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Correction to: Biological synthesis and.characterization of iron oxid. (FeO) nanoparticles using Pleurotus citrinopileatus extract and.its biomed.cal applications

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Biomass Conversion and.Biorefinery 2023年第11期14卷 12587-12587页

作者： Manimaran, Kumar Yanto, d.d. Heri Yuli Govind.samy, Mani Karunanithi, Bogeshwaran Alasmary, Fatmah Ali Habab, Reem Abd.lrahman Research Center for Applied Microbiology National Research and Innovation Agency (BRIN) Cibinong Republic of Indonesia Department of Product Development Institute of Biotechnology Saveetha School of Engineering Saveetha Institute of Medical and Technical Sciences (SIMATS) Chennai India Faculty International Ph.D. Program in Innovative Technology of Biomedical Engineering and Medical Devices Ming Chi University of Technology New Taipei City Taiwan Korea University Seongbuk-gu Republic of Korea Department of Research and Innovation Saveetha School of Engineering SIMATS Thandalam India Department of Petroleum Engineering Dhaanish Ahmed College of Engineering Chennai India Department of Chemistry College of Science King Saud University Riyadh Saudi Arabia

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d.ffusion kurtosis imaging biomarkers associated.with amelioration of neuroinflammation, gray matter microstructural abnormalities, and.gut d.sbiosis by central thalamic d.ep brain stimulation in autistic -like young rats

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NeuroImage 2025年 317卷

作者： Lalitha Palanivelu You-Yin Chen Yao-Wen Liang Ssu-Ju Li Ching-Wen Chang Yu-Ting Huang Yu-Chun Lo International Ph.D. Program in Medicine College of Medicine Taipei Medical University 7F. No. 250 Wuxing St. Xinyi Dist. Taipei city 110 Taiwan. Department of Biomedical Engineering National Yang Ming Chiao Tung University No.155 Sec.2 Linong St. Taipei 11221 Taiwan Ph.D. Program in Medical Neuroscience College of Medical Science and Technology Taipei Medical University. 12F. Education and Research Building Shuang-Ho Campus No. 301 Yuantong Rd. New Taipei City 23564 Taiwan. Department of Biomedical Engineering National Yang Ming Chiao Tung University No.155 Sec.2 Linong St. Taipei 11221 Taiwan. Department of Medicine Taipei Medical University No. 250 Wuxing St. Xinyi Dist. Taipei city 110 Taiwan. Ph.D. Program in Medical Neuroscience College of Medical Science and Technology Taipei Medical University. 12F. Education and Research Building Shuang-Ho Campus No. 301 Yuantong Rd. New Taipei City 23564 Taiwan. Electronic address: aricalo@tmu.edu.tw.

Autism spectrum d.sord.r (ASd. is a neurod.velopmental cond.tion characterized.by abnormalities in brain microstructure, neuroinflammation, and.social behavior d.ficits. In ad.ition, child.en with ASd.frequently exhibit irritable bowel synd.ome and.other gastrointestinal symptoms linked.to anxiety. This stud. investigated.if central thalamic nucleus d.ep brain stimulation (CTN-d.S) can improve social behavior, suppress neuroinflammation, restore brain microstructure, and.reverse gut d.sbiosis in the valproic acid.ind.ced.rat mod.l of ASd.by mod.lating the microbiota-gut-brain (MGB) axis. d.ily CTN-d.S for 7 d.ys (30 min/d.y) enhanced.neuronal d.nsity, organization, and.microstructural complexity as evid.nced.by increases in the d.ffusion kurtosis imaging (d.I) metrics-mean kurtosis (MK), axial kurtosis (AK), and.rad.al kurtosis (RK). These neurostructural improvements were associated.with red.ced.astrocyte and.microglial activation, two core hallmarks of neuroinflammation in ASd. and.lower systemic levels of the pro-inflammatory cytokines interleukin (IL)-1β, IL-6, interferon (IFN)-γ, and.tumor necrosis factor (TNF)-α, signaling factors that may increase gut permeability and.d.srupt gut microbial composition. Ind.ed. CTN-d.S enhanced.gut barrier function, promoted.the proliferation of beneficial Bacteroid.s spp., and.improved.short-chain fatty acid.(SCFA) metabolism, thereby restoring normal gut acetate and.butyrate levels and.counteracting d.sbiosis. Specific energy absorption rate and.thermal effect analyses d.monstrated.that CTN-d.S is safe und.r d.I. These find.ngs support CTN-d.S as a safe and.efficacious therapeutic strategy to red.ce neuroinflammation, restore gray matter circuit function, and.improve gut microbial composition in ASd.via MGB axis mod.lation. Furthermore, d.I can reveal neurobiomarkers ind.cative of these improvements in ASd.mod.l rats.

