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| 1 | Construction and visualization of high-resolution three-dimensional anatomical structure datasets for Chinese digital human显示文摘The objective of the China Digital Human Project (CDH) is to digitize and visualize the anatomical structures of human body. In the project, a database with information of morphology, physical charac-teristics and physiological function will be constructed. The raw data of CDH which was completed in the Southern Medical University is employed. In Huazhong University of Science and Technology (HUST), the frozen section images are preprocessed, segmented, labeled in accordance with the major organs and tissues of human beings, and reconstructed into three-dimensional (3D) models in parallel on high performance computing clusters (HPC). Some visualization software for 2D atlas and 3D mod-els are developed based on the new dataset with high resolution (0.1mm×0.1mm×0.2mm). In order to share, release and popularize the above work, a website (www.vch.org.cn) is online. The dataset is one of the most important parts in the national information database and the medical infrastructure. | LI AnAn LIUQian ZENG ShaoQun TANG Lei ZHONG ShiZhen LUO QingMing | 2008 | Chinese Science Bulletin2008，53，12： | 7 |
| 2 | Fabrication technique of micro/nano-scale speckle patterns with focused ion beam显示文摘The fabrication technique of micro/nano-scale speckle patterns with focused ion beam (FIB) system is studied for digital image correlation (DIC) measurement under a scanning electron microscope (SEM).The speckle patterns are fabricated by directly etching the counterpart of the specimen to the black part of a template.Mean intensity gradient is used to evaluate the quality of these SEM images of speckle patterns fabricated based on different templates to select an optimum template.The pattern size depending on the displacement measurement sensitivity is adjusted by altering the magnification of FIB according to the relation curve of the etching size versus magnification.The influencing factors including etching time and ion beam current are discussed.Rigid body translation tests and rotation tests are carried out under SEM to verify the reliability of the fabricated speckle patterns.The calculated values are in good agreement with the imposed ones. | LI YanJie XIE HuiMin LUO Qiang GU ChangZhi HU ZhenXing CHEN PengWan ZHANG QingMing | 2012 | Science China(Physics,Mechanics & Astronomy)2012，55，6： | 7 |
| 3 | Firing patterns of long-term cultured neuronal network on multi-electrode array显示文摘Spontaneous neuronal activity plays an important role in the development and plasticity of brain. To explore the developmental changes in the firing pattern of the neuronal networks in vitro, the hippocampal neurons were cultured on the multi-microelectrode array dish for over 14 weeks and the spontaneous activity was recorded. The results showed that random firing was observed in the 1st week and transformed into synchronized activity after two weeks, then tightly synchronized activity appeared in week 2 to 7 and finally the activities transformed into the random firing pattern. These results suggested three stages in the long-term development of neuronal network in vitro: the stage for connection, the stage of synchronized activity and the mature stage. Synchronized firing shown by spontaneous activity was an important phenomenon in high density cultured neuronal network and transformed patterns during development. | LI Xiangning ZHOU Wei LIU Man ZENG Shaoqun LUO Qingming | 2006 | Progress in Natural Science:Materials International2006，16，12： | 7 |
