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Identification of Proteins and Genes Associated with Hedgehog Signaling Pathway Involved in Neoplasm Formation Using Text-Mining Approach

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Big Data Mining and Analytics 2024年第1期7卷 107-130页

作者： Nadezhda Yu.Biziukova Sergey M.Ivanov Oga A.Tarasova Department of bioinformatics Institute of Biomedical ChemistryMoscow 119121Russia Department of bioinformatics Pirogov Russian National Research Medical UniversityMoscow 117997Russia

Analysis of molecular mechanisms that lead to the development of various types of tumors is essential for biology and medicine,because it may help to find new therapeutic opportunities for cancer treatment and cure including personalized treatment *** of the pathways known to be important for the development of neoplastic diseases and pathological processes is the Hedgehog signaling pathway that normally controls human embryonic *** accumulation of various types of biological data,including interactions between proteins,regulation of genes transcription,proteomics,and metabolomics experiments results,allows the application of computational analysis of these big data for identification of key molecular mechanisms of certain diseases and pathologies and promising therapeutic *** aim of this study is to develop a computational approach for revealing associations between human proteins and genes interacting with the Hedgehog pathway components,as well as for identifying their roles in the development of various types of *** automatically collect sets of abstract texts from the NCBI PubMed bibliographic *** recognition of the Hedgehog pathway proteins and genes and neoplastic diseases we use a dictionary-based named entity recognition approach,while for all other proteins and genes machine learning method is *** association extraction,we develop a set of semantic *** complete the results of the text analysis with the gene set enrichment *** identified key pathways that may influence the Hedgehog pathway and their roles in tumor development are then verified using the information in the literature.

关键词： text-mining data mining Hedgehog pathway neoplastic processes enrichment analysis pathology molecularmechanisms

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Improved Efficiency and Stability of Organic Solar Cells by Interface Modification Using Atomic Layer Deposition of Ultrathin Aluminum Oxide

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Energy & Environmental Materials 2024年第3期7卷 282-290页

作者： Ai Lan Yiqun Li Huiwen Zhu Jintao Zhu Hong Lu Hainam Do Yifan Lv Yonghua Chen Zhikuan Chen Fei Chen Wei Huang School of Flexible electronics(Future Technologies)and Key Laboratory of Flexible electronics(KLOFE)and institute of Advanced Materials(IAM) Jiangsu National Synergetic Innovation Center for Advanced Materials(SICAM)Nanjing Tech UniversityNanjing 210009China Department of Chemical and Environmental Engineering University of Nottingham Ningbo ChinaNingbo 315000China Key Laboratory of Flexible electronics of Zhejiang Province Ningbo Institute of Northwestern Polytechnical UniversityNingbo 315103China Frontiers Science Center for Flexible electronics Xi'an Institute of Flexible Electronics(IFE)and Xi'an Institute of Biomedical Materials&EngineeringNorthwestern Polytechnical UniversityXi'an 710072China

The interfacial contacts between the electron transporting layers(ETLs)and the photoactive layers are crucial to device performance and stability for OSCs with inverted ***,atomic layer deposition(ALD)fabricated ultrathin Al_(2)O_(3)layers are applied to modify the ETLs/active blends(PM6:BTP-BO-4F)interfaces of OSCs,thus improving device *** ALD-Al_(2)O_(3)thin layers on ZnO significantly improved its surface morphology,which led to the decreased work function of ZnO and reduced recombination losses in *** simultaneous increase in open-circuit voltage(V_(OC)),short-circuit current density(J_(SC))and fill factor(FF)were achieved for the OSCs incorporated with ALD-Al_(2)O_(3)interlayers of a certain thickness,which produced a maximum PCE of 16.61%.Moreover,the ALD-Al_(2)O_(3)interlayers had significantly enhanced device stability by suppressing degradation of the photoactive layers induced by the photocatalytic activity of ZnO and passivating surface defects of ZnO that may play the role of active sites for the adsorption of oxygen and moisture.

