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| ○ | ○ | Review | Significance of Soy-Based Fermented Food and Their Bioactive Compounds Against Obesity, Diabetes, and Cardiovascular Diseases | Soybean-based fermented foods are commonly consumed worldwide, especially in Asia. These fermented soy-products are prepared using various strains of Bacillus, Streptococcus, Lactobacillus, and Aspergillus. The microbial action during fermentation produces and increases the availability of various molecules of biological significance, such as isoflavones, bioactive peptides, and dietary fiber. These dietary bio active compounds are also found to be effective against the metabolic disorders such as obesity, diabetes, and cardiovascular diseases (CVD). In parallel, soy isoflavones such as genistein, genistin, and daidzin can also contribute to the anti-obesity and anti-diabetic mechanisms, by decreasing insulin resistance and oxidative stress. The said activities are known to lower the risk of CVD, by decreasing the fat accumulation and hyperlipidemia in the body. In addition, along with soy-isoflavones fermented soy foods such as Kinema, Tempeh, Douchi, Cheonggukjang/Chungkukjang, and Natto are also rich in dietary fiber (prebiotic) and known to be anti-dyslipidemia, improve lipolysis, and lowers lipid peroxidation, which further decreases the risk of CVD. Further, the fibrinolytic activity of nattokinase present in Natto soup also paves the foundation for the possible cardioprotective role of fermented soy products. Considering the immense beneficial effects of different fermented soy products, the present review contextualizes their significance with respect to their anti-obesity, anti-diabetic and cardioprotective roles. | Dwivedi, Sushmita; Singh, Vineet; Sharma, Kritika; Sliti, Amani; Baunthiyal, Mamta; Shin, Jae-Ho | Kyungpook Natl Univ, Daegu, South Korea; Govind Ballabh Pant Inst Engn & Technol, Pauri, Uttarakhand, India | Baunthiyal, Mamta/K-4300-2019; Singh, Vineet/ABC-7000-2021; shin, Jaeho/K-6792-2013 | 58331098900; 57211642447; 37007088900; 58551490600; 55249938900; 57224125922 | mamtabaunthiyal@yahoo.co.in;jhshin@knu.ac.kr; | PLANT FOODS FOR HUMAN NUTRITION | PLANT FOOD HUM NUTR | 0921-9668 | 1573-9104 | 79 | 1 | SCIE | CHEMISTRY, APPLIED;FOOD SCIENCE & TECHNOLOGY;NUTRITION & DIETETICS;PLANT SCIENCES | 2024 | 3.6 | 21.1 | 2.34 | 2025-05-07 | 12 | 14 | Fermented Soybeans; Bioactive Metabolites; Isoflavones; Obesity; Cardioprotective | ANTIOXIDANT ACTIVITIES; LIPID-METABOLISM; HEALTH-BENEFITS; CHOLESTEROL; NATTOKINASE; ENHANCEMENT; INHIBITION; PEPTIDES; BACILLUS; EXTRACT | Bioactive Metabolites; Cardioprotective; Fermented Soybeans; Isoflavones; Obesity | Cardiovascular Diseases; Diabetes Mellitus; Dietary Fiber; Fermentation; Fermented Foods; Isoflavones; Obesity; Soy Foods; isoflavone derivative; cardiovascular disease; diabetes mellitus; dietary fiber; fermentation; fermented product; obesity; soy food | English | 2024 | 2024-03 | 10.1007/s11130-023-01130-1 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |
| ○ | ○ | Article | Silicone-modified black peanut shell (BPS) biochar adsorbents: Preparation and their adsorptions for copper(II) from water | Novel silicone-modified biochar adsorbents (BPS-MBCs) were prepared by utilizing waste black peanut shell (BPS) as a raw biochar and gamma-amino-propyl triethoxysilane (silicone) as an inorganic modifier. The novelty of this work is that the incorporation of silicone into BPS can rise the specific surface area and porosity of BPS-MBCs and elevate their adsorptions for copper (II). Sorption kinetics data for copper (II) were molded using five kinetic equations [i.e. Lagergren 1storder and 2nd-order, intraparticle diffusion (IN-D), Elovich, and Diffusion-chemisorption]. The equilibrium adsorption data for copper (II) were analyzed using two-parameter isotherm equations [i.e. Langmuir, Freundlich, Dubinin-Radushkevich, and Temkin] and three-parameter Sips, Redlich-Peterson and Toth isotherm models. It was validated that copper (II) sorption on BPSMBCs matched better with pseudo-2nd-order kinetic, Diffusion-chemisorption and Langmuir isotherm models. The maximal qmLan of BPS-MBC-400 was near 284 mg/g at 45 degrees C. By multiphase fitting of IN-D modelling, intra-particle diffusion coefficient (kin-d) and diffusion coefficient of external mass-transfer (DEx-Di) for copper (II) were calculated. The low sorption energy from Temkin and mean free energy from D-R modellings implied that copper (II) sorption was initiated by weak non-covalent bond interactions. Thermodynamic parameters indicated that copper (II) on BPS-MBCs was an endothermic and spontaneous process. Recycling of BPS-MBC400 for copper (II) suggested it has excellent reusability. The major mechanism of copper (II) on BPS-MBCs is possibly comprised of multiple processes, such as physical adsorption (electrostatic attraction), chemical adsorption (adsorption from functional groups, chelation, and ion exchange) and diffusion-chemisorption. Based on these findings, it is expects that BPS-MBCs are promising sorbents for copper (II) eradication from Cu(II)-including wastewater. | Liu, Chen; Yan, Xin; Zhang, He-Xin; Yang, Jian-ming; Yoon, Keun-Byoung | Anhui Univ Technol, Sch Mat Sci & Engn, Maanshan 243032, Anhui, Peoples R China; Anhui Univ Technol, Sch Chem & Chem Engn, Maanshan 243032, Anhui, Peoples R China; Kyungpook Natl Univ, Dept Polymer Sci & Engn, Daegu 41566, South Korea | Yang, Jianming/H-3147-2018; Hexin, Zhang/ACI-3911-2022 | 58606037500; 57222030771; 25633288200; 57192669382; 7401607550 | hxzhang@ahut.edu.cn;jianming1072@163.com;kbyoon@knu.ac.kr; | HELIYON | HELIYON | 2405-8440 | 10 | 15 | SCIE | MULTIDISCIPLINARY SCIENCES | 2024 | 3.6 | 21.1 | 1.23 | 2025-05-07 | 5 | 5 | Adsorption; Black peanut shell biochar; Modified adsorbent; Copper (II) adsorption; Silicone; Model | AQUEOUS-SOLUTION; REMOVAL; PERFORMANCE; MECHANISM; KINETICS; CR(VI) | Adsorption; Black peanut shell biochar; Copper (II) adsorption; Model; Modified adsorbent; Silicone | English | 2024 | 2024-08-15 | 10.1016/j.heliyon.2024.e35169 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |||