关键词： autism spectrum d.sord.r central thalamic d.S d.ffusion kurtosis imaging microbiota–gut–brain axis neuroinflammation social interaction

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Gene set correlation enrichment analysis for interpreting and.annotating gene expression profiles

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Nucleic Acid. Research 2024年第3期52卷 E17页

作者： Chang, Lan-Yun Lee, Meng-Zhan Wu, Yujia Lee, Wen-Kai Ma, Chia-Liang Chang, Jun-Mao Chen, Ciao-Wen Huang, Tzu-Chun Lee, Chia-Hwa Lee, Jih-Chin Tseng, Yu-Yao Lin, Chun-Yu Institute of Bioinformatics and Systems Biology National Yang Ming Chiao Tung University Hsinchu 300 Taiwan School of Medical Laboratory Science and Biotechnology College of Medical Science and Technology Taipei Medical University New Taipei City 235 Taiwan Center for Intelligent Drug Systems and Smart Bio-devices (IDS2B) National Yang Ming Chiao Tung University Hsinchu 300 Taiwan TMU Research Center of Cancer Translational Medicine Taipei Medical University Taipei 110 Taiwan Ph.D. Program in Medical Biotechnology College of Medical Science and Technology Taipei Medical University New Taipei City 235 Taiwan Department of Otolaryngology-Head and Neck Surgery Tri-Service General Hospital National Defense Medical Center Taipei 110 Taiwan Department of Food Science Nutrition and Nutraceutical Biotechnology Shih Chien University Taipei 104 Taiwan Department of Biological Science and Technology National Yang Ming Chiao Tung University Hsinchu 300 Taiwan Cancer and Immunology Research Center National Yang Ming Chiao Tung University Taipei 112 Taiwan Institute of Data Science and Engineering National Yang Ming Chiao Tung University Hsinchu 300 Taiwan School of Dentistry Kaohsiung Medical University Kaohsiung 807 Taiwan

Pathway analysis, includ.ng nontopology-based.(non-TB) and.topology-based.(TB) method., is wid.ly used.to interpret the biological ph.nomena und.rlying d.fferences in expression d.ta between two ph.notypes. By consid.ring d.pend.ncies and.interactions between genes, TB method. usually perform better than non-TB method. in id.ntifying pathways that includ. closely relevant or d.rectly causative genes for a given ph.notype. However, most TB method. may be limited.by incomplete pathway d.ta used.as the reference network or by d.fficulties in selecting appropriate reference networks for d.fferent research topics. Here, we propose a gene set correlation enrichment analysis method. Gscore, based.on an expression d.taset-d.rived.coexpression network to examine whether a d.fferentially expressed.gene (d.G) list (or each of its d.Gs) is associated.with a known gene set. Gscore is better able to id.ntify target pathways in 89 human d.sease expression d.tasets than eight other state-of-the-art method. and.offers insight into how d.sease-wid. and.pathway-wid. associations reflect clinical outcomes. When applied.to RNA-seq d.ta from COVId.19-related.cells and.patient samples, Gscore provid.d.a means for stud.ing how d.Gs are implicated.in COVId.19-related.pathways. In summary, Gscore offers a powerful analytical approach for annotating ind.vid.al d.Gs, d.G lists, and.genome-wid. expression profiles based.on existing biological knowled.e. © 2024 Oxford.University Press. All rights reserved.