关键词： atomic layer deposition interface modification organic solar cells stability

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A mitochondria-targeted H_(2)S-activatable fluorogenic probe for tracking hepatic ischemia-reperfusion injury

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Chinese Chemical Letters 2024年第6期35卷 370-375页

作者： Bin Fang Jiaqi Yang Limin Wang Haoqin Li Jiaying Guo Jiaxin Zhang Qingyuan Guo Bo Peng Kedi Liu Miaomiao Xi Hua Bai Li Fu Lin Li School of Materials Science and Engineering Northwestern Polytechnical UniversityXi’an 710072China Frontiers Science Center for Flexible electronics Xi’an Institute of Flexible Electronics(IFE)and Xi’an Institute of Biomedical Materials&EngineeringNorthwestern Polytechnical UniversityXi’an 710072China Key laboratory of Flexible electronics of Zhejiang Province Ningbo Institute of Northwestern Polytechnical UniversityNingbo 315103China The institute of Flexible electronics(IFE Future Technologies)Xiamen UniversityXiamen 361005China Wuhan National Laboratory for Optoelectronics-Advanced biomedical Imaging Facility Huazhong University of Science and TechnologyWuhan 430074China TANK Medicinal Biology institute of Xi’an Xi’an 710032China

Hepatic ischemia-reperfusion injury(HIRI)is the cause of postoperative hepatic dysfunction and failure,and even *** an important biological effector molecule,hydrogen sulfide(H_(2)S)of mitochondria as a gasotransmitter that is usually used to protect against acute HIRI ***,the exact relationship between HIRI and mitochondrial H_(2)S remains tangled due to the lack of an effective analytical ***,we have fabricated a mitochondria-targeted H_(2)S-activatable fluorogenic probe(Mito-GW)to explore the stability of mitochondrial H_(2)S and track the changes of mitochondrial H_(2)S during the *** virtue of pyridinium electropositivity and its amphiphilicity,Mito-GW could accumulate in *** goes through an analyte-prompted immolation when reacts with H_(2)S,resulting in the releasing of the fluorophore(GW).Therefore,the extent of Mito-GW conversion to GW can be used to evaluate the changes of mitochondrial H_(2)S level in living cells and *** proof-of-principle,we have used MitoGW to demonstrate the mitochondria H_(2)S-levels increase and then decrease during HIRI in vitro and in *** research highlights the tremendous potential of Mito-GW as a mitochondrial H_(2)S fluorogenic probe in elucidating the pathogenesis of HIRI,providing a powerful tool for promoting future research on hepatology.

关键词： Mitochondria-targeted Bioimaging H2S-activatable Fluorogenic probe Hepatic ischemia-reperfusion injury(HIRI)

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Neurovascular unit on a chip:the relevance and maturity as an advanced in vitro model

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Neural Regeneration Research 2024年第6期19卷 1165-1166页

作者： Sujey Palma-Florez Anna Lagunas Mònica Mir Nanobioengineering Group Institute for Bioengineering of Catalonia(IBEC)Barcelona Institute of Science and Technology(BIST)BarcelonaSpain CIBER-BBN ISCIIIMadridSpain Department of electronics and biomedical Engineering University of BarcelonaBarcelonaSpain

The brain is a high-energy demanding organ,consuming around 20%of the metabolic energy *** fulfill this demand,cerebral blood flow(CBF)supplies oxygen and glucose continuously through the intricate network of cerebral blood *** for many years brain activity and blood flow were conceived as independent processes,MRI-based functional brain imaging demonstrated that there is a coupling between them.

关键词： cerebral maturity consuming

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Deciphering the role of mtHOin hepatic ischemia-reperfusion injury mechanisms with low-background super-resolution fluorogenic probe

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Science China Chemistry 2024年

作者： Bin Fang Limin Wang Haoqin Li Jiaxin Zhang Yang Ding PanPan Li Bo Peng Hua Bai Lin Li Frontiers Science Center for Flexible electronics Xi'an Institute of Flexible Electronics (IFE) and Xi'an Institute of Biomedical Materials&EngineeringNorthwestern Polytechnical University institute of Flexible electronics (IFE Future Technologies)Xiamen University

Hepatic ischemia-reperfusion injury（HIRI） is characterized by mitochondrial dysfunction and oxidative stress. Monitoring mitochondrial hydrogen peroxide（mtH2O2） levels in real-time through super-resolution imaging is crucial for elucidating its distribution in live cells and its mechanism of action during HIRI. However, low-background fluorogenic probes have been overlooked in the context of super-resolution imaging. In this study, we developed a low-background fluorogenic probe（MitoWG） with the potential for super-resolution morphology-correlated mitochondrial identification to track the fluctuates of mtH2O2in HIRI. Activation of the desirable fluorescence properties of the probe by mtH2O2was confirmed using structural illumination microscopy（SIM）, enabling high-quality mitochondrial imaging with exceptional specificity and *** in mt H2O2levels were successfully observed in both cellular and rat models of HIRI. Furthermore, we associated the decline in mitochondrial redox homeostasis with accelerated mtH2O2production during HIRI, which triggered mitophagy deficiency and led to cell death. In conclusion, Mito-WG possesses excellent photophysical and low-background properties for SIM imaging, making it a promising tool for mtH2O2tracking in HIRI research and clinical diagnosis.