| ○ | ○ | Article | The transmembrane domain of the rice small protein OsS1Fa1 is responsible for subcellular localization and drought tolerance | OsS1Fa1, a homologue of spinach S1Fa, is a small protein in rice that contains four distinct conserved motifs and participates in drought tolerance. However, the biological functions of these conserved motifs have not been characterized to date. Therefore, we investigated the roles of these conserved domains in the localization and cellular function of OsS1Fa1. We analysed the subcellular localization of OsS1Fa1 using confocal laser scanning microscopy (CLSM), following particle bombardment and bacterial infiltration. An E. coli in vivo reconstituted sumoylation assay was conducted to investigate sumoylation of OsS1Fa1. We characterized the function of the transmembrane domain of OsS1Fa1 in drought tolerance using transgenic Arabidopsis plants. Fluorescence analysis showed that OsS1Fa1 localized to the nuclear and cytoplasmic membranes. Mutation and cell fractionation analyses revealed that the membrane localization domain determined the subcellular localization of OsS1Fa1. The rice homologue OsS1Fa2 and Arabidopsis orthologs AtS1Fa1, AtS1Fa2, and AtS1Fa3 also exhibited similar localization patterns as OsS1Fa1. Sumoylation analysis demonstrated that OsS1Fa1 was conjugated with the small ubiquitin-related modifier (SUMO). Transgenic analysis showed that overexpression of OsS1Fa1(TMm1), a mutant form of the transmembrane domain of OsS1Fa1, in Arabidopsis did not enhance drought stress tolerance, whereas OsS1Fa1 overexpression improved the drought tolerance of transgenic Arabidopsis. Our data indicate that rice and Arabidopsis S1Fa1 proteins localize in the nuclear and cytoplasmic membranes, and that transmembrane domain determines subcellular localization and plays an important role in drought stress tolerance. The subcellular localization of the OsS1Fa1 protein and OsS1Fa1-mediated drought stress tolerance are determined by its transmembrane domain.image | Kwak, J. S.; Lee, K. H.; Min, W. K.; Lee, S. J.; Song, J. T.; Seo, H. S. | Seoul Natl Univ, Dept Agr Forestry & Bioresources, Seoul, South Korea; Kyungpook Natl Univ, Dept Appl Biosci, Daegu, South Korea | Lee, Seong-jin/AAL-8550-2021 | 57188934445; 55642443000; 57797161600; 57215851567; 58950725400; 26642769200 | seohs@snu.ac.kr; | PLANT BIOLOGY | PLANT BIOLOGY | 1435-8603 | 1438-8677 | 26 | 6 | SCIE | PLANT SCIENCES | 2024 | 3.6 | 21.1 | 2 | 2025-05-07 | 3 | 3 | Drought tolerance; nuclear and cytoplasmic membranes; OsS1Fa1; rice; Small protein; sumoylation | POSTTRANSLATIONAL MODIFICATIONS; SUMOYLATION | Drought tolerance; nuclear and cytoplasmic membranes; OsS1Fa1; rice; Small protein; sumoylation | Arabidopsis; Cell Membrane; Drought Resistance; Droughts; Gene Expression Regulation, Plant; Mutation; Oryza; Plant Proteins; Plants, Genetically Modified; Protein Domains; Stress, Physiological; Sumoylation; plant protein; bioassay; cell; drought stress; fractionation; gene expression; membrane; protein; rice; Arabidopsis; cell membrane; drought; drought resistance; gene expression regulation; genetics; metabolism; mutation; Oryza; physiological stress; physiology; protein domain; sumoylation; transgenic plant | English | 2024 | 2024-10 | 10.1111/plb.13711 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |
| ○ | ○ | Article | Unraveling the unknown: Adaptive spatial planning to enhance climate resilience for the endangered Swamp Grass-babbler (Laticilla cinerascens) with habitat connectivity and complexity approach | The endangered and poorly known Swamp Grass-babbler, Laticilla cinerascens (Passeriformes: Pellorneidae), confronts critical threats and vulnerability due to its specific habitat requirements and restricted populations in the northeastern region of the Indian Subcontinent. This study investigates the distribution of the species, habitat quality, geometry and shape complexity of connectivity among the protected areas (PAs), and responses to climate change in Northeast India under different climate change pathways by utilizing ensemble distribution models, and ecological metrics. From the total distribution extent (1,42,000 km(2)), approximately 9366 km2 (6.59 %) is identified as the suitable habitat for this threatened species. Historically centered around Dibru Saikhowa National Park (DSNP), the species faced a drastic decline due to anthropogenic activities and alteration in land use and lover cover. The study also reveals a significant decline in suitable habitat for L. cinerascens in future climate scenarios, with alarming reductions under SSP126 (>10 % in the timeframe 2041-2060 and > 30 % from 2061 to 2080), SSP245 (>90 % in both time periods), and SSP585 (>90 % in both timeframes) from the present scenario. At present, DSNP has the most suitable habitat within the distribution range but is projected to decline (>90 %) under more severe climate change scenarios, as observed in other PAs. Landscape fragmentation analysis indicates a shift in habitat geometry, highlighting the intricate impact of climate change. It predicts a substantial 343 % increase (in the SSP126) in small habitat patches in the future. Connectivity analysis among PAs shows a significant shift, with a decline exceeding 20 %. The analysis of shape complexity and connectivity geometry reveals a significant increase of over 220 % in the fragmentation of connectivity among PAs between 2061 and 2080 under the SSP585 climate change scenario compared to the present conditions. The study underscores the urgent need for conservation actions, emphasizing the complex interplay of climate change, habitat suitability, and fragmentation. Prioritizing PAs with suitable habitats and assessing their connectivity is crucial. Adaptive management strategies are essential to address ongoing environmental changes and safeguard biodiversity. Future research in critical areas is needed to establish long-term monitoring programs to lead/extend effective conservation strategies. | Abedin, Imon; Mukherjee, Tanoy; Kang, Hye-Eun; Yoon, Tae-Ho; Kim, Hyun-Woo; Kundu, Shantanu | Indian Stat Inst, Agr & Ecol Res Unit, Kolkata 700108, India; Pukyong Natl Univ, Inst Marine Life Sci, Busan 48513, South Korea; Kyungpook Natl Univ, Coll Nat Sci, KNU LAMP Res Ctr, Daegu 41566, South Korea; Pukyong Natl Univ, Dept Marine Biol, Busan 48513, South Korea; Pukyong Natl Univ, Inst Fisheries Sci, Coll Fisheries Sci, Busan 48513, South Korea | MUKHERJEE, TANOY/AAU-6548-2021; Kim, Hyun-Woo/AFN-9184-2022; Kundu, Dr. Shantanu/AAX-1130-2020 | 58958698600; 57208228387; 49961410100; 57203177125; 57235548700; 55558978400 | kimhw@pknu.ac.kr;shantanu1984@pknu.ac.kr; | HELIYON | HELIYON | 2405-8440 | 10 | 9 | SCIE | MULTIDISCIPLINARY SCIENCES | 2024 | 3.6 | 21.1 | 1.63 | 2025-05-07 | 4 | 4 | Babblers; Habitat loss; Biological corridors; Landscape fragmentation; Northeast India; Shape complexity | SPECIES DISTRIBUTION MODELS; R PACKAGE; CONSERVATION; FRAGMENTATION; BIRDS; DISTRIBUTIONS; PREDICTION; LANDSCAPE; RESPONSES; RICHNESS | Babblers; Biological corridors; Habitat loss; Landscape fragmentation; Northeast India; Shape complexity | English | 2024 | 2024-05-15 | 10.1016/j.heliyon.2024.e30273 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |||
