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"Lin, Yu-Feng"
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T-cell receptor-based therapy: an innovative therapeutic approach for solid tumors
by
Andersson, Borje S.
,
Van Morris, Karlyle
,
Tsimberidou, Apostolia-Maria
in
Adoptive T-cell receptor-based therapy
,
Adverse events
,
Animals
2021
T-cell receptor (TCR)-based adoptive therapy employs genetically modified lymphocytes that are directed against specific tumor markers. This therapeutic modality requires a structured and integrated process that involves patient screening (e.g., for HLA-A*02:01 and specific tumor targets), leukapheresis, generation of transduced TCR product, lymphodepletion, and infusion of the TCR-based adoptive therapy. In this review, we summarize the current technology and early clinical development of TCR-based therapy in patients with solid tumors. The challenges of TCR-based therapy include those associated with TCR product manufacturing, patient selection, and preparation with lymphodepletion. Overcoming these challenges, and those posed by the immunosuppressive microenvironment, as well as developing next-generation strategies is essential to improving the efficacy and safety of TCR-based therapies. Optimization of technology to generate TCR product, treatment administration, and patient monitoring for adverse events is needed. The implementation of novel TCR strategies will require expansion of the TCR approach to patients with HLA haplotypes beyond HLA-A*02:01 and the discovery of novel tumor markers that are expressed in more patients and tumor types. Ongoing clinical trials will determine the ultimate role of TCR-based therapy in patients with solid tumors.
Journal Article
Hybrid Fuzzy Optimization Integrating Sobol Sensitivity Analysis and Monte Carlo Simulation for Retail Decarbonization: An Investment Framework for Solar-Powered Coffee Machines in Taiwan’s Convenience Stores
2026
This study develops a carbon emissions reduction strategy for solar-powered coffee machines in Taiwanese convenience stores, aiming to strike a balance between profitability and decarbonization. An integrated framework of the fuzzy nonlinear multi-objective programming (FNMOP) model, Sobol sensitivity analysis, and Monte Carlo simulation was applied to quantify uncertainties in electricity supply, consumer demand, and investment costs. Solar-powered machines reduce annual CO2 emissions by 172–215 kg per store. Allocating 0.49–0.61% of coffee profits as subsidies shortens payback to [6.5, 9.375] years. Monte Carlo simulation confirms robustness with a 95% confidence interval of [5.8, 11.2] years, while urban stores achieve payback 18–25% faster. Sobol analysis identifies annual savings and net profit margins as key drivers. The framework demonstrates scalability and international applicability, providing empirical evidence for policymakers and retailers to accelerate the adoption of renewable energy in consumer-facing operations. Its methodological integration and consumer-side focus offer a replicable model for convenience store chains in high-density retail markets worldwide, with potential multiplier effects across sectors and supply chains.
Journal Article
Emergence of plasmid-mediated colistin resistance mechanism MCR-1 in animals and human beings in China: a microbiological and molecular biological study
2016
Until now, polymyxin resistance has involved chromosomal mutations but has never been reported via horizontal gene transfer. During a routine surveillance project on antimicrobial resistance in commensal Escherichia coli from food animals in China, a major increase of colistin resistance was observed. When an E coli strain, SHP45, possessing colistin resistance that could be transferred to another strain, was isolated from a pig, we conducted further analysis of possible plasmid-mediated polymyxin resistance. Herein, we report the emergence of the first plasmid-mediated polymyxin resistance mechanism, MCR-1, in Enterobacteriaceae.
The mcr-1 gene in E coli strain SHP45 was identified by whole plasmid sequencing and subcloning. MCR-1 mechanistic studies were done with sequence comparisons, homology modelling, and electrospray ionisation mass spectrometry. The prevalence of mcr-1 was investigated in E coli and Klebsiella pneumoniae strains collected from five provinces between April, 2011, and November, 2014. The ability of MCR-1 to confer polymyxin resistance in vivo was examined in a murine thigh model.
Polymyxin resistance was shown to be singularly due to the plasmid-mediated mcr-1 gene. The plasmid carrying mcr-1 was mobilised to an E coli recipient at a frequency of 10−1 to 10−3 cells per recipient cell by conjugation, and maintained in K pneumoniae and Pseudomonas aeruginosa. In an in-vivo model, production of MCR-1 negated the efficacy of colistin. MCR-1 is a member of the phosphoethanolamine transferase enzyme family, with expression in E coli resulting in the addition of phosphoethanolamine to lipid A. We observed mcr-1 carriage in E coli isolates collected from 78 (15%) of 523 samples of raw meat and 166 (21%) of 804 animals during 2011–14, and 16 (1%) of 1322 samples from inpatients with infection.
