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GeDiPNet: Online resource of curated gene-disease associations for polypharmacological targets discovery

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Genes & Diseases 2023年第3期10卷 647-649页

作者： Indra Kundu Mridula Sharma Ram Shankar Barai Khushal Pokar Susan Idicula-Thomas biomedical informatics Centre Indian Council of Medical Research-National Institute for Research in Reproductive and Child HealthMumbai 400012India

There are numerous online databases dedicated to genes associated with human diseases.The redundancy and lack of consistency of disease terms in these databases pose a significant impediment in high throughput data analysis.To address this,we developed GeDiPNet by compiling data available on gene-disease associations from six popular open access sources namely DisGeNET,1 ClinGen.

关键词： databases online analysis.

近红外二区荧光可视化超声联合吲哚菁绿微泡开放血脑屏障增强脑胶质瘤光热治疗

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Science Bulletin 2022年第22期67卷 2316-2326页

作者：梁思敏胡德红黎国锋高笃阳李飞郑海荣潘敏盛宗海 Department of Ultrasonography Shenzhen Hospital(Futian)of Guangzhou University of Chinese MedicineShenzhen 518034China Paul C.Lauterbur Research Center for biomedical Imaging CAS Key Laboratory of Health InformaticsShenzhen Key Laboratory of Ultrasound Imaging and TherapyInstitute of Biomedical and Health EngineeringShenzhen Institute of Advanced TechnologyChinese Academy of SciencesShenzhen 518055China School of biomedical engineering Guangdong Medical UniversityDongguan 523808China

聚焦超声开放血脑屏障是增强胶质母细胞瘤治疗的关键,然而,缺乏一种高时空分辨率的体内成像方法用于原位同步监测血脑屏障开放过程.本文报道了使用吲哚菁绿掺杂的微泡(MBs-ICG)可视化聚焦超声开放血脑屏障和增强对抗胶质母细胞瘤的光热... 详细信息

聚焦超声开放血脑屏障是增强胶质母细胞瘤治疗的关键,然而,缺乏一种高时空分辨率的体内成像方法用于原位同步监测血脑屏障开放过程.本文报道了使用吲哚菁绿掺杂的微泡(MBs-ICG)可视化聚焦超声开放血脑屏障和增强对抗胶质母细胞瘤的光热治疗方法.结果显示, MBs-ICG具有明亮的近红外二区荧光,超声造影成像和超声响应特性.利用其互补的成像特性, MBs-ICG可实现脑血管的高分辨率(~168.9μm)近红外二区荧光成像、大穿透深度(~7 mm)超声造影成像.通过近红外二区荧光成像, MBs-ICG联合聚焦超声可原位同步可视化血脑屏障开放,信噪比为6.2±1.2.此外,在聚焦超声辐照下, MBs-ICG转化为脂质ICG纳米颗粒,并在10 min内迅速进入肿瘤组织,成功用于增强原位胶质母细胞瘤小鼠的光热治疗.多功能MBs-ICG为监测血脑屏障开放和增强胶质母细胞瘤治疗提供了一种新的范式.

关键词：吲哚菁绿光热治疗胶质母细胞瘤血脑屏障聚焦超声荧光成像近红外脑胶质瘤

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Switching variability index based multiple strategy CFAR detector

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Journal of Systems engineering and Electronics 2014年第4期25卷 580-587页

作者： Yang Li Zhenyuan Ji Bingfei Li Gil Alterovitz Department of Electronic engineering Harbin Institute of Technology Center for biomedical informatics Harvard University Chinese Aeronautical Radio Electronics Research institute

A switching variability index （SVl） constant false alarm rate （CFAR） detector is proposed for improving the detection performance of VI-CFAR detectors in multiple targets backgrounds. When the presence of non-homogeneity in CFAR reference windows is indicated by a VI-CFAR detector, a switching- CFAR detector is introduced to optimize the performance of the VI-CFAR detector in homogeneous, multiple targets and clutter edge backgrounds. The structure and parameters selection method of the SVI-CFAR detector is presented. Comparisons with classic CFAR detectors and recently proposed detectors are also given. Theoretical analysis and simulation results show that SVICFAR detector maintains the good performance of the VI-CFAR detector in homogeneous and clutter edge backgrounds, while greatly improving the capacity of anti-multi targets.