| ○ | ○ | Article | Bifenthrin Diminishes Male Fertility Potential by Inducing Protein Defects in Mouse Sperm | A synthetic pyrethroid pesticide, bifenthrin, has been commonly used as an effective exterminator, although the rise in its usage has raised concerns regarding its effects on the environment and public health, including reproduction, globally. The current study investigated the function-related molecular disparities and mechanisms in bifenthrin-exposed sperm cells and the underlying mechanism. Therefore, epididymal spermatozoa were released, and various concentrations of bifenthrin were treated (0.1, 1, 10, and 100 mu M) to evaluate their effects on sperm. The findings showed that although bifenthrin had no effect on sperm viability, various other sperm functions (e.g., motility, spontaneous acrosome reaction, and capacitation) related to male fertility were decreased, commencing at a 1 mu M treatment. Molecular studies revealed nine differentially expressed sperm proteins that were implicated in motile cilium assembly, sperm structure, and metabolic processes. Furthermore, bifenthrin affected sperm functions through abnormal diminution of the expression of specific sperm proteins. Collectively, these findings provide greater insights into how bifenthrin affects male fertility at the molecular level. | Bae, Jeong-Won; Hwang, Ju-Mi; Yoon, Minjung; Kwon, Woo-Sung | Kyungpook Natl Univ, Dept Anim Sci & Biotechnol, Sangju 37224, Gyeongsangbuk D, South Korea; Kyungpook Natl Univ, Res Inst Innovat Anim Sci, Sangju 37224, Gyeongsangbuk D, South Korea | ; Kwon, Woo-Sung/J-4391-2014; Bae, Jeong-Won/AAH-4932-2021; Kwon, Woo-Sung/J-6731-2019 | 57211231093; 57217871526; 22137296500; 54383715800 | jwbae1822@gmail.com;ghkdwnal100@gmail.com;mjyoon@knu.ac.kr;wskwon@knu.ac.kr; | TOXICS | TOXICS | 2305-6304 | 12 | 1 | SCIE | ENVIRONMENTAL SCIENCES;TOXICOLOGY | 2024 | 4.1 | 21.2 | 1.71 | 2025-04-16 | 3 | 3 | bifenthrin; differentially expressed sperm proteins; sperm dysfunction | PYRETHROID INSECTICIDES; ACROSOME REACTION; IDENTIFICATION; METABOLITES; PESTICIDES | bifenthrin; differentially expressed sperm proteins; sperm dysfunction | A kinase anchor protein 4; adenosine triphosphate; adenylate kinase 2 mitochondrial isoform b; ATP synthase subunit O mitochondrial; bifenthrin; fatty acid binding protein; fatty acid binding protein 9; isocitrate dehydrogenase subunit alpha mitochondrial; isoform 2 of serine threonine protein phosphatase PP1 gamma catalytic subunit; pesticide; pyrethroid; radial spoke head protein 9 homolog; sperm protein; sperm surface protein Sp17; testis prostate and placenta expressed protein isoform 2; unclassified drug; acrosome reaction; animal cell; Article; bioinformatics; cell viability; concentration (parameter); controlled study; cytotoxicity; differential expression analysis; epididymis; gene ontology; kinematics; male; male fertility; male infertility; metabolism; molecular biology; morphology; motile cilium; mouse; nonhuman; pathogenesis; protein defect; protein expression level; protein protein interaction; signal transduction; sperm; sperm capacitation; sperm function; sperm viability; spermatozoon; spermatozoon motility | English | 2024 | 2024-01 | 10.3390/toxics12010053 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | Ferulic Acid Derivatives Ameliorate Intestine Barrier Destruction by Alleviating Inflammatory Responses in Dextran Sulfate Sodium-Induced Inflammatory Bowel Disease | Inflammatory bowel disease (IBD), a chronic disorder affecting the colon and rectum, involves the overproduction of pro-inflammatory cytokines causing damage to tight junctions (TJ) in the intestinal epithelial cells and chronic inflammation. The current mainstay of treatment, sulfasalazine, often causes adverse effects, thereby necessitating the exploration of alternative herbal medicines with fewer side effects. Portulaca oleracea L. (P. oleracea), a traditional medicinal herb, contains feruloyl amide compounds. We synthesized new compounds by conjugating ferulic acid (FA) with (+/-)-octopamine. Our study focused on novel FA derivatives that demonstrate protective effects against the intestinal epithelial barrier and inflammatory responses. In lipopolysaccharide-induced cells, C1 and C1a inhibited the production of inflammatory mediators. In Caco-2 cells, these compounds maintained the TJ protein expression, thereby demonstrating their protective effects on the epithelial barrier. In a mouse model of dextran sulfate sodium-induced IBD, a treatment with these compounds ameliorated features including a body weight reduction, colon shortening, an increased disease activity index, and histopathological changes. Furthermore, C1a demonstrated greater efficacy than C1 at the same concentration. These findings suggest that the novel FA derivative (C1a) effectively alleviates clinical signs and inflammatory mediators in IBD, making these compounds potential candidates as natural medicines for the treatment of IBD. | Kim, Yeon-Yong; Hur, Gayeong; Jang, Hyun-Jae; Jeong, Seungwon; Lee, Seung Woong; Lee, Seung-Jae; Rho, Mun-Chual; Kim, Sang-Hyun; Lee, Soyoung | Korea Res Inst Biosci Biotechnol KRIBB, Funct Biomat Res Ctr, Jeongeup 56212, South Korea; Korea Res Inst Biosci & Biotechnol KRIBB, Nat Prod Res Ctr, Cheongju 28116, South Korea; Kyungpook Natl Univ, Cell & Matrix Res Inst, Sch Med, Dept Pharmacol, Daegu 41944, South Korea | ; Kim, Sang-Hyun/KQU-4555-2024 | 57190027396; 57210110184; 54395592500; 57219359192; 55033843800; 59074953300; 56473737800; 57210450420; 8537269200 | gyy123@kribb.re.kr;gayeong1115@gmail.com;water815@kribb.re.kr;jsw0212@kribb.re.kr;lswdoc@kribb.re.kr;seung99@kribb.re.kr;rho-m@kribb.re.kr;shkim72@knu.ac.kr;sylee@kribb.re.kr; | TOXICS | TOXICS | 2305-6304 | 12 | 4 | SCIE | ENVIRONMENTAL SCIENCES;TOXICOLOGY | 2024 | 4.1 | 21.2 | 1.03 | 2025-05-07 | 1 | 2 | inflammatory bowel disease; dextran sulfate sodium; ferulic acid; Portulaca oleracea L. | ULCERATIVE-COLITIS; APOPTOSIS; EXTRACT; ACTIVATION; EXPRESSION; INTEGRITY; THERAPY; PATHWAY; ESTERS | dextran sulfate sodium; ferulic acid; inflammatory bowel disease; Portulaca oleraceaL | 4 o feruloyl n feruloyloctopamine; agents used in inflammatory bowel disease; dextran sulfate; ferulic acid; n feruloyloctopamine; unclassified drug; animal cell; animal experiment; animal model; Article; body weight loss; Caco-2 cell line; controlled study; disease activity; disease activity score; drug induced disease; histopathology; inflammatory bowel disease; intestine epithelium; intestine epithelium cell; male; mouse; nonhuman; Portulaca oleracea; protein expression; tight junction | English | 2024 | 2024-04 | 10.3390/toxics12040268 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | Oleanolic Acid Acetate Alleviates Cisplatin-Induced Nephrotoxicity via Inhibition of Apoptosis and Necroptosis In Vitro and In Vivo | Cisplatin is a widely used anti-cancer drug for treating solid tumors, but it is associated with severe side effects, including nephrotoxicity. Various studies have suggested that the nephrotoxicity of cisplatin could be overcome; nonetheless, an effective adjuvant drug has not yet been established. Oleanolic acid acetate (OAA), a triterpenoid isolated from Vigna angularis, is commonly used to treat inflammatory and allergic diseases. This study aimed to investigate