The emergence of MCR-1 heralds the breach of the last group of antibiotics, polymyxins, by plasmid-mediated resistance. Although currently confined to China, MCR-1 is likely to emulate other global resistance mechanisms such as NDM-1. Our findings emphasise the urgent need for coordinated global action in the fight against pan-drug-resistant Gram-negative bacteria.
Ministry of Science and Technology of China, National Natural Science Foundation of China.
Journal Article
Sustainable Investment Strategy: A Fuzzy Nonlinear Multi-Objective Programming for Taiwan’s Solar Photovoltaic Billboards
In Taiwan, large advertising billboards on commercial buildings consume significant energy, exacerbating environmental challenges and straining sustainability efforts. This study explores the potential of rooftop solar photovoltaic systems (SPVS) to power these billboards, offering a dual solution for energy reduction and financial viability. Using a fuzzy nonlinear multi-objective programming approach, the research demonstrates that SPVS investments become profitable by the ninth year (0.7232% return), rising to 5.4463% by the twentieth year, while a 26-day reduction in construction time cuts carbon emissions by 223.11 kg. The innovative Revenue–Time–Cost–Quality–Carbon Emissions (RTCQCE) framework balances economic gains with environmental benefits, leveraging advertising revenue to fund SPVS. This model bridges a research gap by integrating financial and ecological factors, providing a practical tool for sustainable urban development in Taiwan.
Journal Article
Synthesis of Fluorescent Carbon Dots as Selective and Sensitive Probes for Cupric Ions and Cell Imaging
2019
A novel sensing system has been designed for the detection of cupric ions. It is based on the quenched fluorescence signal of carbon dots (CDs), which were carbonized from poly(vinylpyrrolidone) (PVP) and L-Cysteine (CYS). Cupric ions interact with the nitrogen and sulfur atoms on surface of the CDs to form an absorbed complex; this results in strong quenching of the fluorescence of the CDs via a fast metal-to-ligand binding affinity. The synthesized water-soluble CDs also exhibited a quantum yield of 7.6%, with favorable photoluminescent properties and good photostability. The fluorescence intensity of the CDs was very stable in high ionic strength (up to 1.0 M NaCl) and over a wide range of pH levels (2.0–12.0). This facile method can therefore develop a sensor that offers reliable, fast, and selective detection of cupric ions with a detection limit down to 0.15 μM and a linear range from 0.5 to 7.0 μM (R2 = 0.980). The CDs were used for cell imaging, observed that they were low toxicity to Tramp C1 cells and exhibited blue and green and red fluorescence under a fluorescence microscope. In summary, the CDs exhibited excellent fluorescence properties, and could be applied to the selective and sensitive detection of cupric ion and multicolor cell imaging.
Journal Article
Fate and Transport of Antibiotic Residues and Antibiotic Resistance Genes following Land Application of Manure Waste
by
Mackie, Roderick I
,
Yannarell, Anthony C
,
Krapac, Ivan G
in
analysis
,
Animal Husbandry
,
animal manure management
2009
Antibiotics are used in animal livestock production for therapeutic treatment of disease and at subtherapeutic levels for growth promotion and improvement of feed efficiency. It is estimated that approximately 75% of antibiotics are not absorbed by animals and are excreted in waste. Antibiotic resistance selection occurs among gastrointestinal bacteria, which are also excreted in manure and stored in waste holding systems. Land application of animal waste is a common disposal method used in the United States and is a means for environmental entry of both antibiotics and genetic resistance determinants. Concerns for bacterial resistance gene selection and dissemination of resistance genes have prompted interest about the concentrations and biological activity of drug residues and break-down metabolites, and their fate and transport. Fecal bacteria can survive for weeks to months in the environment, depending on species and temperature, however, genetic elements can persist regardless of cell viability. Phylogenetic analyses indicate antibiotic resistance genes have evolved, although some genes have been maintained in bacteria before the modern antibiotic era. Quantitative measurements of drug residues and levels of resistance genes are needed, in addition to understanding the environmental mechanisms of genetic selection, gene acquisition, and the spatiotemporal dynamics of these resistance genes and their bacterial hosts. This review article discusses an accumulation of findings that address aspects of the fate, transport, and persistence of antibiotics and antibiotic resistance genes in natural environments, with emphasis on mechanisms pertaining to soil environments following land application of animal waste effluent.