| 4 | Metastatic status of sentinel lymph nodes in breast cancer determined with photoacoustic microscopy via dual-targeting nanoparticles显示文摘Detection of sentinel lymph nodes(SLNs)is critical to guide the treatment of breast cancer.However,distinguishing metastatic SLNs from normal and inflamed lymph nodes(LNs)during surgical resection remains a challenge.Here,we report a CD44 and scavenger receptor class B1 dual-targeting hyaluronic acid nanoparticle(5K-HA-HPPS)loaded with the near-infra-red fluorescent dye DiR-BOA for SLN imaging in breast cancer.The small sized(~40 nm)self-assembled 5K-HA-HPPSs accumulated rapidly in the SLNs after intradermal injection.Compared with normal popliteal LNs(N-LN),there were ~3.2-fold and ~2.4-fold increases in fluorescence intensity in tumour metastatic SLNs(T-MLN)and inflamed LNs(Inf-LN),respectively,6 h after nanoparticle inoculation.More importantly,photoacoustic microscopy(PAM)of 5KHA-HPPS showed a significantly distinct distribution in T-MLN compared with N-LN and Inf-LN.Signals were mainly distributed at the centre of T-MLN but at the periphery of N-LN and Inf-LN.The ratio of PA intensity(R)at the centre of the LNs compared with that at the periphery was 5.93±0.75 for T-MLNs of the 5K-HA-HPPS group,which was much higher than that for the Inf-LNs(R=0.2±0.07)and N-LNs(R=0.45±0.09).These results suggest that 5K-HA-HPPS injection combined with PAM provides a powerful tool for distinguishing metastatic SLNs from pLNs and inflamed LNs,thus guiding the removal of SLNs during breast cancer surgery. | Yanfeng Dai Xiang Yu Jianshuang Wei Fanxin Zeng Yiran Li Xiaoquan Yang Qingming Luo Zhihong Zhang | 2020 | Light(Science & Applications)2020，9，1： | 6 |
| 5 | FluxExplorer: A general platform for modeling and analyses of metabolic net-works based on stoichiometry显示文摘Stoichiometry-based analyses of meta- bolic networks have aroused significant interest of systems biology researchers in recent years. It is necessary to develop a more convenient modeling platform on which users can reconstruct their network models using completely graphical operations, and explore them with powerful analyzing modules to get a better understanding of the properties of metabolic systems. Herein, an in silico platform, FluxExplorer, for metabolic modeling and analyses based on stoichiometry has been developed as a publicly available tool for systems biology research. This platform integrates various analytic approaches, in- cluding flux balance analysis, minimization of meta- bolic adjustment, extreme pathways analysis, shadow prices analysis, and singular value decom- position, providing a thorough characterization of the metabolic system. Using a graphic modeling process, metabolic networks can be reconstructed and modi- fied intuitively and conveniently. The inconsistencies of a model with respect to the FBA principles can be proved automatically. In addition, this platform sup- ports systems biology markup language (SBML). FluxExplorer has been applied to rebuild a metabolic network in mammalian mitochondria, producing meaningful results. Generally, it is a powerful and very convenient tool for metabolic network modeling and analysis. | LUO Ruoyu LIAO Sha ZENG Shaoqun LI Yixue LUO Qingming | 2006 | Chinese Science Bulletin2006，51，6： | 6 |
| 6 | Monitor and control of neuronal activities with femtosecond pulse laser显示文摘Combined with the fluorescence labeling technique, two-photon microscopy excited with femtosecond pulse laser has become an important tool for neuroscience research. In this research, the calcium signals from neurons in rat cortex slice were monitored by a custom-built two-photon microscopy, and the spontaneous calcium signals and the pharmacological responses as well as the responses to femtosecond pulse laser stimulation were recorded. The results showed that the amplitude of the cal-cium signals increased in direct proportion to the corresponding electrical activities. Glutamate induced a calcium transient, but continuous application resulted in smaller response. Simultaneous monitoring of neuronal populations distinguished the neurons of different microcircuits. The femtosecond pulse laser induced local or global calcium signals in the pyramidal neurons. The approach of interrogation and control of neural activities using femtosecond pulse laser is non-contact, nondestructive, repeatable, and without any additional substrates, which will contribute to the development of neuroscience. | ZHOU Wei LIU XiuLi LU XiaoHua LI JiaSong LUO QingMing ZENG ShaoQun | 2008 | Chinese Science Bulletin2008，53，5： | 5 |