the protective effects of OAA against cisplatin-induced apoptosis and necroptosis using TCMK-1 cells and a mouse model. In cisplatin-treated TCMK-1 cells, OAA treatment significantly reduced Bax and cleaved-caspase3 expression, whereas it increased Bcl-2 expression. Moreover, in a cisplatin-induced kidney injury mouse model, OAA treatment alleviated weight loss in the body and major organs and also relieved cisplatin-induced nephrotoxicity symptoms. RNA sequencing analysis of kidney tissues identified lipocalin-2 as the most upregulated gene by cisplatin. Additionally, necroptosis-related genes such as receptor-interacting protein kinase (RIPK) and mixed lineage kinase domain-like (MLKL) were identified. In an in vitro study, the phosphorylation of RIPKs and MLKL was reduced by OAA pretreatment in both cisplatin-treated cells and cells boosted via co-treatment with z-VAD-FMK. In conclusion, OAA could protect the kidney from cisplatin-induced nephrotoxicity and may serve as an anti-cancer adjuvant. | Lee, Bori; Kim, Yeon-Yong; Jeong, Seungwon; Lee, Seung Woong; Lee, Seung-Jae; Rho, Mun-Chual; Kim, Sang-Hyun; Lee, Soyoung | Korea Res Inst Biosci & Biotechnol KRIBB, Funct Biomat Res Ctr, Jeongeup 56212, South Korea; Kyungpook Natl Univ, Cell & Matrix Res Inst, Sch Med, Dept Pharmacol, Daegu 41944, South Korea | ; Kim, Sang-Hyun/KQU-4555-2024 | 59008891600; 57190027396; 57219359192; 55033843800; 59074953300; 56473737800; 57210450420; 8537269200 | leebori1004@kribb.re.kr;gyy123@kribb.re.kr;jsw0212@kribb.re.kr;lswdoc@kribb.re.kr;seung99@kribb.re.kr;rho-m@kribb.re.kr;shkim72@knu.ac.kr;sylee@kribb.re.kr; | TOXICS | TOXICS | 2305-6304 | 12 | 4 | SCIE | ENVIRONMENTAL SCIENCES;TOXICOLOGY | 2024 | 4.1 | 21.2 | 1.54 | 2025-05-07 | 3 | 3 | acute kidney injury; oleanolic acid acetate; cisplatin; necroptosis; apoptosis | ACUTE KIDNEY INJURY; GELATINASE-ASSOCIATED LIPOCALIN; CELL-DEATH; CANCER; INFLAMMATION; NECROSIS; CLEAVAGE; COMPLEX; RIP3 | acute kidney injury; apoptosis; cisplatin; necroptosis; oleanolic acid acetate | acetic acid; benzyloxycarbonylvalylalanylaspartyl fluoromethyl ketone; beta actin; caspase 3; caspase 7; caspase 8; chaperonin 60; cisplatin; complementary DNA; creatinine; hypoxia inducible factor 1alpha; interleukin 1beta; interleukin 6; messenger RNA; mixed lineage kinase; mixed lineage kinase domain like; neutrophil gelatinase associated lipocalin; nitrogen; oleanolic acid; oleanolic acid acetate; propidium iodide; protein Bax; protein bcl 2; proteome; receptor interacting protein kinase; receptor interacting protein kinase 1; receptor interacting protein kinase 3; sodium thiosulfate; tumor necrosis factor; unclassified drug; urea; animal cell; animal experiment; animal model; animal tissue; apoptosis; Article; body weight loss; cell death; cell viability; clinical evaluation; controlled study; drug effect; drug mechanism; enzyme linked immunosorbent assay; gene expression; in vitro study; in vivo study; kidney cell line; kidney injury; kidney tissue; male; mouse; necroptosis; nephrotoxicity; nonhuman; protein expression; protein phosphorylation; RNA sequencing; symptom; tcmk 1 cell; treatment indication; upregulation | English | 2024 | 2024-04 | 10.3390/toxics12040301 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | Ritonavir Has Reproductive Toxicity Depending on Disrupting PI3K/PDK1/AKT Signaling Pathway | Ritonavir (RTV) is an antiviral and a component of COVID-19 treatments. Moreover, RTV demonstrates anti-cancer effects by suppressing AKT. However, RTV has cytotoxicity and suppresses sperm functions by altering AKT activity. Although abnormal AKT activity is known for causing detrimental effects on sperm functions, how RTV alters AKT signaling in spermatozoa remains unknown. Therefore, this study aimed to investigate reproductive toxicity of RTV in spermatozoa through phosphoinositide 3-kinase/phosphoinositide-dependent protein kinase-1/protein kinase B (PI3K/PDK1/AKT) signaling. Duroc spermatozoa were treated with various concentrations of RTV, and capacitation was induced. Sperm functions (sperm motility, motion kinematics, capacitation status, and cell viability) and expression levels of tyrosine-phosphorylated proteins and PI3K/PDK1/AKT pathway-related proteins were evaluated. In the results, RTV significantly suppressed sperm motility, motion kinematics, capacitation, acrosome reactions, and cell viability. Additionally, RTV significantly increased levels of phospho-tyrosine proteins and PI3K/PDK1/AKT pathway-related proteins except for AKT and PI3K. The expression level of AKT was not significantly altered and that of PI3K was significantly decreased. These results suggest RTV may suppress sperm functions by induced alterations of PI3K/PDK1/AKT pathway through abnormally increased tyrosine phosphorylation. Therefore, we suggest people who use or prescribe RTV need to consider its male reproductive toxicity. | Jung, Eun-Ju; Jo, Jae-Hwan; Uwamahoro, Claudine; Jang, Seung-Ik; Lee, Woo-Jin; Hwang, Ju-Mi; Bae, Jeong-Won; Kwon, Woo-Sung | Kyungpook Natl Univ, Dept Anim Sci & Biotechnol, Sangju 37224, Gyeongsangbuk D, South Korea; Kyungpook Natl Univ, Dept Anim Biotechnol, Sangju 37224, Gyeongsangbuk D, South Korea; Kyungpook Natl Univ, Res Inst Innovat Anim Sci, Sangju 37224, Gyeongsangbuk D, South Korea | Kwon, Woo-Sung/J-6731-2019; Bae, Jeong-Won/AAH-4932-2021; Kwon, Woo-Sung/J-4391-2014 | 57377289200; 58346379700; 58844996200; 58346379800; 57377138800; 57217871526; 57211231093; 54383715800 | red0787@naver.com;ocjallk@naver.com;claudineuwa20@gmail.com;todwnl5787@naver.com;wj9059lee@naver.com;ghkdwnal100@gmail.com;jwbae1822@gmail.com;wskwon@knu.ac.kr; | TOXICS | TOXICS | 2305-6304 | 12 | 1 | SCIE | ENVIRONMENTAL SCIENCES;TOXICOLOGY | 2024 | 4.1 | 21.2 | 3.41 | 2025-04-16 | 6 | 6 | ritonavir; spermatozoa; capacitation; PI3K/PDK1/AKT pathway | PROTEASE INHIBITOR RITONAVIR; TYROSINE PHOSPHORYLATION; PHOSPHOINOSITIDE 3-KINASE; SPERM VIABILITY; MALE-FERTILITY; KINASE B; AKT; MOTILITY; INVOLVEMENT; INDUCTION | capacitation; PI3K/PDK1/AKT pathway; ritonavir; spermatozoa | phosphatidylinositol 3 kinase; phosphoinositide dependent protein kinase 1; protein kinase B; ritonavir; tyrosine; acrosome reaction; Akt signaling; antineoplastic activity; antiviral activity; Article; cancer inhibition; cell viability; controlled study; coronavirus disease 2019; cytotoxicity; drug toxicity; human; kinematics; male; nonhuman; pharmacology; protein phosphorylation; reproductive toxicity; signal transduction; sperm function; spermatozoon; spermatozoon motility | English | 2024 | 2024-01 | 10.3390/toxics12010073 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | Spirobenzofuran Mitigates Ochratoxin A-Mediated Intestinal Adverse Effects in Pigs through Regulation of Beta Defensin 1 | Antimicrobial peptides (AMPs) function to extensively suppress various problematic factors and are considered a new alternative for improving livestock