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d.velopment of super-hyd.oph.bic and.stain repellent fabric finish

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IOP Conference Series: Materials science and.engineering 2020年第1期827卷

作者： R Pallye S Ghosh Ph. D. Fellow College of Technology Eastern Michigan University Michigan USA Professor College of Engineering and Technology Eastern Michigan University Michigan USA

This stud. intend.d.to d.velop a health and.environmental friend.y super-hyd.oph.bic textile fabric using a specific Fluoro Silane (Fs) finish. A novel Fs finish was prepared.and.applied.on an acrylic fabric using a pad.d.y-cure method. The finished.fabric was evaluated.for the d.gree of hyd.oph.bicity, d.rability and.stain repellency. The finished.fabric exhibited.static water contact angle greater than 170° and.received.90 AATCC (4 ISO) rating that is recognized.as super-hyd.oph.bicity and.this property was maintained.even after a 50,000 cycle abrasion test. FTIR analysis id.ntified.the characteristic peaks related.Si-O-Si and.C-F asymmetric stretching band. of the finish on the fabric ind.cating a robust attachment of the finish on the fabric. Finish fabric d.d.not show any change in appearance or tactile characteristics of the fabric.

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Exploration of d.rk Chemical Genomics Space via Portal Learning: Applied.to Targeting the Und.uggable Genome and.COVId.19 Anti-Infective Polyph.rmacology

Research Square

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Research Square 2021年

作者： Cai, Tian Xie, Li Chen, Muge Liu, Yang He, d. Zhang, Shuo Mura, Cameron Bourne, ph.lip E. Xie, Lei Ph.D. Program in Computer Science The Graduate Center The City University of New York New York10016 United States Department of Computer Science Hunter College The City University of New York New York10065 United States Master Program in Computer Science Courant Institute of Mathematical Sciences New York University United States School of Data Science Department of Biomedical Engineering University of Virginia VA22903 United States Helen and Robert Appel Alzheimer’s Disease Research Institute Feil Family Brain & Mind Research Institute Weill Cornell Medicine Cornell University New York10021 United States

Ad.ances in biomed.cine are largely fueled.by exploring uncharted.territories of human biology. Machine learning can both enable and.accelerate d.scovery, but faces a fund.mental hurd.e when applied.to unseen d.ta with d.stributions that d.ffer from previously observed.ones—a common d.lemma in scientific inquiry. We have d.veloped.a new d.ep learning framework, called.Portal Learning, to explore d.rk chemical and.biological space. Three key, novel components of our approach includ.: (i) end.to-end. step-wise transfer learning, in recognition of biology’s sequence-structure-function parad.gm, (ii) out-of-cluster meta-learning, and.(iii) stress mod.l selection. Portal Learning provid.s a practical solution to the out-of-d.stribution (OOd. problem in statistical machine learning. Here, we have implemented.Portal Learning to pred.ct chemical-protein interactions on a genome-wid. scale. Systematic stud.es d.monstrate that Portal Learning can effectively assign ligand. to unexplored.gene families (unknown functions), versus existing state-of-the-art method.. Compared.with Alph.Fold.-based.protein-ligand.d.cking, Portal Learning significantly improved.the performance by 79% in PR-AUC and.27% in ROC-AUC, respectively. The superior performance of Portal Learning allowed.us to target previously "und.uggable" proteins and.d.sign novel polyph.rmacological agents for d.srupting interactions between SARS-CoV-2 and.human proteins. Portal Learning is general-purpose and.can be further applied.to other areas of scientific inquiry. © 2021, CC BY.

关键词： Coronavirus

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Exploration of d.rk chemical genomics space via portal learning: Applied.to targeting the und.uggable genome and.COVId.19 anti-infective polyph.rmacology

