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Multiple types of disease-associated RNAs identification for disease prognosis and therapy using heterogeneous graph learning

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Science China(Information Sciences) 2024年第8期67卷 341-342页

作者： Wenxiang ZHANG Hang WEI Wenjing ZHANG Hao WU Bin LIU School of Computer Science and Technology Beijing Institute of Technology School of Computer Science and Technology Xidian University Department of Teaching and Research Shenzhen University General Hospital guangdong key laboratory for biomedical measurements and ultrasound imaging National-Regional Key Technology Engineering Laboratory for Medical UltrasoundSchool of Biomedical Engineering Shenzhen University Medical School Advanced Research Institute of Multidisciplinary Science Beijing Institute of Technology

Identifying disease-associated RNAs is crucial in revealing the pathogenic mechanisms of diseases [1], and biologists have made notable progress in this field [2]. However, more effective computational methods are needed to provide reference disease-associated RNAs, reducing the manpower and material resources required for biological experiments.

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Switching On/Off of Guide RNA by Photoinduced Strand Displacement for Functional Control of CRISPR/Cas9

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CCS Chemistry 2024年第5期6卷 1338-1351页

作者： Yang Wang Chao-Qun Wu Qiu-Long Zhang Ming Shao Yan Liu Liang-Liang Wang Zun-Yun Wang Juan Du Liang Xu Central laboratory Department of the Second Affiliated Hospital School of MedicineThe Chinese University of Hong KongShenzhen&Longgang District People’s Hospital of ShenzhenShenzhen 518172 guangdong key laboratory for biomedical measurements and ultrasound imaging National-Regional Key Technology Engineering Laboratory for Medical UltrasoundSchool of Biomedical EngineeringShenzhen University Medical SchoolShenzhen 518060 MOE key laboratory of Bioinorganic and Synthetic Chemistry School of ChemistrySun Yat-sen UniversityGuangzhou 510275 School of Pharmacy and Medical Technology Putian UniversityPutian 351100

Functional control of CRISPR/Cas9 is essential for precise gene *** engineering of guide RNA(gRNA)provides diverse approaches for conditional control of CRISPR/Cas9 function with a variety of chemical reactive ***,previous investigations into chemically engineering gRNA only unidirectionally regulated the CRISPR/Cas9 function via stimuli-induced caging/decaging ***,we propose a combinatory strategy to engineer the dynamics of gRNA in which photocontrolled strand-displacement reactions coupled with sequence designs of gRNA can achieve lightinduced switching-on/off control of CRISPR/Cas9 *** analysis and cellular gene regulation indicate this approach is capable of both activating and deactivating CRISPR/Cas9 activities using light ***,photocontrolled multiplex modulations of gene expression for opposite regulatory effects have also been achieved simultaneously under the same cellular *** work establishes an essential principle for construction of stimuli-induced switching-on/off modulations of gRNA that can greatly enrich the versatility of conditional control for a variety of CRISPR/Cas9-based applications.

关键词： modified oligonucleotides gene manipulation optical control CRISPR/Cas9 strand displacement

Platelet-based bioactive systems guided precision targeting and immune regulation for cancer therapy

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Nano Research 2024年第9期17卷 8269-8284页

作者： Xinyi Cai Long Qiu Zhenying Diao Lintao Cai Ting Yin Hong Pan guangdong key laboratory of Nanomedicine CAS-HK Joint Lab of BiomaterialsCAS Key Laboratory of Biomedical Imaging Science and SystemInstitute of Biomedicine and BiotechnologyShenzhen Institute of Advanced Technology(SIAT)Chinese Academy of SciencesShenzhen 518055China School of pharmacy Guangdong Medical UniversityDongguan 523808China Sino-Euro Center of Biomedicine and Health Shenzhen 518024China

The antitumor effects of conventional drug carriers are often attenuated and limited in application by biological barriers associated with tumor heterogeneity and resistance brought about by low tumor *** the rapid development of nanotechnology,naturally derived bioactive materials,and live cell carriers,a promising strategy emerges for targeting the tumor microenvironment(TME)for precision cancer *** unique injury-targeting properties of platelets can significantly extend functional activity,which cannot be achieved with conventional *** this review,three strategies based on platelet-engineered materials are systematically described,namely nanoparticles for platelet membrane camouflage,engineered activated platelets,and targeted-platelets ***-based nanomaterials can effectively coordinate local and distant tumor-host crosstalk with controlled active tumor site recognition and killing effects due to the presence of specific membrane proteins on the surface and the self-secretion of a large number of *** advances in platelets for effectively overcoming biological barriers and reducing immune resistance in cancer immunotherapy applications will be discussed in future clinical *** review provides an overview of recent research advances in platelet-based bioactive material-directed immunotherapy and chemotherapy to inform future antitumor combination therapies.