health and enhancing immunomodulation. In this study, we explored whether AMP regulation has positive influences on Ochratoxin A (OTA) exposure using a porcine intestinal epithelial cell line (IPEC-J2 cells). We constructed a beta-defensin 1 (DEFB1) expression vector and used it to transfection IPEC-J2 cells to construct AMP overexpression cell lines. The results showed that OTA induced cytotoxicity, decreased cell migration, and increased inflammatory markers mRNA in IPEC-J2 cells. In DEFB1 overexpressing cell lines, OTA-induced reduced cell migration and increased inflammatory markers mRNA were alleviated. Additionally, a natural product capable of inducing DEFB1 expression, which was selected through high-throughput screening, showed significant alleviation of cytotoxicity, cell migration, and inflammatory markers compared to OTA-treated IPEC-J2 cells. Our finding provides novel insights and clues for the porcine industry, which is affected by OTA exposure. | Yoon, Jung Woong; Kim, Myoung Ok; Shin, Sangsu; Kwon, Woo-Sung; Kim, Soo Hyun; Kwon, Yun-Ju; Lee, Sang In | Kyungpook Natl Univ, Dept Anim Sci & Biotechnol, Sangju 37224, Gyeongsangbug D, South Korea; Kyungpook Natl Univ, Res Inst Innovat Anim Sci, Sangju 37224, Gyeongsangbug D, South Korea; Natl Inst Korean Med Dev, North Gyeongsang 38540, South Korea | Kwon, Woo-Sung/J-4391-2014; Kwon, Woo-Sung/J-6731-2019 | 58061240700; 8934745900; 55490360000; 54383715800; 57221099702; 59233801700; 57203597336 | kizx789@knu.ac.kr;ok4325@knu.ac.kr;sss@knu.ac.kr;wskwon@knu.ac.kr;beluga81@nikom.or.kr;mars005@nikom.or.kr;silee78@knu.ac.kr; | TOXICS | TOXICS | 2305-6304 | 12 | 7 | SCIE | ENVIRONMENTAL SCIENCES;TOXICOLOGY | 2024 | 4.1 | 21.2 | 0 | 2025-05-07 | 0 | 0 | Ochratoxin A; IPEC-J2 cells; DEFB1 overexpression cell line; natural products; high-throughput screening; Spirobenzofuran | ANTIMICROBIAL PEPTIDES; EPITHELIAL-CELLS; BARRIER FUNCTION; IMMUNE-RESPONSE; HEALTH; INFLAMMATION; MYCOTOXINS; MIGRATION | DEFB1 overexpression cell line; high-throughput screening; IPEC-J2 cells; natural products; Ochratoxin A; Spirobenzofuran | benzofuran derivative; beta defensin 1; immunoglobulin enhancer binding protein; interleukin 1beta; interleukin 6; messenger RNA; natural product; ochratoxin; spiro compound; spirobenzofuran; tumor necrosis factor; unclassified drug; Article; cell migration; cell viability; controlled study; cytotoxicity; expression vector; genetic transfection; high throughput screening; human; human cell; human tissue; inflammation; intestine epithelium cell; IPEC-J2 cell line; mRNA expression level; piglet; protein expression; regulatory mechanism | English | 2024 | 2024-07 | 10.3390/toxics12070487 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | CRACD loss induces neuroendocrine cell plasticity of lung adenocarcinoma | Tumor cell plasticity contributes to intratumoral heterogeneity and therapy resistance. Through cell plasticity, some lung adenocarcinoma (LUAD) cells transform into neuroendocrine (NE) tumor cells. However, the mechanisms of NE cell plasticity remain unclear. CRACD (capping protein inhibiting regulator of actin dynamics), a capping protein inhibitor, is frequently inactivated in cancers. CRACD knockout (KO) is sufficient to de -repress NE -related gene expression in the pulmonary epithelium and LUAD cells. In LUAD mouse models, Cracd KO increases intratumoral heterogeneity with NE gene expression. Single -cell transcriptomic analysis showed that Cracd KO -induced NE cell plasticity is associated with cell de -differentiation and stemness-related pathway activation. The single -cell transcriptomic analysis of LUAD patient tumors recapitulates that the distinct LUAD NE cell cluster expressing NE genes is co -enriched with impaired actin remodeling. This study reveals the crucial role of CRACD in restricting NE cell plasticity that induces cell de -differentiation of LUAD. | Kim, Bongjun; Zhang, Shengzhe; Huang, Yuanjian; Ko, Kyung-Pil; Jung, Youn-Sang; Jang, Jinho; Zou, Gengyi; Zhang, Jie; Jun, Sohee; Kim, Kee-Beom; Park, Kwon-Sik; Park, Jae-Il | Univ Texas MD Anderson Canc Ctr, Dept Expt Radiat Oncol, Div Radiat Oncol, Houston, TX 77030 USA; Univ Virginia, Sch Med, Dept Microbiol Immunol & Canc Biol, Charlottesville, VA 22908 USA; Kyungpook Natl Univ, Sch Life Sci, BK21 FOUR KNU Creat BioRes Grp, Daegu 41566, South Korea; Univ Texas MD Anderson Canc Ctr, Grad Sch Biomed Sci, Houston, TX 77030 USA; Univ Texas MD Anderson Canc Ctr, Program Genet & Epigenet, Houston, TX 77030 USA | ; Zou, Gengyi/AEA-7543-2022; Zhang, Shengzhe/AGU-3372-2022 | 56254900300; 59061841700; 57214324534; 57353361500; 36089854800; 59139798700; 57805058400; 55172145500; 23489039200; 58136893800; 25958774500; 8069435400 | bkim6@mdanderseon.org;jaeil@mdanderson.org; | CELL REPORTS | CELL REP | 2211-1247 | 43 | 6 | SCIE | CELL BIOLOGY | 2024 | 6.9 | 21.3 | 0.62 | 2025-05-07 | 4 | 3 | TO-MESENCHYMAL TRANSITION; STEM-CELLS; ACQUIRED-RESISTANCE; EPITHELIAL-CELLS; CANCER; TRANSFORMATION; CARCINOMA; ACTIN; GENE; TRANSDIFFERENTIATION | ASCL1; cell de-differentiation; cell plasticity; CP: Cancer; CRACD; CRAD; KIAA1211; lung adenocarcinoma; neuroendocrine cell plasticity; therapy resistance; tumor heterogeneity | Adenocarcinoma of Lung; Animals; Cell Line, Tumor; Cell Plasticity; Gene Expression Regulation, Neoplastic; Humans; Lung Neoplasms; Mice; Neuroendocrine Cells; Ac Tub protein; Calca protein; calcitonin gene related peptide; capping protein inhibiting regulator of actin dynamics; carboplatin; ChgA protein; CRISPR associated endonuclease Cas9; cytokeratin 19; epithelial cell adhesion molecule; gefitinib; glyceraldehyde 3 phosphate dehydrogenase; HOPX protein; Ki 67 antigen; mesothelin; Ncam1 protein; nerve cell adhesion molecule; neurogenic differentiation factor; nitrous oxide; octamer transcription factor 4; pitavastatin; platelet endothelial cell adhesion molecule 1; prosurfactant protein C; protein inhibitor; receptor type tyrosine protein phosphatase C; SCGB1A1 protein; short hairpin RNA; small untranslated RNA; SPC protein; synaptophysin; Syp protein; trametinib; transcription factor FOXP2; transcription factor Mash1; transcription factor PAX2; transcription factor Sox2; transferrin; Uchl1 protein; unclassified drug; uvomorulin; A-549 cell line; actin filament; actin polymerization; adult; animal cell; animal experiment; animal model; animal tissue; antigen retrieval; Article; cell differentiation; cell plasticity; cell proliferation; cell stemness; controlled study; epithelial mesenchymal plasticity; epithelial mesenchymal transition; flow cytometry; fluorescence activated cell sorting; gene amplification; gene counting; gene expression; gene frequency; gene ontology; gene set enrichment analysis; genetic heterogeneity; genetic transfection; HEK293T cell line; human; human cell; human tissue; immunofluorescence assay; immunohistochemistry; intratumoral heterogeneity; intratumoral heterogeneity index; KEGG; lung adenocarcinoma; lung cell isolation; lung epithelium; major clinical study; mouse; neurosecretory cell; nonhuman; pathway score analysis; polymerase chain reaction; pulmonary epithelial cell; single cell RNA seq; single cell transcriptomics; tumor spheroid formation assay; uniform manifold approximation and projection; animal; gene expression regulation; genetics; lung adenocarcinoma; lung tumor; metabolism; pathology; tumor cell line | English | 2024 | 2024-06-25 | 10.1016/j.celrep.2024.114286 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |||