| 7 | Challenges of Processing and Analyzing Big Data in Mesoscopic Whole-brain Imaging显示文摘The brain is recognized as the most complex organ on earth.The complex neuronal network in the human brain consists of approximately 86 billion neurons and more than one hundred trillion connections[1].Even the mouse brain,which is commonly used as a model in neuroscience studies,contains more than 71 million neurons.Despite the great efforts made by the neuroscientists,our knowledge about the brain is still limited and studies on small model animals have only provided preliminary results[2–4].To improve the situation,brainsmatics studies try to accelerate neuroscience research by providing a standard whole-brain spatial coordinate system and standardized labeling tools,imaging the brain,as well as discovering new neuronal cell types,neuronal circuits,and brain vascular structures. | Anan Li Yue Guan Hui Gong Qingming Luo | 2019 | Genomics, Proteomics & Bioinformatics2019，17，4： | 5 |
| 8 | Computational neuroscience:a frontier of the 21^st century显示文摘THEORY IN NEUROSCIENCE The human brain is a biological organ,weighing about three pounds or 1.4 kg,that determines our behaviors,thoughts,emotions and consciousness.Although comprising only 2%of the total body weight,the brain consumes about 20%of the oxygen entering the body.With the expensive energy demand,the brain enables us to perceive and act upon the external world,as well as reflect on our internal thoughts and feelings. | Xiao-Jing Wang Hailan Hu Chengcheng Huang Henry Kennedy Chengyu Tony Li Nikos Logothetis Zhong-Lin Lu Qingming Luo Mu-ming Poo Doris Tsao Si Wu Zhaohui Wu Xu Zhang Douglas Zhou | 2020 | National Science Review2020，7，9： | 4 |
| 9 | High-resolution mapping of brain vasculature and its impairment in the hippocampus of Alzheimer’s disease mice显示文摘Accumulating evidence indicates the critical importance of cerebrovascular dysfunction in the pathogenesis of Alzheimer’s disease(AD).However,systematic comparative studies on the precise brain vasculature of wild-type and AD model mice are still rare.Using an image-optimization method for analysing Micro-Optical Sectioning Tomography(MOST)data,we generated cross-scale whole-brain 3 D atlases that cover the entire vascular system from large vessels down to smallest capillaries at submicron resolution,for both wild-type mice and a transgenic(APP/PS1)mouse model of AD.In addition to distinct vascular patterns in different brain regions,we found that the main vessels of the molecular layer of the hippocampal dentate gyrus(DG-ml)undergo abrupt changes in both diameter and branch angle,spreading a unique comb-like pattern of capillaries.By using a quantitative analysis workflow,we identified in the hippocampus of AD mice an overall reduction of the mean vascular diameter,volume fraction and branch angle,with most significant impairment in the DG-ml.In addition,virtual endoscopy revealed irregular morphological features in the vessel lumen of the AD mice,potentially contributing to the impairment of blood flow.Our results demonstrate the capability of high-resolution cross-scale evaluation of brain vasculature and underscore the importance of studying hippocampal microcirculation for understanding AD pathogenesis. | Xiaochuan Zhang Xianzhen Yin Jingjing Zhang Anan Li Hui Gong Qingming Luo Haiyan Zhang Zhaobing Gao Hualiang Jiang | 2019 | National Science Review2019，6，6： | 4 |
| 10 | PINPOINT SOURCE LOCALIZATION FOR OCULAR NONSELECTIVE ATTENTION WITH COMBINATION OF ERP AND fNIRI MEASUREMENTS显示文摘Compared with event-related potential(ERP)which is widely used in psychology research,functional near-infrared imaging(fNIRI)is a new technique providing hemodynamic information related to brain activity,except for electrophysiological signals.Here,we use both these techniques to study ocular attention.We conducted a series of experiments with a classic paradigm of ocular nonselective attention,and monitored responses with fNIRI and ERP respectively.The results showed that fNIRI measured brain activations in the left prefrontal lobe,while ERPs showed activation in frontal lobe.More importantly,only with the combination measurements of fNIRI and ERP,we were then able to find the pinpoint source of ocular nonselective attention,which is in the left and upper corner in Brodmann area 10.These results demonstrated that fNIRI is a reliable technique in psychology,and the combination of fNIRI and ERP can be promising to reveal more information in the research of brain mechanism. | TING LI LI LI PENG DU QINGMING LUO HUI GONG | 2008 | Journal of Innovative Optical Health Sciences2008，1，2： | 3 |