关键词： platelets bionic targeting immune modulation precision therapy deep penetration

Tumor microenvironment-activatable neuropeptide-drug conjugates enhanced tumor penetration and inhibition via multiple delivery pathways and calcium deposition

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Chinese Chemical Letters 2024年第4期35卷 292-297页

作者： Yi Cao Xiaojiao Ge Yuanyuan Wei Lulu He Aiguo Wu Juan Li Ningbo key laboratory of biomedical imaging Probe Materials and Technology Zhejiang International Cooperation Base of Biomedical Materials Technology and ApplicationChinese Academy of Sciences(CAS)Key Laboratory of Magnetic Materials and DevicesNingbo Cixi Institute of Biomedical EngineeringZhejiang Engineering Research Center for Biomedical MaterialsNingbo Institute of Materials Technology and EngineeringChinese Academy of SciencesNingbo 315201China University of Chinese Academy of Sciences Beijing 100049China Advanced Energy Science and Technology guangdong laboratory Huizhou 516000China

Peptide-drug conjugates have achieved considerable development and application as a novel strategy for targeted delivery of anticancer drugs. Bioactive peptides induced calcium deposition can irreversibly assist inhibition of tumors. However, active regulation of calcium level through signal transduction of bioactive substances has not been reported yet. In this study, novel neuropeptide-doxorubicin conjugates(NP-DOX) with lysosome-specific acid response were described for neuropeptide Y_1 receptor(Y_1R)-overexpressed triple-negative breast cancer. The delivery mechanism of NP-DOX was clarified that diverse pathways were involved, including intracellular and intercellular transport. Importantly, up-regulation of Y_1 R-mediated intracellular calcium level via second messenger inositol triphosphate was presented in NP-DOX treated MDA-MB-231 cells. In vivo antitumor efficacy demonstrated that NP-DOX showed less organ toxicity and enhanced tumor inhibition benefited from its controlled release and Y_1R-mediated calcium deposition, compared with free DOX. This bioconjugate is a proof-of-concept confirming that neuropeptide-mediated control of signaling responses in neuropeptide-drug conjugates enables great potential for further applications in tumor chemotherapy.

关键词： Neuropeptide-drug conjugate Tumor penetration Calcium deposition Tumor inhibition Triple-negative breast cancer

Analysis of Genetic Alterations in TP53 Gene in Breast Cancer - A Secondary Publication

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Proceedings of Anticancer Research 2024年第3期8卷 25-35页

作者： Baqaur Rehman Muhammad Abubakar Muhammad Naeem Kiani Rooma Ayyoub Department of Biosciences COMSATS University IslamabadPark RdIslamabad Capital Territory 45550Pakistan guangdong key laboratory of biomedical measurements and ultrasound imaging School of Biomedical EngineeringShenzhen University Medical SchoolShenzhen UniversityShenzhen 518060China

Tumor protein p53 (TP53) mediates DNA repair and cell proliferation in growing cells. The TP53 gene is a tumor suppressor that regulates the expression of target genes in response to multiple cellular stress factors. key target genes are involved in crucial cellular events such as DNA repair, cell cycle regulation, apoptosis, metabolism, and senescence. TP53 genetic variants and the activity of the wild-type p53 protein (WT-p53) have been linked to a wide range of tumorigenesis. Various genetic and epigenetic alterations, including germline and somatic mutations, loss of heterozygosity, and DNA methylation, can alter TP53 activity, potentially resulting in cancer initiation and progression. This study was designed to screen three reported mutations in the DNA-binding domain of the p53 protein in breast cancer, to evaluate the relative susceptibility and risk associated with breast cancer in the local population. Genomic DNA was isolated from 30 breast tumor tissues along with controls. Tetra and Tri ARMS PCR were performed to detect mutations in the TP53 coding region. For SNPs c.637C>T and c.733C>T, all analyzed cases were homozygous for the wild-type allele ‘C,’ while for SNP c.745A>G, all cases were homozygous for the wild-type allele ‘A.’ These results indicate no relevance of these three SNPs to cancer progression in our study cohort. Additionally, the findings from whole exon sequencing will help to predict more precise outcomes and assess the importance of TP53 gene mutations in breast cancer patients.