| ○ | ○ | Article | The microglial innate immune protein PGLYRP1 mediates neuroinflammation and consequent behavioral changes | Peptidoglycan recognition protein 1 (PGLYRP1) is a pattern -recognition protein that mediates antibacterial actions and innate immune responses. Its expression and role in neuroinflammatory conditions remain unclear. We observed the upregulation of PGLYRP1 in inflamed human and mouse spinal cord and brain, with microglia being the primary cellular source. Experiments using a recombinant PGLYRP1 protein show that PGLYRP1 potentiates reactive gliosis, neuroinflammation, and consequent behavioral changes in multiple animal models of neuroinflammation. Furthermore, shRNA-mediated knockdown of Pglyrp1 gene expression attenuates this inflammatory response. In addition, we identify triggering receptor expressed on myeloid cell -1 (TREM1) as an interaction partner of PGLYRP1 and demonstrate that PGLYRP1 promotes neuroinflammation through the TREM1-Syk-Erk1/2-Stat3 axis in cultured glial cells. Taken together, our results reveal a role for microglial PGLYRP1 as a neuroinflammation mediator. Finally, we propose that PGLYRP1 is a potential biomarker and therapeutic target in various neuroinflammatory diseases. | Bhusal, Anup; Kim, Jae-Hong; Kim, Seung-Chan; Hwang, Eun Mi; Ryu, Hoon; Ali, Md. Sekendar; Park, Seung-Chun; Lee, Won-Ha; Suk, Kyoungho | Kyungpook Natl Univ, Sch Med, Dept Pharmacol, Daegu 41944, South Korea; Kyungpook Natl Univ, Sch Med, Dept Biomed Sci, BK21 Plus KNU Biomed Convergence Program, Daegu 41944, South Korea; Kyungpook Natl Univ, Sch Med, Brain Korea 21 Four KNU Convergence Educ Program B, Daegu 41944, South Korea; Korea Inst Sci & Technol, Brain Sci Inst, Seoul, South Korea; Ctr Neurosci, Brain Sci Inst, Korea Inst Sci & Technol, Seoul, South Korea; Kyungpook Natl Univ, Inst Vet Biomed Sci, Coll Vet Med, Lab Vet Pharmacokinet & Pharmacodynam, Daegu, South Korea; Kyungpook Natl Univ, Cardiovasc Res Inst, Daegu, South Korea; Kyungpook Natl Univ, Sch Life Sci, BK21 Plus KNU Creat Biores Grp, Daegu, South Korea; Kyungpook Natl Univ, Brain Sci & Engn Inst, Daegu 41944, South Korea | Hwang, Eun Mi/HHN-3030-2022; Kim, Hyun Jung/GQP-3241-2022; Ryu, Hoon/MCJ-9411-2025; Park, Seung-Chun/AAV-3388-2021 | 57200274141; 55926599800; 57204605658; 7101826741; 7202277209; 57219661221; 7501832396; 57205609794; 7005114595 | ksuk@knu.ac.kr; | CELL REPORTS | CELL REP | 2211-1247 | 43 | 3 | SCIE | CELL BIOLOGY | 2024 | 6.9 | 21.3 | 2.49 | 2025-05-07 | 9 | 8 | PEPTIDOGLYCAN RECOGNITION PROTEIN; EXPERIMENTAL AUTOIMMUNE ENCEPHALOMYELITIS; CELLS; BRAIN; MECHANISMS; RESPONSES; KINASE; ATHEROSCLEROSIS; LIPOCALIN-2; CORONARY | astrocyte; CP: Neuroscience; microglia; neuroinflammation; peptidoglycan recognition protein 1; TREM1 | Animals; Cytokines; Humans; Immunity, Innate; Inflammation; Mice; Microglia; Neuroinflammatory Diseases; Triggering Receptor Expressed on Myeloid Cells-1; messenger RNA; mitogen activated protein kinase 1; mitogen activated protein kinase 3; neutralizing antibody; nitric oxide; peptidoglycan recognition protein; protein kinase Syk; short hairpin RNA; STAT3 protein; triggering receptor expressed on myeloid cells 1; tumor necrosis factor; cytokine; PGLYRP1 protein, human; triggering receptor expressed on myeloid cells 1; adhesive removal test; animal cell; animal experiment; animal model; animal tissue; antibacterial activity; Article; astrocyte; astrocyte culture; behavior change; cell viability; central nervous system infection; enzyme linked immunosorbent assay; experimental autoimmune encephalomyelitis; forced swim test; gene expression; glia cell; gliosis; histology; human; immune response; immunofluorescence; inflammation; innate immunity; lipopolysaccharide-induced neuroinflammation; microglia; mouse; multiple sclerosis; nervous system inflammation; nonhuman; open field test; passive avoidance test; phenotype; pole test; polymerase chain reaction; protein expression; RNA sequencing; rotarod test; signal transduction; spinal cord; spinal cord injury; sucrose preference test; traumatic brain injury; upregulation; Western blotting; wire suspension test; Y-maze test; animal; innate immunity; metabolism; nervous system inflammation | English | 2024 | 2024-03-26 | 10.1016/j.celrep.2024.113813 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |||
| ○ | ○ | Article | Association of Serum Activin Levels with Allograft Outcomes in Patients with Kidney Transplant: Results from the KNOW-KT | Introduction: Serum activin A has been reported to contribute to vascular calcification and kidney fibrosis in chronic kidney disease. We aimed to investigate whether higher serum activin levels were associated with poor allograft outcomes in patients with kidney transplantation (KT). Methods: A total of 860 KT patients from KNOW-KT (Korean Cohort Study for Outcome in Patients with Kidney Transplantation) were analyzed. We measured serum activin levels pre-KT and 1 year after KT. The primary outcome was the composite of a >= 50% decline in estimated glomerular filtration rate and graft failure. Multivariable cause-specific hazard model was used to analyze association of 1-year activin levels with the primary outcome. The secondary outcome was coronary artery calcification score (CACS) at 5 years after KT. Results: During the median follow-up of 6.7 years, the primary outcome occurred in 109 (12.7%) patients. The serum activin levels at 1 year were significantly lower than those at pre-KT (488.2 +/- 247.3 vs. 704.0 +/- 349.6). When patients were grouped based on the median activin level at 1 year, the high-activin group had a 1.91-fold higher risk (95% CI, 1.25-2.91) for the primary outcome compared to the low-activin group. A one-standard deviation increase in activin levels as a continuous variable was associated with a 1.36-fold higher risk (95% CI, 1.16-1.60) for the primary outcome. Moreover, high activin levels were significantly associated with 1.56-fold higher CACS (95% CI, 1.12-2.18). Conclusion: Post-transplant activin levels were independently associated with allograft functions as well as coronary artery calcification in KT patients. | Jung, Hui-Yun; Ryu, Jung-Hwa; Kim, Myung-Gyu; Huh, Kyu Ha; Lee, Kyo Won; Jung, Hee-Yeon; Kang, Kyung Pyo; Ro, Han; Han, Seungyeup; Yang, Jaeseok | Yonsei Univ, Coll Med, Severance Hosp, Dept Internal