| 11 | Optical dynamic imaging of the regional blood flow in the rat mesentery under the effect of noradrenalin显示文摘The regional blood flow in the rat mesentery under the effect of noradrenalin is monitored using the laser speckle imaging method. The results show that at the third minute of application of noradrenalin, the blood flow begins to decrease, and the venule blood flow decreases more rapidly than that in the arteriole. Five minutes later blood flow in part of blood vessels begins to resume and the blood flow in the arteriole recovers more quickly than that in the venule. These suggest that laser speckle imaging can obtain the temporal-spatial characteristic of blood flow in mesentery without the need of scanning. It provides a new approach for investigating the change of regional blood flow in the mesentery in microcirculation studies. | CHENG Haiying, LUO Qingming, ZENG Shaoqun, CEN Jian and LIANG Wenxi(The Key Laboratory of Biomedical Photonics of Ministry of Education of China, Huazhong University of Science and Technology, Wuhan 430074, China) | 2003 | Progress in Natural Science:Materials International2003，13，5： | 3 |
| 12 | MCVM:MONTE CARLO MODELING OF PHOTON MIGRATION IN VOXELIZED MEDIA显示文摘The Monte Carlo code MCML(Monte Carlo modeling of light transport in multi-layered tissue)has been the gold standard for simulations of light transport in multi-layer tissue,but it is ineffective in the presence of three-dimensional(3D)heterogeneity.New techniques have been attempted to resolve this problem,such as MCLS,which is derived from MCML,and tMCimg,which draws upon image datasets.Nevertheless,these approaches are insufficient because of their low precision or simplistic modeling.We report on the development of a novel model for photon migration in voxelized media(MCVM)with 3D heterogeneity.Voxel crossing detection and refractive-index-unmatched boundaries were considered to improve the precision and eliminate dependence on refractive-index-matched tissue.Using a semi-infinite homogeneous medium,steady-state and time-resolved simulations of MCVM agreed well with MCML,with high precision(∼100%)for the total diffuse reflectance and total fractional absorption compared to those of tMCimg(<70%).Based on a refractive-index-matched heterogeneous skin model,the results of MCVM were found to coincide with those of MCLS.Finally,MCVM was applied to a two-layered sphere with multi-inclusions,which is an example of a 3D heterogeneous media with refractive-index-unmatched boundaries.MCVM provided a reliable model for simulation of photon migration in voxelized 3D heterogeneous media,and it was developed to be a flexible and simple software tool that delivers high-precision results. | TING LI HUI GONG QINGMING LUO | 2010 | Journal of Innovative Optical Health Sciences2010，3，2： | 2 |
| 13 | Flexible,video-rate,and aberration-compensated axial dual-line scanning imaging with field-of-view jointing and stepped remote focusing显示文摘Parallel dual-plane imaging with a large axial interval enables the simultaneous observation of biological structures and activities in different views of interest.However,the inflexibility in adjusting the field-of-view(FOV)positions in three dimensions and optical sectioning effects,as well as the relatively small effective axial range limited by spherical aberration,have hindered the application of parallel dual-plane imaging.Herein,we propose a flexible,video-rate,and defocus-aberration-compensated axial dual-line scanning imaging method.We used a stepped mirror to remotely generate and detect dual axial lines with compensation for spherical aberration and FOV-jointing to rearrange into a head-to-head line for high-speed optical sectioning acquisition.The lateral and axial positions of the two FOVs could be flexibly adjusted before and