Journal Article
Slowing for Sustainability: A Hybrid Optimization and Sensitivity Analysis Framework for Taiwan’s Cross-Border E-Commerce
2026
Cross-border e-commerce logistics has long prioritized delivery speed; however, the trade-offs between cost-effectiveness, carbon emissions, risk, and financial performance have received relatively little attention. To address this deficiency, this study constructs a fuzzy nonlinear multi-objective optimization framework that integrates the particle swarm optimization (PSO) algorithm and the Sobol sensitivity analysis to capture the uncertainty and nonlinear dynamics of logistics systems. Using operational data from a Taiwanese cross-border e-commerce exporter from 2023 to 2024, empirical results show that extending the standard 25-day delivery time to an acceptable maximum of 32–37 days (i.e., an extension of 7–12 days) can reduce logistics costs per order by 22–38%, carbon emissions by 18–31%, and increase financial returns. Sobol sensitivity analysis further demonstrates that extended delivery time (T) is a significant controllable factor (S1=0.62, ST1=0.75). This study empirically verifies the profitability and sustainability of moderately T, challenges the current “speed-first” model, and provides a transparent, replicable, and scalable decision-making framework for promoting low-carbon, economically viable cross-border e-commerce supply chains.
Journal Article
Dietary ellagic acid therapy for CNS autoimmunity: Targeting on Alloprevotella rava and propionate metabolism
2024
Background
Mediterranean diet rich in polyphenolic compounds holds great promise to prevent and alleviate multiple sclerosis (MS), a central nervous system autoimmune disease associated with gut microbiome dysbiosis. Health-promoting effects of natural polyphenols with low bioavailability could be attributed to gut microbiota reconstruction. However, its underlying mechanism of action remains elusive, resulting in rare therapies have proposed for polyphenol-targeted modulation of gut microbiota for the treatment of MS.
Results
We found that oral ellagic acid (EA), a natural polyphenol rich in the Mediterranean diet, effectively halted the progression of experimental autoimmune encephalomyelitis (EAE), the animal model of MS, via regulating a microbiota-metabolites-immunity axis. EA remodeled the gut microbiome composition and particularly increased the relative abundances of short-chain fatty acids -producing bacteria like
Alloprevotella
. Propionate (C3) was most significantly up-regulated by EA, and integrative modeling revealed a strong negative correlation between
Alloprevotella
or C3 and the pathological symptoms of EAE. Gut microbiota depletion negated the alleviating effects of EA on EAE, whereas oral administration of
Alloprevotella rava
mimicked the beneficial effects of EA on EAE. Moreover, EA directly promoted
Alloprevotella rava
(DSM 22548) growth and C3 production in vitro. The cell-free supernatants of
Alloprevotella rava
co-culture with EA suppressed Th17 differentiation by modulating acetylation in cell models. C3 can alleviate EAE development, and the mechanism may be through inhibiting HDAC activity and up-regulating acetylation thereby reducing inflammatory cytokines secreted by pathogenic Th17 cells.
Conclusions
Our study identifies EA as a novel and potentially effective prebiotic for improving MS and other autoimmune diseases via the microbiota-metabolites-immunity axis.
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Video Abstract
Journal Article
Prediction of Metal Ion–Binding Sites in Proteins Using the Fragment Transformation Method
by
Yu, Chin-Sheng
,
Lu, Chih-Hao
,
Lin, Jau-Ji
in
Amino Acids - chemistry
,
Analysis
,
Banks (Finance)
2012
The structure of a protein determines its function and its interactions with other factors. Regions of proteins that interact with ligands, substrates, and/or other proteins, tend to be conserved both in sequence and structure, and the residues involved are usually in close spatial proximity. More than 70,000 protein structures are currently found in the Protein Data Bank, and approximately one-third contain metal ions essential for function. Identifying and characterizing metal ion-binding sites experimentally is time-consuming and costly. Many computational methods have been developed to identify metal ion-binding sites, and most use only sequence information. For the work reported herein, we developed a method that uses sequence and structural information to predict the residues in metal ion-binding sites. Six types of metal ion-binding templates- those involving Ca(2+), Cu(2+), Fe(3+), Mg(2+), Mn(2+), and Zn(2+)-were constructed using the residues within 3.5 Å of the center of the metal ion. Using the fragment transformation method, we then compared known metal ion-binding sites with the templates to assess the accuracy of our method. Our method achieved an overall 94.6 % accuracy with a true positive rate of 60.5 % at a 5 % false positive rate and therefore constitutes a significant improvement in metal-binding site prediction.
Journal Article
Dissemination of the mcr-1 colistin resistance gene
2016
Since our first report on plasmid-mediated colistin resistance gene mcr-1,1 strains previously collected in seven countries (Denmark, the Netherlands, Laos, Nigeria, Thailand, France, and the UK) have been found to carry mcr-1.2-6 Furthermore, the sequences in GenBank show that mcr-1 might also be circulating in Portugal and Malaysia. Interestingly, the sequence of pHNSHP45-2 is also almost identical to the partial sequence of a salmonalla Sal25 plasmid (GenBank accession number LFCC01000022) carrying mcr-1 from a food sample in Portugal. [...]IncHI2 plasmids carrying mcr-1 seem to have spread among different Enterobacteriaceae species and continents, which further suggests that food plays an important part in the spread of mcr-1 worldwide.
Journal Article