Med, Seoul, South Korea; Ewha Womans Univ, Med Ctr, Dept Internal Med, Seoul, South Korea; Korea Univ, Coll Med, Dept Internal Med, Seoul, South Korea; Yonsei Univ Hlth Syst, Severance Hosp, Dept Transplantat Surg, Seoul, South Korea; Sungkyunkwan Univ, Seoul Samsung Med Ctr, Dept Surg, Seoul, South Korea; Kyungpook Natl Univ Hosp, Dept Internal Med, Daegu, South Korea; Jeonbuk Natl Univ, Med Sch, Dept Internal Med, Jeonju, South Korea; Gachon Univ, Gil Hosp, Dept Internal Med, Incheon, South Korea; Keimyung Univ, Dongsan Med Ctr, Dept Internal Med, Daegu, South Korea | ; Yang, Jae/LUW-8250-2024; Kang, Kyung Pyo/ABG-3614-2020; Lee, Jeeyun/I-7171-2015; Jung, Hee-Yeon/AFB-8578-2022; Han, Seung Seok/HGD-2825-2022 | 58815041600; 14621981000; 36183208900; 58037785900; 57196252088; 57196396467; 7402223564; 26538034700; 24281360600; 57212326527 | jcyjs@yuhs.ac; | AMERICAN JOURNAL OF NEPHROLOGY | AM J NEPHROL | 0250-8095 | 1421-9670 | 55 | 2 | SCIE | UROLOGY & NEPHROLOGY | 2024 | 3.2 | 21.4 | 0 | 2025-05-07 | 0 | 0 | Activin; Kidney transplantation; Kidney outcome; Biomarker; Allograft failure; Coronary artery calcification | SOTATERCEPT; EXPRESSION; SURVIVAL; DISEASE; SAFETY; BONE; FSH | Activin; Allograft failure; Biomarker; Coronary artery calcification; Kidney outcome; Kidney transplantation | Activins; Allografts; Cohort Studies; Graft Survival; Humans; Kidney Transplantation; Risk Factors; Treatment Outcome; activin; albumin; C reactive protein; calcium; creatinine; diuretic agent; hemoglobin; high density lipoprotein cholesterol; hydroxymethylglutaryl coenzyme A reductase inhibitor; low density lipoprotein cholesterol; parathyroid hormone; phosphorus; tacrolimus; triacylglycerol; activin; acute graft rejection; allograft; Article; blood vessel calcification; body mass; bone density; cancer prognosis; cardiovascular disease; carotid intima-media thickness; Charlson Comorbidity Index; chronic kidney failure; clinical outcome; cohort analysis; confounding variable; congestive heart failure; coronary artery calcification; current smoker; diabetes mellitus; diastolic blood pressure; disease exacerbation; enzyme linked immunosorbent assay; estimated glomerular filtration rate; female; follow up; graft failure; graft recipient; heart infarction; heart muscle revascularization; high risk patient; human; hypertension; inflammation; kidney fibrosis; kidney graft; laboratory test; logistic regression analysis; long term care; major clinical study; male; mortality risk; multivariate analysis; never smoker; observational study; outcomes research; phenotype; prospective study; protein blood level; protein creatinine ratio; proteinuria; renin angiotensin aldosterone system; reperfusion injury; sociodemographics; survival rate; systolic blood pressure; univariate analysis; allograft; graft survival; kidney transplantation; risk factor; treatment outcome | English | 2024 | 2024-03 | 10.1159/000536198 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |
| ○ | ○ | Article | Fast knowledge graph completion using graphics processing units | Knowledge graphs can be used in many areas related to data semantics such as question -answering systems, knowledge based systems. However, the currently constructed knowledge graphs need to be complemented for better knowledge in terms of relations. It is called knowledge graph completion. To add new relations to the existing knowledge graph by using knowledge graph embedding models, we have to evaluate N x N x R vector operations, where N is the number of entities and R is the number of relation types. It is very costly. In this paper, we provide an efficient knowledge graph completion framework on GPUs to get new relations using knowledge graph embedding vectors. In the proposed framework, we first define transformable to a metric space and then provide a method to transform the knowledge graph completion problem into the similarity join problem for a model which is transformable to a metric space . After that, to efficiently process the similarity join problem, we derive formulas using the properties of a metric space. Based on the formulas, we develop a fast knowledge graph completion algorithm. Finally, we experimentally show that our framework can efficiently process the knowledge graph completion problem. | Lee, Chun-Hee; Kang, Dong-oh; Song, Hwa Jeon | ETRI, Intelligence Informat Res Div, Daejeon 34129, South Korea; Kyungpook Natl Univ, Sch Comp Sci & Engn, Daegu 41566, South Korea | ; Kang, Dong/AAH-5838-2019 | 57201377124; 53873689900; 14018761800 | chunhee@knu.ac.kr; | JOURNAL OF PARALLEL AND DISTRIBUTED COMPUTING | J PARALLEL DISTR COM | 0743-7315 | 1096-0848 | 190 | SCIE | COMPUTER SCIENCE, THEORY & METHODS | 2024 | 4 | 21.4 | 0 | 2025-05-07 | 0 | 0 | Knowledge graph embedding; Knowledge graph completion; TransE; Similarity join; GPU processing | FAST SIMILARITY JOIN; ALGORITHM | GPU processing; Knowledge graph completion; Knowledge graph embedding; Similarity join; TransE | Computer graphics; Computer graphics equipment; Graph embeddings; Graphics processing unit; Knowledge graph; Program processors; Semantics; Set theory; Completion problem; GPU processing; Graph embeddings; Knowledge graph completion; Knowledge graph embedding; Knowledge graphs; Metric spaces; Similarity join; Transe; Topology | English | 2024 | 2024-03 | 10.1016/j.jpdc.2024.104885 | 바로가기 | 바로가기 | 바로가기 | 바로가기 | ||
| ○ | ○ | Article | Denoiseit: denoising gene expression data using rank based isolation trees | Background Selecting informative genes or eliminating uninformative ones before any downstream gene expression analysis is a standard task with great impact on the results. A carefully curated gene set significantly enhances the likelihood of identifying meaningful biomarkers. Method In contrast to the conventional forward gene search methods that focus on selecting highly informative genes, we propose a backward search method, DenoiseIt, that aims to remove potential outlier genes yielding a robust gene set with reduced noise. The gene set constructed by DenoiseIt is expected to capture biologically significant genes while pruning irrelevant ones to the greatest extent possible. Therefore, it also enhances the quality of downstream comparative gene expression analysis. DenoiseIt utilizes non-negative matrix factorization in conjunction with isolation forests to identify outlier rank features and remove their associated genes. Results DenoiseIt was applied to both bulk and single-cell RNA-seq data collected from TCGA and a COVID-19 cohort to show that it proficiently identified and removed genes exhibiting expression anomalies confined to specific samples rather than a known group. DenoiseIt also showed to reduce the level of technical noise while preserving a higher proportion of biologically relevant genes compared to existing methods. The DenoiseIt Software is publicly available on GitHub at https://github.com/cobi-git/DenoiseIt | Jeon, Jaemin; Suk, Youjeong; Kim, Sang Cheol; Jo, Hye-Yeong; Kim, Kwangsoo; Jung, Inuk | Seoul Natl Univ, Interdisciplinary Program Bioinformat, Seoul 08826, South Korea; Kyungpook Natl Univ, Sch Comp Sci & Engn, Daegu 41566, South Korea; Korea Dis Control & Prevent Agcy, Korea Natl Inst Hlth, Dept Precis Med, Div Healthcare & Artificial Intelligence, Cheongju 28159, South Korea; Seoul Natl Univ Hosp, Dept Transdisciplinary Med, Seoul 03080, South Korea; Seoul Natl Univ, Dept Med, Seoul 03080, South Korea | 58145888700; 59287260100; 55989489800; 57158666600; 57210575084; 56067575500 | kwangsookim@snu.ac.kr;inukjung@knu.ac.kr; | BMC BIOINFORMATICS | BMC BIOINFORMATICS | 1471-2105 | 25 | 1 | SCIE | BIOCHEMICAL RESEARCH METHODS;MATHEMATICAL & COMPUTATIONAL BIOLOGY;BIOTECHNOLOGY & APPLIED MICROBIOLOGY | 2024 | 3.3 | 21.6 | 0 | 2025-05-07 | 0 | 0 | Gene; Noise; Filtering; Matrix factorization | SELECTION | Filtering; Gene; Matrix factorization; Noise | Gene expression; Genome; Non-negative matrix factorization; De-noising; Down-stream; Gene expression analysis; Gene Expression Data; Gene sets; Informative genes; Matrix factorizations; Noise; Nonnegative matrix factorization; Search method; Gene expression regulation | English | 2024 | 2024-08-21 | 10.1186/s12859-024-05899-z | 바로가기 | 바로가기 | 바로가기 | 바로가기 | |||
| ○ | ○ | Article | Tinnitus reduction after active bone-conduction implantation in patients with single-sided deafness: a prospective multicenter study | PurposeSingle-sided deafness (SSD) presents significant challenges for patients, including compromised sound localization, reduced speech recognition, and often, tinnitus. These issues are typically addressed using interventions such as cochlear implantation (CI) and bone conduction implant (BCI). However, evidence regarding the efficacy of BCI in reducing tinnitus in SSD patients remains limited. This study explored the ability of a novel active transcutaneous BCI (Bonebridge BCI602) to alleviate tinnitus in SSD patients.Study designProspective cohort multicenter study.SettingTertiary referral hospitals.MethodsA prospective multicenter study of 30 SSD patients was conducted. The patients were divided into two groups: those with (n = 19) and without (n = 11) tinnitus. Audiometric assessments, subjective questionnaires including the Abbreviated Profile of Hearing Aid Benefit (APHAB) and the Bern Benefit in Single-Sided Deafness (BBSS), and tinnitus evaluations with the Tinnitus Handicap Inventory (THI) and tinnitogram were conducted before and after BCI surgery.ResultsTHI scores after surgery were significantly reduced in SSD patients with tinnitus. Subjective satisfaction improved in both the tinnitus and non-tinnitus groups; however, the former group exhibited a significantly greater improvement in the APHAB questionnaire score. According to tinnitograms, the loudness of tinnitus decreased, particularly in patients with ipsilateral tinnitus. Patients with residual hearing had greater reductions in their THI scores. However, three patients without residual hearing had a relative worsening of tinnitus after surgery.ConclusionThe Bonebridge BCI602 effectively reduced tinnitus in SSD patients, particularly in those with residual hearing. Subjective satisfaction improved in both the tinnitus and non-tinnitus groups. These findings demonstrate the therapeutic potential of BCI for managing SSD and associated tinnitus. | Ha, Jungho; Park, Moo Kyun; Park, Shi Nae; Cho, Hyong-Ho; Choi, Jae Young; Lee, Chi Kyou; Lee, Il-Woo; Moon, Il Joon; Jung, Jae Yun; Jung, Jinsei; Lee, Kyu-Yup; Oh, Jeong-Hoon; Park, Hong Ju; Seo, Jae-Hyun; Song, Jae-Jin; Kim, Hantai; Jang, Jeong Hun; Choung, Yun-Hoon | Ajou Univ, Dept Otolaryngol, Sch Med, 164 Worldcup Ro, Suwon 16499, Gyeonggi Do, South Korea; Seoul Natl Univ, Coll Med, Dept Otorhinolaryngol Head & Neck Surg, Seoul, South Korea; Catholic Univ Korea, Seoul St Marys Hosp, Coll Med, Dept Otorhinolaryngol Head & Neck Surg, Seoul, South Korea; Chonnam Natl Univ, Chonnam Natl Univ Hosp, Sch Med, Dept Otolaryngol Head & Neck Surg, Gwangju, South Korea; Yonsei Univ, Coll Med, Dept Otorhinolaryngol, Seoul, South Korea; Soonchunhyang Univ, Coll Med, Seoul Hosp, Dept Otorhinolaryngol Head & Neck Surg, Seoul, South Korea; Pusan Natl Univ, Yangsan Hosp, Dept Otorhinolaryngol Head & Neck Surg, Coll Med, Yangsan, South Korea; Sungkyunkwan Univ, Samsung Med Ctr, Dept Otorhinolaryngol Head & Neck Surg, Sch Med, Seoul, South Korea; Dankook Univ, Dept Otolaryngol Head & Neck Surg, Coll Med, Cheonan, South Korea; Kyungpook Natl Univ, Sch Med, Dept Otorhinolaryngol Head & Neck Surg, Daegu, South Korea; Catholic Univ Korea, Bucheon St Marys Hosp, Coll Med, Dept Otorhinolaryngol Head & Neck Surg, Bucheon, South Korea; Tntn Hosp, Dept Otolaryngol, Hwasung, South Korea; Univ Ulsan, Asan Med Ctr, Dept Otorhinolaryngol Head & Neck Surg, Coll Med, Seoul, South Korea; Seoul Natl Univ, Bundang Hosp, Dept Otorhinolaryngol Head & Neck Surg, Seongnam, South Korea; Konyang Univ, Dept Otorhinolaryngol Head & Neck Surg, Coll Med, Daejeon, South Korea | Song, Jae-Jin/E-4633-2017; Kim, Hantai/AAZ-6304-2020; Lee, Sungwook/K-3697-2013; Jinsei, Jung/ADX-6032-2022; Choi, Jae-Young/AAW-2795-2021 | 57205671371; 24559185500; 7501826944; 8363917300; 56145609500; 10143369300; 56390540500; 13606798300; 55682282900; 55546452200; 22135779500; 55653729400; 57213039619; 48161796300; 56294178300; 57221994950; 26639429600; 7004685469 | yhc@ajou.ac.kr; | EUROPEAN ARCHIVES OF OTO-RHINO-LARYNGOLOGY | EUR ARCH OTO-RHINO-L | 0937-4477 | 1434-4726 | 281 | 11 | SCIE | OTORHINOLARYNGOLOGY | 2024 | 2.2 | 21.6 | 1.02 | 2025-05-07 | 1 | 1 | Tinnitus; Bone conduction implant; Active transcutaneous bone conduction implant; Bonebridge; Single-sided deafness | ANCHORED HEARING-AIDS; COCHLEAR IMPLANTATION; EFFICACY; OUTCOMES; CHILDREN; DEVICES; SYSTEM; EAR | Active transcutaneous bone conduction implant; Bone conduction implant; Bonebridge; Single-sided deafness; Tinnitus | Adult; Aged; Bone Conduction; Female; Hearing Aids; Hearing Loss, Unilateral; Humans; Male; Middle Aged; Prospective Studies; Surveys and Questionnaires; Tinnitus; Treatment Outcome; adult; APHAB questionnaire; Article; audiometry; bone conduction; bone conduction implantation; clinical article; cochlear implantation; controlled study; female; hearing impairment; human; implantation; ipsilateral tinnitus; male; middle aged; prospective study; pure tone audiometry; questionnaire; scoring system; single sided deafness; sound detection; speech discrimination; speech discrimination score; tertiary care center; tinnitus; Tinnitus Handicap Inventory; tympanometry; aged; bone conduction; clinical trial; hearing aid; multicenter study; pathophysiology; rehabilitation; surgery; treatment outcome; unilateral hearing loss | English | 2024 | 2024-11 | 10.1007/s00405-024-08780-0 | 바로가기 | 바로가기 | 바로가기 | 바로가기 |
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