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Integrated analysis of single-cell and bulk RNA sequencing data reveals immune-related lncRNA-mRNA prognostic signature in triple-negative breast cancer

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Genes & Diseases 2024年第2期11卷 571-574页

作者： Hongying Zhao Lei Yu Lixia Wang Xiangzhe Yin Kailai Liu Wangyang Liu Shihua Lin Li Wang College of bioinformatics Science and Technology Harbin Medical UniversityHarbinHeilongjiang 150081China College of biomedical Information and Engineering Hainan Medical UniversityHaikouHainan 571199China

Triple-negative breast cancer(TNBC)is an aggressive subtype characterized by extensive tumor heterogeneity,with limited treatment options and a poor prognosis.1 We used cell type annotation and trajectory analysis to identify two distinct differentiation states of epithelial cells,while tumor cells predominantly resided on one of these *** the malignant state of epithelial cells based on copy number variation,280 tumor cells were eventually identified from epithelial *** genes between tumor cells and non-tumor cells were mainly enriched in immune-related functions and pathways.

关键词： breast cancer signature

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A drug-loaded flexible substrate improves the performance of conformal cortical electrodes

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Bio-Design and Manufacturing 2024年第4期7卷 399-412页

作者： Rongrong Qin Tian Li Yifu Tan Fanqi Sun Yuhao Zhou Ronghao Lv Xiaoli You Bowen Ji Peng Li Wei Huang Frontiers Science Center for Flexible electronics(FSCFE) Xi’an Institute of Flexible Electronics(IFE)and Xi’an Institute of Biomedical Materials&Engineering(IBME)Northwestern Polytechnical UniversityXi’an 710072China Unmanned System Research institute Northwestern Polytechnical UniversityXi’an 710072China Ministry of Education Key Laboratory of Micro and Nano Systems for Aerospace School of Mechanical EngineeringNorthwestern Polytechnical UniversityXi’an 710072China Key Laboratory of Flexible electronics of Zhejiang Province Ningbo Institute of Northwestern Polytechnical UniversityNingbo 315103China

Cortical electrodes are a powerful tool for the stimulation and/or recording of electrical activity in the nervous ***,the inevitable wound caused by surgical implantation of electrodes presents bacterial infection and inflammatory reaction risks associated with foreign body ***,inflammation of the wound area can dramatically worsen in response to bacterial *** consequences can not only lead to the failure of cortical electrode implantation but also threaten the lives of ***,we prepared a hydrogel made of bacterial cellulose(BC),a flexible substrate for cortical electrodes,and further loaded antibiotic tetracycline(TC)and the anti-inflammatory drug dexamethasone(DEX)onto *** encapsulated drugs can be released from the BC hydrogel and effectively inhibit the growth of Gram-negative and Gram-positive ***,therapeutic cortical electrodes were developed by integrating the drug-loaded BC hydrogel and nine-channel serpentine arrays;these were used to record electrocorticography(ECoG)signals in a rat *** to the controlled release of TC and DEX from the BC hydrogel substrate,therapeutic cortical electrodes can alleviate or prevent symptoms associated with the bacterial infection and inflammation of brain *** approach facilitates the development of drug delivery electrodes for resolving complications caused by implantable electrodes.

关键词： Antibacterial Anti-inflammatory Drug loading Cortical electrodes Bacterial cellulose hydrogel

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Dual-channel mechano-phosphorescence:a combined locking effect with twisted molecular structures and robust interactions

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Light(Science & Applications) 2024年第4期13卷 738-746页

作者： Zongliang Xie Zhu Mao Hailan Wang Yuxin Xiao Xiayu Zhang Tao Yu Zhongfu An Wei Huang Frontiers Science Center for Flexible electronics Xi’an Institute of Flexible Electronics&Xi’an Institute of Biomedical Materials and EngineeringNorthwestern Polytechnical University127 West Youyi RoadXi’an 710072China. Research&Development institute of Northwestern Polytechnical University in Shenzhen Shenzhen 518100China. Shenzhen institutes of Advanced Electronic Materials Shenzhen 518100China. Key Laboratory of Flexible electronics&institute of Advanced Materials Nanjing Tech University30 South Puzhu RoadNanjing 211816China