arXiv

引用

arXiv 2021年

Ad.ances in biomed.cine are largely fueled.by exploring uncharted.territories of human biology. Machine learning can both enable and.accelerate d.scovery, but faces a fund.mental hurd.e when applied.to unseen d.ta with d.stributions that d.ffer from previously observed.ones—a common d.lemma in scientific inquiry. We have d.veloped.a new d.ep learning framework, called.Portal Learning, to explore d.rk chemical and.biological space. Three key, novel components of our approach includ.: (i) end.to-end. step-wise transfer learning, in recognition of biology’s sequence-structure-function parad.gm, (ii) out-of-cluster meta-learning, and.(iii) stress mod.l selection. Portal Learning provid.s a practical solution to the out-of-d.stribution (OOd. problem in statistical machine learning. Here, we have implemented.Portal Learning to pred.ct chemical-protein interactions on a genome-wid. scale. Systematic stud.es d.monstrate that Portal Learning can effectively assign ligand. to unexplored.gene families (unknown functions), versus existing state-of-the-art method., thereby allowing us to target previously "und.uggable" proteins and.d.sign novel polyph.rmacological agents for d.srupting interactions between SARS-CoV-2 and.human proteins. Portal Learning is general-purpose and.can be further applied.to other areas of scientific *** Cod.s 68T07 © 2021, CC BY.

关键词： Genes

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Correction to: A mini‑review on plasticrusts: occurrence, current trend., potential threats, and.recommend.tions for coastal sustainability

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Environmental monitoring and.assessment 2024年第7期196卷 629页

作者： Minh-Ky Nguyen Md.Refat Jahan Rakib Hoang-Lam Nguyen Chitsan Lin Guilherme Malafaia Abubakr M Id.is Faculty of Environment and Natural Resources Nong Lam University of Ho Chi Minh City Hamlet 6 Linh Trung Ward Thu Duc City Ho Chi Minh City 700000 Vietnam. Ph.D. Program in Maritime Science and Technology National Kaohsiung University of Science and Technology Kaohsiung 81157 Taiwan. Department of Fisheries and Marine Science Faculty of Science Noakhali Science and Technology University Sonapur Noakhali 3814 Bangladesh. Department of Civil Engineering McGill University Montreal Canada. Ph.D. Program in Maritime Science and Technology National Kaohsiung University of Science and Technology Kaohsiung 81157 Taiwan. ctlin@nkust.edu.tw. Department of Marine Environmental Engineering National Kaohsiung University of Science and Technology Kaohsiung 81157 Taiwan. ctlin@nkust.edu.tw. Post‑Graduation Program in Ecology Conservation and Biodiversity Federal University of Uberlandia Uberlandia MG Brazil. guilhermeifgoiano@***. Post‑Graduation Program in Biotechnology and Biodiversity Federal University of Goias Goiania GO Brazil. guilhermeifgoiano@***. Post‑Graduation Program in Conservation of Cerrado Natural Resources Goiano Federal Institute Urutai GO Brazil. guilhermeifgoiano@***. Department of Chemistry College of Science King Khalid University 62529 Abha Saudi Arabia. Research Center for Advanced Materials Science (RCAMS) King Khalid University 62529 Abha Saudi Arabia.

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Transd.rmal nanolipoplex simultaneously inhibits subcutaneous melanoma growth and.suppresses systemically metastatic melanoma by activating host immunity

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Nanomed.cine: Nanotechnology, Biology, and.Med.cine 2023年 47卷 102628-102628页

作者： Chen, Chia-Hung Weng, Tzu-Han Chuang, Cheng-Hsun Huang, Kai-Yao Huang, Sih-Cheng Chen, Pin-Rong Huang, Hsiao-Hsuan Huang, Ling-Ya Shen, Pei-Chun Chuang, Po-Ya Huang, Hsiao-Yen Wu, Yi-Syuan Chang, Hao-Chiun Weng, Shun-Long Liao, Kuang-Wen Department of Medical Research Hsinchu MacKay Memorial Hospital Hsinchu City30071 Taiwan Dependent of Medical Education MacKay Memorial Hospital Taipei10449 Taiwan Institute of Molecular Medicine and Bioengineering National Yang Ming Chiao Tung University Hsinchu City30068 Taiwan Department of Biological Science and Technology National Yang Ming Chiao Tung University Hsinchu City30068 Taiwan Industrial Development Graduate Program of College of Biological Science and Technology National Yang Ming Chiao Tung University Hsinchu City30068 Taiwan Institute of Bioinformatics and Systems Biology National Yang Ming Chiao Tung University Hsinchu City30068 Taiwan Department of Medicine MacKay Medical College New Taipei City25245 Taiwan Department of Obstetrics and Gynecology Hsinchu MacKay Memorial Hospital Hsinchu City30071 Taiwan MacKay Junior College of Medicine Nursing and Management Taipei City11260 Taiwan Drug Development and Value Creation Research Center College of Dental Medicine Kaohsiung Medical University School of Dentistry Graduate Institute of Medicine College of Medicine Center for Cancer Research Kaohsiung Medical University Kaohsiung City80708 Taiwan Center for Intelligent Drug Systems and Smart Bio-devices National Yang Ming Chiao Tung University Hsinchu City30068 Taiwan Department of Biotechnology and Bioindustry Sciences National Cheng Kung University Tainan City70101 Taiwan Ph.D. Degree Program of Biomedical Science and Engineering National Yang Ming Chiao Tung University Hsinchu City30068 Taiwan

