires adaptation to increased ATP requirement. With limited treatment options, there is an increasing demand to identify novel therapeutic targets and to understand the correlations between mTOR pathway activation and the lack of cell death in the presence of TSC mutation. Read More

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A convolutional neural network for the prediction and forward design of ribozyme-based gene-control elements.

Elife 2021 Apr 16;10. Epub 2021 Apr 16.

Bioengineering, Stanford University, Stanford, United States.

Ribozyme switches are a class of RNA-encoded genetic switch that support conditional regulation of gene expression across diverse organisms. An improved elucidation of the relationships between sequence, structure, and activity can improve our capacity for rational design of ribozyme switches. Here, we generated data on the activity of hundreds of thousands of ribozyme sequences. Read More

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Emerging role of lncRNA ELDR in development and cancer.

FEBS J 2021 Apr 15. Epub 2021 Apr 15.

Department of Pathology, Saint Louis University School of Medicine, St. Louis, MO, USA.

Whole genome sequencing and transcriptome analysis revealed more than 90% of the human genome transcribes non-coding RNAs including long non-coding RNAs (lncRNAs). From the beginning of the 21st century, lncRNAs have gained widespread attention as a new layer of regulation in biological processes. LncRNAs are more than 200 nucleotides in size, transcribed by RNA polymerase II and share many similarities with mRNAs. Read More

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HY5 regulates light-responsive transcription of microRNA163 to promote primary root elongation in Arabidopsis seedlings.

J Integr Plant Biol 2021 Apr 16. Epub 2021 Apr 16.

College of Life Science, Henan Agricultural University, Zhengzhou, 450002, China.

MicroRNAs (miRNAs) play key roles in the post-transcriptional regulation of gene expression in plants. Many miRNAs are responsive to environmental signals. Light is the first environmental signal perceived by plants after emergence from the soil. Read More

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Homeodomain proteins POU-M2, antennapedia and abdominal-B are involved in regulation of the segment-specific expression of the clip-domain serine protease gene CLIP13 in the silkworm, Bombyx mori.

Insect Sci 2021 Apr 16. Epub 2021 Apr 16.

State Key Laboratory of Silkworm Genome Biology, Southwest University, Chongqing, 400716, China.

Clip-domain serine proteases (CLIPs) play important roles in insect innate immunity and development. Our previous studies indicated that CLIP13, an epidermis-specific gene, was involved in cuticle remodeling during molting and metamorphosis in the silkworm, Bombyx mori. However, the transcriptional regulatory mechanism and regulatory pathways of CLIP13 remained unclear. Read More

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Nuclear Dishevelled targets gene regulatory regions and promotes tumor growth.

EMBO Rep 2021 Apr 16:e50600. Epub 2021 Apr 16.

Immunology and Molecular Microbiology, Texas Tech University Health Sciences Center, Lubbock, TX, USA.

Dishevelled (DVL) critically regulates Wnt signaling and contributes to a wide spectrum of diseases and is important in normal and pathophysiological settings. However, how it mediates diverse cellular functions remains poorly understood. Recent discoveries have revealed that constitutive Wnt pathway activation contributes to breast cancer malignancy, but the mechanisms by which this occurs are unknown and very few studies have examined the nuclear role of DVL. Read More

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BARTweb: a web server for transcriptional regulator association analysis.

NAR Genom Bioinform 2021 Jun 9;3(2):lqab022. Epub 2021 Apr 9.

Center for Public Health Genomics, University of Virginia, Charlottesville, VA 22908, USA.

Identifying active transcriptional regulators (TRs) associating with -regulatory elements in the genome to regulate gene expression is a key task in gene regulation research. TR binding profiles from numerous public ChIP-seq data can be utilized for association analysis with query data for TR identification, as an alternative to DNA sequence motif analysis. However, integration of the massive ChIP-seq datasets has been a major challenge in such approaches. Read More

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Clinical Presentation and Gene Expression of Acute Alcohol-Induced Microvesicular Steatosis Mimicking Alcoholic Hepatitis.

Hepatol Commun 2021 Apr 9;5(4):618-628. Epub 2021 Jan 9.

Gastroenterology and Hepatology University Hospitals of Geneva and Faculty of Medicine Geneva Switzerland.

Acute alcoholic microvesicular steatosis (MIC) may complicate heavy alcohol intake and present as alcoholic hepatitis (AH) syndrome. However, detailed clinical, biological, and histologic data associated with MIC are scarce. We compared the clinical presentation, histologic features, and hepatic transcriptomic of patients presenting with AH due to either MIC or severe alcoholic steatohepatitis (ASH). Read More

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Association of neurogranin gene expression with Alzheimer's disease pathology in the perirhinal cortex.

Alzheimers Dement (N Y) 2021 9;7(1):e12162. Epub 2021 Apr 9.

Department of Genetics and Genomic Sciences Icahn School of Medicine at Mount Sinai New York New York USA.

Introduction: Synaptic damage is a key pathology of Alzheimer's disease (AD). The mechanism underlying synaptic vulnerability in AD remains elusive.