during imaging,respectively.The method also allows the adjustment of optical sectioning effects according to specific experimental requirements.We experimentally verified the consistent imaging performance over an axial range of 300μm.We demonstrated high throughput by simultaneously imaging Brownian motions in two 250μm×250μm FOVs with axial and lateral intervals of 150μm and 240μm,respectively,at 24.5 Hz.We also showed potential application in functional imaging by simultaneously acquiring neural activities in the optic tectum and hindbrain of a zebrafish brain.The proposed method is,thus,advantageous compared to existing parallel dual-plane imaging and potentially facilitates intravital biological study in large axial range. | RUI JIN YALAN YU DAN SHEN QINGMING LUO HUI GONG JING YUAN | 2021 | Photonics Research2021，9，8： | 2 |
| 14 | Visualizing DC morphology and T cell motility to characterize DC-T cell encounters in mouse lymph nodes under mTOR inhibition显示文摘Mammalian target of rapamycin(mTOR),a serine/threonine kinase orchestrating cellular metabolism,is a crucial immune system regulator.However,it remains unclear how mTOR regulates dendritic cell(DC) function in vivo,especially DC-T cell encounters,a critical step for initiating adaptive immune responses.We dynamically visualized DC-T contacts in mouse lymph node using confocal microscopy and established an encounter model to characterize the effect of mTOR inhibition on DC-T cell encounters using DC morphology.Quantitative data showed mTOR inhibition via rapamycin altered DC shape,with an increased form factor(30.17%) and decreased cellular surface area(20.36%) and perimeter(22.43%),which were associated with Cdc42 protein downregulation(52.71%).Additionally,DCs adopted a similar morphological change with Cdc42 inhibition via ZCL278 as that observed with mTOR inhibition.These morphologically altered DCs displayed low encounter rates with T cells.Time-lapse imaging data of T cell motility supported the simulated result of the encounter model,where antigen-specific T cells appeared to reduce arrest in the lymph nodes of rapamycin-pretreated mice relative to the untreated group.Therefore,mTOR inhibition altered DC morphology in vivo and decreased the DC-T cell encounter rate,as well as Cdc42 inhibition.By establishing an encounter model,our study provides an intuitive approach for the early prediction of DC function through morphological quantification of form factor and area. | Qiaoya Lin Zheng Liu Meijie Luo Hao Zheng Sha Qiao Chenlu Han Deqiang Deng Zhan Fan Yafang Lu Zhihong Zhang Qingming Luo | 2019 | Science China(Life Sciences)2019，62，9： | 2 |
| 15 | IMPROVE OPTICAL CLEARING OF SKIN IN VITRO WITH PROPYLENE GLYCOL AS A PENETRATION ENHANCER显示文摘In order to enhance the optical clearing effect of topically applied optical clearing agents(OCAs),we evaluated the effect of propylene glycol(PG)as a chemical penetration enhancer(PE)on optical clearing of skin in vitro by observation and measurement of optical-transmittance and diffuse-reflectance spectra.Three OCAs,i.e.,glycerol,D-sorbitol and PEG400,and two other penetration enhancers,Azone and Thiazone,were used in this study.The results indicated that the decrease of reduced scattering coefficient caused by OCA/PG was larger than that by pure OCA,and the change by OCA/water was the least after the same treatment time.There were significant differences for the reduced scattering coefficient at 630 nm after 120 min application of agents between OCA and OCA/PG.The efficacy of optical clearing caused by OCA/PG depended on the OCA itself.When PEG400 was mixed with three different PEs,we found the optical clearing were different.The penetration enhancing ability of PG was much better compared to Azone,and suboptimal to Thiazone.Also,this study provides evidence for the use of PG as a PE in order to improve skin optical clearing. | ZHONGWEI ZHI ZHENZHEN HAN QINGMING LUO DAN ZHU | 2009 | Journal of Innovative Optical Health Sciences2009，2，3： | 2 |