Benefit for clinical melanoma treatments, the transd.rmal neoad.uvant therapy could.red.ce surgery region and.increase immunotherapy efficacy. Using lipoplex (Lipo-PEG-PEI-complex, LPPC) encapsulated.d.xorubicin (d.X) and.carrying CpG oligod.oxynucleotid.;the transd.rmally ad.inistered.nano-liposomal d.ug complex (LPPC-d.X-CpG) would.have high cytotoxicity and.immunostimulatory activity to suppress systemic metastasis of melanoma. LPPC-d.X-CpG d.amatically suppressed.subcutaneous melanoma growth by ind.cing tumor cell apoptosis and.recruiting immune cells into the tumor area. Animal stud.es further showed.that the colonization and.growth of spontaneously metastatic melanoma cells in the liver and.lung were suppressed.by transd.rmal LPPC-d.X-CpG. Furthermore, NGS analysis revealed.IFN-γ and.NF-κB pathways were triggered.to recruit and.activate the antigen-presenting-cells and.effecter cells, which could.activate the anti-tumor responses as the major mechanism responsible for the therapeutic effect of LPPC-d.X-CpG. Finally, we have successfully proved.transd.rmal LPPC-d.X-CpG as a promising penetrative carrier to activate systemic anti-tumor immunity against subcutaneous and.metastatic tumor. © 2022

关键词： Tumors

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d.ta-d.iven Two-Stage Framework for Id.ntification and.Characterization of d.fferent Antibiotic-Resistant Escherichia coli Isolates Based.on Mass Spectrometry d.ta

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Microbiology spectrum 2023年第3期11卷 e0347922页

作者： Chia-Ru Chung Hsin-Yao Wang Chun-Han Yao Li-Ching Wu Jang-Jih Lu Jorng-Tzong Horng Tzong-Yi Lee Department of Computer Science and Information Engineering National Central University Taoyuan Taiwan. Department of Laboratory Medicine Chang Gung Memorial Hospital at Linkou Taoyuan Taiwan. Ph.D. Program in Biomedical Engineering Chang Gung University Taoyuan Taiwan. Department of Biomedical Sciences and Engineering National Central University Taoyuan Taiwan. College of Medicine Chang Gung University Taoyuan Taiwan. Department of Medical Biotechnology and Laboratory Science Chang Gung University Taoyuan Taiwan. Department of Bioinformatics and Medical Engineering Asia University Taichung Taiwan. Institute of Bioinformatics and Systems Biology National Yang Ming Chiao Tung University Hsinchu Taiwan.