Organic mechanoluminescence materials,featuring dual emission and ultralong phosphorescence characteristics,exhibit significant potential for applications in real-time stress sensing,pressure-sensitive lighting,advanced security marking techniques,and material breakage ***,due to immature molecular design strategies and unclear luminescence mechanisms,these materials remain rarely *** this study,we propose a valuable molecular design strategy to achieve dual-channel *** introducing the arylphosphine oxide group into a highly twisted molecular framework,enhanced intra-and intermolecular interactions could be achieved within rigid structures,leading to dual-channel mechanoluminescence with greatly promoted ultralong *** investigations reveal the substantial boosting effect of intra-and intermolecular interactions on mechanoluminescence and ultralong phosphorescence properties by locking the highly twisted molecular *** work provides a concise and guiding route to develop novel smart responsive luminescence materials for widespread applications in material science.

关键词： channel luminescence locking

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Ruthenium-Catalysed Asymmetric Intramolecular Isomerization/Esterification Reaction: Direct Synthesis of Chiral Dihydrocoumarins

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Chinese Journal of Chemistry 2024年第16期42卷 1828-1832页

作者： Lingzi Zhao Xuchao Wang Qing Qiang Xingwei Zhao Feipeng Liu Shenci Lu Zi-Qiang Rong Frontiers Science Center for Flexible electronics(FSCFE) Shaanxi Institute of Flexible Electronics(SiFE)&Shaanxi Institute of Biomedical Materials and Engineering(SIBME)Northwestern Polytechnical University(NPU)127 West Youyi RoadXianShaanxi 710072China Honors College Northwestern Polytechnical University(NPU)127 West Youyi RoadXi'anShaanxi 710072China

An asymmetric isomerization/intramolecular coupling reaction of allylic alcohols to synthesize chiral dihydrocoumarins was successfully accomplished through ruthenium *** method demonstrates a wide substrate applicability,excellent tolerance for various functional groups,and good enantioselectivities(up to 90%ee).It provides a convenient pathway to produce a diverse range ofstructurallydistinct chiral dihydrocoumarins ingoodefficiency.

关键词： Ruthenium catalysis Asymmetric isomerization Tandem reaction Chiral dihydrocoumarins Enantioselectivity

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A thermo-responsive rewritable plasmonic bio-memory by regulating single core-satellite gold nanocluster dissociation

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Nano Research 2024年第8期17卷 7275-7282页

作者： Wen Zhang Yi Wang Yamin Wang Xiaomei Lu Weibing Wu Quli Fan Lei Zhang State Key Laboratory of Organic electronics and Information Displays&institute of Advanced Materials(IAM) Nanjing University of Posts&TelecommunicationsNanjing 210023China Jiangsu Co-Innovation Center for Efficient Processing and Utilization of Forest Resources College of Light Industry and Food EngineeringNanjing Forestry UniversityNanjing 210037China Zhengzhou institute of biomedical Engineering and Technology Zhengzhou 450001China Key Laboratory of Flexible electronics(KLOFE) Institute of Advanced Materials(IAM)&School of Flexible Electronics(Future Technologies)Nanjing Tech University(Nanjing Tech)Nanjing 211816China

A thermo-responsive rewritable plasmonic bio-memory chip has been successfully fabricated on an indium tin oxide(ITO)glass slide by assembling core-satellite gold nanoclusters with different size of gold nanoparticles(AuNPs)using double-strand DNA(dsDNA)*** the prepared 70@DNA20@13 gold nanoclusters(AuNCs)exhibited more stable and greater photothermal conversion *** short time irradiation by 633 nm microbeam laser,every individual AuNCs could be excited and remove the satellite AuNPs on its ***,in the dissociation process of AuNCs with 3−5 satellite,its color would change from yellow to green,which showed more significant reduction in the red channel of the dark-field microscopy(DFM)images and could be defined to state“0”and“1”***,this plasmonic nano bio-memory could transform cyclically its state between 0 and 1 which exhibited excellent rewritable ability.

关键词： plasmonic assembly thermal-responsive single nanoparticle rewritable bio-memory

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