关键词： Breast cancer p53 Gene expression Mutation SNPs

Polaron interfacial entropy as a route to high thermoelectric performance in DAE-doped PEDOT:PSS films

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National Science Review 2024年第3期11卷 259-270页

作者： Jiajia Zhang Caichao Ye Genwang Wei Liang Guo Yuhang Cai Zhi Li Xinzhi Wu Fangyi Sun Qikai Li Yupeng Wang Huan Li Yuchen Li Shuaihua Wang Wei Xu Xuefeng Guo Wenqing Zhang Weishu Liu Department of Materials Science and Engineering Southern University of Science and Technology Academy for Advanced Interdisciplinary Studies and guangdong Provincial key laboratory of Computational Science and Material Design Southern University of Science and Technology Department of Mechanical and Energy Engineering Southern University of Science and Technology Beijing National laboratory for Molecular Sciences Key Laboratory of Organic Solids Institute of Chemistry Chinese Academy of Sciences College of Chemistry and Molecular Engineering National Biomedical Imaging Centre Peking University guangdong Provincial key laboratory of Functional Oxide Materials and Devices Southern University of Science and Technology

Enhancing the thermoelectric transport properties of conductive polymer materials has been a long-term challenge, in spite of the success seen with molecular doping strategies. However, the strong coupling between the thermopower and the electrical conductivity limits thermoelectric performance. Here, we use polaron interfacial occupied entropy engineering to break through this intercoupling for a PEDOT:PSS(poly（3,4-ethylenedioxythiophene）-poly（4-styrenesulfonate）) thin film by using photochromic diarylethene（DAE） dopants coupled with UV-light modulation. With a 10-fold enhancement of the thermopower from 13.5 μV K-1to 135.4 μV K-1and almost unchanged electrical conductivity, the DAE-doped PEDOT:PSS thin film achieved an extremely high power factor of 521.28 μW m-1K-2from an original value of 6.78 μW m-1K-2. The thermopower was positively correlated with the UV-light intensity but decreased with increasing temperature, indicating resonant coupling between the planar closed DAE molecule and PEDOT. Both the experiments and theoretical calculations consistently confirmed the formation of an interface state due to this resonant coupling. Interfacial entropy engineering of polarons could play a critical role in enhancing the thermoelectric performance of the organic film.

关键词： thermoelectric PEDOT: PSS interfacial occupied entropy resonant coupling UV-light modulation

Two Monte Carlo-based simulators for imaging-system modeling and projection simulation of flat-panel X-ray source

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Nuclear Science and Techniques 2024年第7期35卷 31-46页

作者： Meng-Ke Qi Ting He Yi-Wen Zhou Jing Kang Zeng-Xiang Pan Song Kang Wang-Jiang Wu Jun Chen Ling-Hong Zhou Yuan Xu School of biomedical Engineering Southern Medical UniversityGuangzhou510515China State key laboratory of Optoelectronic Materials and Technologies Guangdong Province Key Laboratory of Display Material and TechnologySchool of Electronics and Information TechnologySun Yat-sen UniversityGuangzhou510275China Department of Radiotherapy Guangdong Provincial People’s Hospital(Guangdong Academy of Medical Sciences)Southern Medical UniversityGuangzhou510515China

The advantages of a flat-panel X-ray source(FPXS)make it a promising candidate for imaging *** imaging-system modeling and projection simulation are critical for analyzing imaging performance and resolving overlapping projection issues in *** conventional analytical ray-tracing approach is limited by the number of patterns and is not applicable to FPXS-projection ***,the computation time of Monte Carlo(MC)simulation is independent of the size of the patterned arrays in *** study proposes two high-efficiency MC projection simulators for FPXS:a graphics processing unit(GPU)-based phase-space sampling MC(gPSMC)simulator and GPU-based fluence sampling MC(gFSMC)*** two simulators comprise three components:imaging-system modeling,photon initialization,and physical-interaction simulations in the ***-system modeling was performed by modeling the FPXS,imaging geometry,and *** gPSMC simulator samples the initial photons from the phase space,whereas the gFSMC simulator performs photon initialization from the calculated energy spectrum and fluence *** entire process of photon interaction with the geometry and arrival at the detector was simulated in parallel using multiple GPU kernels,and projections based on the two simulators were *** accuracies of the two simulators were evaluated by comparing them with the conventional analytical ray-tracing approach and acquired projections,and the efficiencies were evaluated by comparing the computation *** results of simulated and realistic experiments illustrate the accuracy and efficiency of the proposed gPSMC and gFSMC simulators in the projection calculation of various phantoms.