Methods: Using a large-scale transcriptomic dataset, we analyzed the neurogranin-centered integrative gene network and assessed the correlation of neurogranin () gene expression with AD pathology in brains. Read More

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Transcriptional profile in rat muscle: down-regulation networks in acute strenuous exercise.

PeerJ 2021 2;9:e10500. Epub 2021 Apr 2.

Superior Institute of Biomedic Sciences, Universidade Estadual do Ceará, Fortaleza, Ceará, Brazil.

Background: Physical exercise is a health promotion factor regulating gene expression and causing changes in phenotype, varying according to exercise type and intensity. Acute strenuous exercise in sedentary individuals appears to induce different transcriptional networks in response to stress caused by exercise. The objective of this research was to investigate the transcriptional profile of strenuous experimental exercise. Read More

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Screening for alternative splicing of lncRNA Dleu2 in the mouse liver cell line AML-12.

Biomed Rep 2021 Jun 1;14(6):50. Epub 2021 Apr 1.

Irma Lerma Rangel College of Pharmacy, Texas A&M University, College Station, Texas, TX 77843, USA.

The long non coding RNA deleted in leukemia 2 gene (Dleu2) has recently been demonstrated to be an active player in the progression of several types of cancer, including hepatocellular carcinoma. Dleu2 may serve a role in modulating the downstream effects-mediated by alternative splicing of its multiple exons. However, the proportional expression of these alternative splicing populations of the Dleu2 exons is currently unknown. Read More

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An integrated epigenomic-transcriptomic landscape of lung cancer reveals novel methylation driver genes of diagnostic and therapeutic relevance.

Theranostics 2021 11;11(11):5346-5364. Epub 2021 Mar 11.

Center for Uterine Cancer Diagnosis & Therapy Research of Zhejiang Province, Women's Reproductive Health Key Laboratory of Zhejiang Province, Department of Gynecologic Oncology, Women's Hospital and Institute of Translational Medicine, Zhejiang University School of Medicine, Hangzhou, Zhejiang 310006, China.

Aberrant DNA methylation occurs commonly during carcinogenesis and is of clinical value in human cancers. However, knowledge of the impact of DNA methylation changes on lung carcinogenesis and progression remains limited. Genome-wide DNA methylation profiles were surveyed in 18 pairs of tumors and adjacent normal tissues from non-small cell lung cancer (NSCLC) patients using Reduced Representation Bisulfite Sequencing (RRBS). Read More

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c-MYC-directed NRF2 drives malignant progression of head and neck cancer via glucose-6-phosphate dehydrogenase and transketolase activation.

Theranostics 2021 11;11(11):5232-5247. Epub 2021 Mar 11.

Institute of Biotechnology and Pharmaceutical Research, National Health Research Institutes, Miaoli, Taiwan.

NRF2, a redox sensitive transcription factor, is up-regulated in head and neck squamous cell carcinoma (HNSCC), however, the associated impact and regulatory mechanisms remain unclear. The protein expression of NRF2 in HNSCC specimens was examined by IHC. The regulatory effect of c-MYC on NRF2 was validated by ChIP-qPCR, RT-qPCR and western blot. Read More

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Comprehensive Identification and Alternative Splicing of Microexons in .

Front Genet 2021 30;12:642602. Epub 2021 Mar 30.

RNA Institute, State Key Laboratory of Virology, Hubei Key Laboratory of Cell Homeostasis, College of Life Science, Wuhan University, Wuhan, China.

Interrupted exons in the pre-mRNA transcripts are ligated together through RNA splicing, which plays a critical role in the regulation of gene expression. Exons with a length ≤ 30 nt are defined as microexons that are unique in identification. However, microexons, especially those shorter than 8 nt, have not been well studied in many organisms due to difficulties in mapping short segments from sequencing reads. Read More

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Dynamic Intracellular Metabolic Cell Signaling Profiles During Ag-Dependent B-Cell Differentiation.

Front Immunol 2021 30;12:637832. Epub 2021 Mar 30.

Department of Medicine and Cytometry General Service-Nucleus, CIBERONC, Cancer Research Centre (IBMCC/CSIC/USAL/IBSAL), Salamanca, Spain.

Human B-cell differentiation has been extensively investigated on genomic and transcriptomic grounds; however, no studies have accomplished so far detailed analysis of antigen-dependent maturation-associated human B-cell populations from a proteomic perspective. Here, we investigate for the first time the quantitative proteomic profiles of B-cells undergoing antigen-dependent maturation using a label-free LC-MS/MS approach applied on 5 purified B-cell subpopulations (naive, centroblasts, centrocytes, memory and plasma B-cells) from human tonsils (data are available ProteomeXchange with identifier PXD006191). Our results revealed that the actual differences among these B-cell subpopulations are a combination of expression of a few maturation stage-specific proteins within each B-cell subset and maturation-associated changes in relative protein expression levels, which are related with metabolic regulation. Read More

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