关键词： switching variability index constant false alarm rate（SVI-CFAR） adaptive detection complex environment multiple-strategy detection radar target detection.

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Area and volume ratios for prediction of visual outcome in idiopathic macular hole

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International Journal of Ophthalmology(English edition) 2017年第8期10卷 1255-1260页

作者： Xing-Yun Geng Hui-Qun Wu Jie-Hui Jiang Kui Jiang Jun Zhu Yi Xu Jian-Cheng Dong Zhuang-Zhi Yan The institute of biomedical engineering School of Communication and Information EngineeringShanghai University Department of Medical informatics Medical School of Nantong University Department of Ophthalmology Affiliated Hospital of Nantong University

AIM： To predict the visual outcome in patients undergoing macular hole surgery by two novel three-dimensional morphological parameters on optical coherence tomography （OCT）： area ratio factor （ARF） and volume ratio factor （VRF）. METHODS： A clinical case series was conducted, including 54 eyes of 54 patients with an idiopathic macular hole （IMH）. Each patient had an OCT examination before and after surgery. Morphological parameters of the macular hole, such as minimum diameter, base diameter, and height were measured. Then, the macular hole index （Mill）, tractional hole index （THI）, and hole form factor （HFF） were calculated. Meanwhile, novel postoperative macular hole （MH） factors, ARF and VRF were calculated by three-dimensional morphology. Bivariate correlations were performed to acquire asymptotic significance values between the steady best corrected visual acuity （BCVA） after surgery and 2D/3D arguments of MH by the Pearson method with two-tailed test. All significant factors were analyzed by the receiver operating characteristic （ROC） curve analysis of SPSS software which were responsible for vision recovery. ROC curves analyses were performed to further discuss the different parameters on the prediction of visual outcome. RESULTS： The mean and standard deviation values of patients＇ age, symptoms duration, and follow-up time were 64.8＋8.9y （range： 28-81）, 18.6＋11.5d （range： 2-60）, and 11.4＋0.4mo （range： 6-24）, respectively. Steady-post-BCVA analyzed with bivariate correlations was found to be significantly correlated with base diameter （r＇0.521, P〈0.001）, minimum diameter （r=0.514, P〈0.001）, MHI （r -0.531, P〈0.001）, THI （r=-0.386, P=-0.004）, HFF （r=-0.508, P〈0.001）, and ARF （r=-0.532, P〈0.001）. Other characteristic parameters such as age, duration of surgery, height, diameter hole index, and VRF were not statistically significant with steady-post-BCVA. According to area under the curve （AUC） values, values of ARF, MHI, HFF, minimum diameter, THI, and base diameter are 0.806, 0.772, 0.750, 0.705, 0.690, and

关键词： optical coherent imaging prognostic evaluation idiopathic macular hole morphological features

dbSCI:A manually curated database of SARS-CoV-2 inhibitors for COVID-19

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BIOCELL 2023年第2期47卷 367-371页

作者： QIANG WANG GUO ZHAO LONGXIANG XIE XUAN LI XIXI YU QIONGSHAN LI BAOPING ZHENG ZULIPINUER WUSIMAN XIANGQIAN GUO institute of biomedical informatics School of SoftwareBioinformatics CenterHenan Provincial Engineering Center for Tumor Molecular MedicineSchool of Basic Medical SciencesAcademy for Advanced Interdisciplinary StudiesHenan UniversityKaifeng475004China

Severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)is the pathogen of the ongoing coronavirus disease 2019(COVID-19)global pandemic.Here,by centralizing published cell-based experiments,clinical trials,and virtual drug screening data from the NCBI PubMed database,we developed a database of SARS-CoV-2 inhibitors for COVID-19,dbSCI,which includes 234 SARS-CoV-2 inhibitors collected from publications based on cell-based experiments,81 drugs of COVID-19 in clinical trials and 1305 potential SARS-CoV-2 inhibitors from bioinformatics analyses.dbSCI provides four major functions:(1)search the drug target or its inhibitor for SARS-CoV-2,(2)browse target/inhibitor information collected from cell experiments,clinical trials,and virtual drug screenings,(3)download,and(4)submit data.Each entry in dbSCI contains 18 types of information,including inhibitor/drug name,targeting protein,mechanism of inhibition,experimental technique,experimental sample type,and reference information.In summary,dbSCI provides a relatively comprehensive,credible repository for inhibitors/drugs against SARS-CoV-2 and their potential targeting mechanisms and it will be valuable for further studies to control COVID-19.

关键词： SARS-CoV-2 COVID-19 Inhibitors Drugs Database

A stage-specific cell-manipulation platform for inducing endothelialization on demand

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National Science Review 2020年第3期7卷 629-643页

作者： Qilong Zhao Juan Wang Yunlong Wang Huanqing Cui Xuemin Du institute of biomedical& Health engineering Shenzhen Institutes of Advanced TechnologyChinese Academy of Sciences

Endothelialization is of great significance for vascular remodeling, as well as for the success of implanted vascular grafts/stents in cardiovascular disease treatment. However, desirable endothelialization on synthetic biomaterials remains greatly challenging owing to extreme difficulty in offering dynamic guidance on endothelial cell(EC) functions resembling the native extracellular matrix-mediated effects. Here, we demonstrate a bilayer platform with near-infrared-triggered transformable topographies, which can alter the geometries and functions of human ECs by tunable topographical cues in a remote-controlled manner, yet cause no damage to the cell viability. The migration and the adhesion/spreading of human ECs are respectively promoted by the temporary anisotropic and permanent isotropic topographies of the platform in turn, which appropriately meet the requirements of stage-specific EC manipulation for endothelialization. In addition to the potential of promoting the development of a new generation of vascular grafts/stents enabling rapid endothelialization, this stage-specific cell-manipulation platform also holds promise in various biomedical fields, since the needs for stepwise control over different cell functions are common in wound healing and various tissue-regeneration processes.

关键词： biomaterials tissue engineering shape-memory polymer topographical conversion endothelialization

RECENT DEVELOPMENTS OF TERAHERTZ TECHNOLOGY IN BIOMEDICINE

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Journal of Innovative Optical Health Sciences 2008年第1期1卷 29-44页

作者： EMMA PICKWELL-MACPHERSON SHENGYANG HUANG KANIS WAI CHI KAN YIWEN SUN YUAN TING ZHANG Joint Research Centre for biomedical engineering Department of Electronic engineering The Chinese University of Hong Kong†institute of biomedical and Health engineering Shenzhen institute of Advanced Technology Chinese Academy of Sciences China Key Laboratory for biomedical informatics and Health engineering Chinese Academy of Science China

Terahertz technology is continually evolving and much progress has been made in recent years.Many new applications are being discovered and new ways to implement terahertz imaging investigated.In this review,we limit our discussion to biomedical applications of terahertz imaging such as cancer detection,genetic sensing and molecular spectroscopy.Our discussion of the development of new terahertz techniques is also focused on those that may accelerate the progress of terahertz imaging and spectroscopy in biomedicine.