关键词： Flat-panel X-ray source(FPXS) imaging-system modeling Projection simulation Monte Carlo-based simulators

A multifunctional nanoaggregate-based system for detection of rheumatoid arthritis via Optoacoustic/NIR-Ⅱ fluorescent imaging and therapy via inhibiting JAK-STAT/NF-κB/NLRP3 pathways

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Aggregate 2024年第1期5卷 353-366页

作者： Junjie Chen Longqi Chen Zunpan She Fang Zeng Shuizhu Wu biomedical Division State Key Laboratory of Luminescent Materials and DevicesGuangdong Provincial Key Laboratory of Luminescence from Molecular AggregatesCollege of Materials Science and EngineeringSouth China University of TechnologyGuangzhouChina

Rheumatoid arthritis(RA)is a debilitating autoimmune disease that causes chronic pain and serious complications,presenting a significant challenge to *** approaches for treating RA involve signaling pathways modulation and targeted *** this end,a multifunctional nanosystem,TPC-U@HAT,has been designed for RA therapy,featuring multitargeting,dual-stimuli response,and on-demand drug release ***-U@HAT is composed of a probe/prodrug TPC,a JAK1 kinase inhibitor upadacitinib,and the drug carrier *** is composed of an aggregation-induced emission(AIE)-active NIR-II chromophore TPY and an NF-κB/NLRP3 inhibitor caffeic acid phenethyl ester(CAPE),connected via boronic ester bond which serves as the reactive-oxygen-species-responsive *** carrier,HAT,is created by grafting bone-targeting alendronate and hydrophobic tocopheryl succinate onto hyaluronic acid chains,which can encapsulate TPC and upadacitinib to form TPC-U@*** intravenous injection into mice,TPC-U@HAT accumulates at inflamed lesions of RA through both active and passive targeting,and the overexpressed hyaluronidase and H_(2)O_(2) therein cleave the hyaluronic acid polymer chains and boronate bonds,*** generates an AIE-active chromophore for detection and therapeutic evaluation of RA via both optoacoustic imaging and NIR-II fluorescent imaging and concomitantly releases CAPE and upadacitinib to exert efficacious therapy by inhibiting NF-κB/NLRP3 and JAK-STAT pathways.

关键词： aggregation-induced emission dual-stimuli response multispectral optoacoustic tomography imaging multitargeting NIR-II fluorescence imaging rheumatoid arthritis

In situ and on-line monitoring of cadmium in soil pore water using an automatic sampling integrated electrochemical sensor

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Science China(Technological Sciences) 2024年第9期67卷 2894-2904页

作者： KUANG JiaJie WEN JunLin CAI XiXi ZHOU LiHua YUAN Yong guangdong key laboratory of Environmental Catalysis and Health Risk Control School of Environmental Science and EngineeringInstitute of Environmental Health and Pollution ControlGuangdong University of TechnologyGuangzhou 510006China School of biomedical and Pharmaceutical Sciences Guangdong University of TechnologyGuangzhou 510006China

Cadmium(Cd) contamination in soil pore water is the primary pathway for Cd uptake by food crops,such as rice(Oryza sativa L.),posing significant risks to both food safety and human *** study presents a novel soil pore water metal sensor(SPW-Msensor) for in situ and online monitoring of Cd in soil pore water(Cd_(pw)).The SPW-Msensor integrates an automated sampling device,comprising a Rhizon sampler and a reciprocating series pump with an independent dual plunger drive,along with a portable electrochemical sensor consisting of a screen-printed electrode,flow cell,and portable *** SPW-Msensor enables the detection of Cd within a linear range of 50 to 300 ppb while exhibiting high anti-interference ***,it demonstrates excellent repeatability(relative standard deviation values(RSDs)measurements conducted within a 2-h *** method exhibits good agreement with results obtained using the standard ICP-MS method(RSDs<5%).Additionally,this study establishes a positive correlation between Cd_(pw)detected by the SPW-Msensor and total Cd concentration(Cd_(total)) in the soil with an R^(2) value equal to *** acquired from the SPW-Msensor can be utilized for predicting Cd_(total)through partial least squares regression modeling,achieving model quality score(Q^(2)) of 0.69,adjusted R^(2) of 0.9345,and root mean square error(RMSE) of *** SPW-Msensor demonstrates real-time monitoring capabilities for assessing Cd levels in acidified *** SPW-Msensor offers an efficient approach for in-situ and continuous monitoring of Cd_(pw)that provides valuable insights applicable to environmental and agricultural domains.

关键词： cadmium pore water electrochemical sensor in-situ monitoring soil