| 16 | Blood flow activation in rat somatosensory cortex under sciatic nerve stimulation revealed by laser speckle imaging显示文摘In many functional neuroimaging research the change of local cerebral blood flow (CBF) induced by sensory stimulation is regarded as an indicator of the change in cortical neuronal activity although a precise and full spatio-temporal description of local CBF response coupled to neural activity has still not been laid out. Using the laser speckle imaging technique a relatively large exposed area in somatosensory cortex of rat was imaged for the observation of the variations of CBF during sciatic nerve stimulation. The results showed that cerebral blood flow activation was spatially localized and discretely distributed in the targeted microvasculature. Individual arteries, veins and capillaries in different diameters were activated with the time going. The response pattern of CBF related to the function of brain activity and energy metabolism is delineated exactly. | WANG Zheng, LUO Qingming, CHENG Haiying, LUO Weihua, GONG Hui and LU Qiang(The Key Laboratory of Biomedical Photonics of Ministry of Education of China, Huazhong University of Science and Technology, Wuhan 430074, China) | 2003 | Progress in Natural Science:Materials International2003，13，7： | 2 |
| 17 | The oxidation and reduction behavior of nitrite at carbon nanotube power microelectrodes显示文摘 | ZHAO Yuawdi ZHANG Wei de LUO Qingming | 2003 | Microchemical Journal2003，75，： | 1 |
| 18 | Human physiome based on the high-resolution dataset of human body structure显示文摘Physiome Project, as a new concept, is proceeding rapidly with the great advancement of genomics, physiological experiment, biologic modeling and computer simulation technique. The project seeks to provide a quantitative framework for modeling of the human physiological system using computational approaches, which is able to integrate the knowledge of molecular biology, biochemical, biophysical and anatomical information on different levels, including cell, tissue, organ, system and organism. This paper reviews the development of the Physiome Project in the past decade. The role of high-resolution datasets of human body structure in Physiome Project is discussed. The future plan and applications of the high-resolution datasets of human body structure to Physiome Project are discussed as well. | Qian Liu Bo Wu Shaoqun Zeng Qingming Luo | 2008 | Progress in Natural Science:Materials International2008，18，8： | 1 |
| 19 | Kinetic thermal response and damage in laser coagulation of tissue显示文摘 | Dan Zhu Qingming Luo Guangming Zhu | 2002 | Lasers in Surgery and Medicine2002，31，： | 1 |
| 20 | Whole-Brain Direct Inputs to and Axonal Projections from Excitatory and Inhibitory Neurons in the Mouse Primary Auditory Area显示文摘Neurons in the primary auditory area(AUDp)innervate multiple brain regions with long-range projections while receiving informative inputs for diverse functions.However,the brain-wide connections of these neurons have not been comprehensively investigated.Here,we simultaneously applied virus-based anterograde and retrograde tracing,labeled the connections of excitatory and inhibitory neurons in the mouse AUDp,and acquired whole-brain information using a dual-channel fuorescence micro-optical sectioning tomography system.Quantified results showed that the two types of neurons received inputs with similar patterns but sent heterogeneous projections to downstream regions.In the isocortex,functionally different areas consistently sent feedback-dominated projections to these neurons,with concomitant laterallydominated projections from the sensory and limbic cortices to inhibitory neurons.In subcortical regions,the dorsal and medial parts of the non-lemniscal auditory thalamus(AT)were reciprocally connected to the AUDp,while the ventral part contained the most fibers of passage from the excitatory neurons and barely sent projections back,indicating the regional heterogeneity of the AUDp-AT circuit.Our results reveal details of the whole-brain network and provide new insights for further physiological and functional studies of the AUDp. | Mengting Zhao Miao Ren Tao Jiang Xueyan Jia Xiaojun Wang Anan Li Xiangning Li Qingming Luo Hui Gong | 2022 | Neuroscience Bulletin2022，38，6： | 1 |
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