关键词： spectroscopy. terahertz limit

Cooperative Chemical Coupling and Physical Lubrication Effects Construct Highly Dynamic Ionic Covalent Adaptable Network for High-Performance Wearable Electronics

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CCS Chemistry 2023年第5期5卷 1096-1107页

作者： Lijie Sun Hongfei Huang Qingbao Guan Lei Yang Luzhi Zhang Benhui Hu Rasoul Esmaeely Neisiany Zhengwei You Meifang Zhu State Key Laboratory for Modification of Chemical Fibers and Polymer Materials College of Materials Science and EngineeringInstitute of Functional MaterialsResearch Base of Textile Materials for Flexible Electronics and Biomedical Applications(China Textile Engineering Society)Shanghai Engineering Research Center of Nano-Biomaterials and Regenerative MedicineDonghua UniversityShanghai 201620 Key Laboratory of Clinical and Medical engineering School of Biomedical Engineering and InformaticsNanjing Medical UniversityNanjing 211166 Department of Materials and Polymer engineering Faculty of EngineeringHakim Sabzevari UniversitySabzevar ***

Covalent adaptable networks(CANs),which combine the benefits of traditional thermosets and thermoplastics,have attracted considerable attention.The dynamics of reversible covalent bonds and mobility of polymer chains in CANs determine the topological rearrangement of the polymeric network,which is critical to their superior features,such as self-healing and reprocessing.Herein,we introduce an ionic liquid to dimethylglyoximeurethane(DOU)-based CANs to regulate both reversible bond dynamics and polymer chain mobility by cooperative chemical coupling and physical lubrication.Small-molecule model experiments demonstrated that ionic liquids can catalyze dynamic DOU bond exchange.Ionic liquid also breaks the hydrogen bonds between polymeric chains,thereby increasing their mobility.As a combined result,the activation energy of the dissociation of the dynamic network decreased from 110 to 85 kJ mol^(−1).Furthermore,as a functional moiety,the ionic liquid imparts new properties to CANs and will greatly expand their applications.For example,the consequent conductivity of resultant ionic CAN(iCAN)has demonstrated a great power to build high-performance multifunctional wearable electronics responsive to multiple stimulations including temperature,strain,and humidity.This study provides a new design principle that simultaneously uses the chemical and physical effects of two structural components to regulate material properties enabling novel applications.

关键词： covalent adaptable networks polyurethane self-healing recycling ionic skin

Biomimetic microchannel network with functional endothelium formed by sacrificial electrospun fibers inside 3D gelatin methacryloyl(GelMA)hydrogel models

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Journal of Zhejiang University-Science A(Applied Physics & engineering) 2024年第1期25卷 79-96页

作者： Haoyu SUN Haiyang MA Li WANG Yang LIU Tian HOU Wenjie TANG Qing YU Meiwen AN Meiling WEN institute of biomedical engineering College of Biomedical EngineeringTaiyuan University of TechnologyTaiyuan030024China

Three-dimensional(3D)hydrogel models play a crucial role in tissue engineering for promoting tissue regeneration.A biomimetic microchannel network system in the 3D hydrogel model is necessary for optimal cellular function.This report describes the preparation of a biomimetic hydrogel scaffold with an internal microchannel network,using electrospinning techniques and the sacrificial template method for 3D cell culture.Microchannels and cavities were created within the gelatin methacryloyl(GelMA)hydrogel by sacrificing polyvinyl alcohol(PVA)electrospun fibers(>10µm),resulting in the creation of microvessel-like channels.Mechanical characterizations,swelling properties,and biodegradation analysis were conducted to investigate the feasibility of a biomimetic microchannel network hydrogel scaffold for 3D cell culture applications.Compared to pure GelMA hydrogel,the hydrogel with microchannels promoted cell proliferation,adhesion,and endothelial tube formation.Moreover,the results confirmed that the biomimetic microchannel network scaffold had a major impact on the distribution and arrangement of human umbilical vein endothelial cells(HUVECs)and can enable the formation of artificial microvasculature by the culture of HUVECs and cell media perfusion.

关键词： Biomimetic scaffold Photocrosslinking Microchannel network Tissue engineering Artificial microvascular