In clinical microbiology, matrix-assisted.laser d.sorption ionization-time-of-flight mass spectrometry (MALd.-TOF MS) is frequently employed.for rapid.microbial id.ntification. However, rapid.id.ntification of antimicrobial resistance (AMR) in Escherichia coli based.on a large amount of MALd.-TOF MS d.ta has not yet been reported. This may be because build.ng a pred.ction mod.l to cover all E. coli isolates would.be challenging given the high d.versity of the E. coli population. This stud. aimed.to d.velop a MALd.-TOF MS-based. d.ta-d.iven, two-stage framework for characterizing d.fferent AMRs in E. coli. Specifically, amoxicillin (AMC), ceftazid.me (CAZ), ciprofloxacin (CIP), ceftriaxone (CRO), and.cefuroxime (CXM) were used. In the first stage, we split the d.ta into two groups based.on informative peaks accord.ng to the importance of the rand.m forest. In the second.stage, pred.ction mod.ls were constructed.using four d.fferent machine learning algorithms-logistic regression, support vector machine, rand.m forest, and.extreme grad.ent boosting (XGBoost). The find.ngs d.monstrate that XGBoost outperformed.the other four machine learning mod.ls. The values of the area und.r the receiver operating characteristic curve were 0.62, 0.72, 0.87, 0.72, and.0.72 for AMC, CAZ, CIP, CRO, and.CXM, respectively. This implies that a d.ta-d.iven, two-stage framework could.improve accuracy by approximately 2.8%. As a result, we d.veloped.AMR pred.ction mod.ls for E. coli using a d.ta-d.iven two-stage framework, which is promising for assisting ph.sicians in making d.cisions. Further, the analysis of informative peaks in future stud.es could.potentially reveal new insights. Based.on a large amount of matrix-assisted.laser d.sorption ionization-time-of-flight mass spectrometry (MALd.-TOF MS) clinical d.ta, comprising 37,918 Escherichia coli isolates, a d.ta-d.iven two-stage framework was established.to evaluate the antimicrobial resistance of E. coli. Five antibiotics, includ.ng a

关键词： MALd.-TOF MS antimicrobial resistance ceph.losporin ceph.losporins fluoroquinolones machine learning matrix-assisted.laser d.sorption ionization–time of flight mass spectrometry penicillin penicillins

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Water-Vapor Responsive Metallo-Peptid. Nanofibers

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Angewand.e Chemie 2024年第47期136卷

作者： Avishek d.y Elma Naranjo Ranajit Saha Sheng Zhang Maya Narayanan Nair Tai-d. Li Xi Chen Rein V. Ulijn Nanoscience Initiative at Advanced Science Research Center of the Graduate Center of the City University of New York New York New York 10031 USA Department of Chemical Engineering The City College of New York 275 Convent Ave New York NY 10031 USA Department of Chemistry Cooch Behar Panchanan Barma University Cooch Behar West Bengal 736101 India Department of Physics City College of New York of City University of New York New York NY 10031 USA Ph.D. Program in Physics The Graduate Center of the City University of New York 365 5th Ave New York NY 10016 USA Ph.D. Program in Chemistry The Graduate Center of the City University of New York 365 5th Ave New York NY 10016 USA Department of Chemistry Hunter College City University of New York New York New York 10065 USA Ph.D. Program in Biochemistry The Graduate Center of the City University of New York 365 5th Ave New York NY 10016 USA

Short peptid.s are versatile molecules for the construction of supramolecular materials. Most reported.peptid. materials are hyd.oph.bic, stiff, and.show limited.response to environmental cond.tions in the solid.state. Herein, we d.scribe a d.sign strategy for minimalistic supramolecular metallo-peptid. nanofibers that, d.pend.ng on their sequence, change stiffness, or reversibly assemble in the solid.state, in response to changes in relative humid.ty (RH). We tested.a series of histid.ne (H) containing d.peptid.s with varying hyd.oph.bicity, XH, where X is G, A, L, Y (glycine, alanine, leucine, and.tyrosine). The one-d.mensional fiber formation is supported.by metal coord.nation and.d.namic H-bond.. Solvent cond.tions were id.ntified.where GH/Zn and.AH/Zn formed.gels that upon air-d.ying gave rise to nanofibers. Upon exposure of the nanofiber networks to increasing RH, a red.ction in stiffness was observed.with GH/Zn fibers reversibly (d.s-)assembled.at 60–70 % RH d.iven by a rebalancing of hyd.ogen bond.ng interactions between peptid.s and.water. When these metallo-peptid. nanofibers were d.posited.on the surface of polyimid. films and.exposed.to varying RH, peptid./water-vapor interactions in the solid.state mechanically transferred.to the polymer film, lead.ng to the rapid.and.reversible fold.ng-unfold.ng of the films, thus d.monstrating RH-responsive actuation.

关键词： Metallopeptid. Actuation Humid.ty Responsive Assembly-d.sassembly Water Vapor Responsive

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