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A GPU-accelerated two-phase flow model for fluid-solid interaction using the sharp interface immersed boundary method

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JOURNAL OF HYDRODYNAMICS 2024年第5期36卷 883-897页

作者： ma, li-ping lian, Ji-jian liu, Dong-ming Tianjin Univ State Key Lab Hydraul Engn Intelligent Construct & Tianjin 300072 Peoples R China Tianjin Univ Sch Civil Engn Tianjin 300072 Peoples R China Sichuan Univ State Key Lab Hydraul & Mt River Engn Chengdu 610065 Peoples R China

A two-phase flow model accelerated by graphical processing unit (GPU) is developed to solve fluid-solid interaction (FSI) using the sharp-interface immersed boundary method (IBM). This model solves the incompressible Navier-Stokes equations using the projection-based fractional step method in a fixed staggered Cartesian grid system. A volume of fluid (VOF) method with second-order accuracy is employed to trace the free surface. To represent the intricate surface geometry, the structure is discretized using the unstructured triangle mesh. Additionally, a ray tracing method is employed to classify fluid and solid points. A high-order stable scheme has been introduced to reconstruct the local velocity at interface points. Three FSI problems, including wave evolution around a breakwater, interaction between a periodic wave train and a moving float, and a 3-D moving object interacting with the free surface, were investigated to validate the accuracy and stability of the proposed model. The numerical results are in good agreement with the experimental data. Additionally, we evaluated the computational performance of the proposed GPU-based model. The GPU-based model achieved a 42.29 times speedup compared with the single-core CPU-based model in the three-dimension test. Additionally, the results regarding the time cost of each code section indicate that achieving more significant acceleration is associated with solving the turbulence, advection, and diffusion terms, while solving the pressure Poisson equation (PPE) saves the most time. Furthermore, the impact of grid number on computational efficiency indicates that as the number of grids increases, the GPU-based model outperforms the multi-core CPU-based model.

关键词： Fluid-solid interaction (FSI) immersed boundary method (IBM) graphical processing unit (GPU) two-phase flow moving rigid body

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Synthesis and magnetic Properties of a Novel Birnessite Oxide Cs_(0.24)MnO_2

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Chinese Journal of Structural Chemistry 2008年第2期27卷 215-219页

作者： PAN Ying-Zhen QIU Xiao-Qing QIHE Ri-ma li li-ping State Key Laboratory of Structural Chemistry Fujian Institute of Research on theStructure of Matter The Chinese Academy of Sciences Fuzhou Fujian 350002 China

The synthesis of a novel birnessite structure manganese oxide, Cs0.24MnO2, via a modified sol-gel route is reported in this work. The product was characterized by X-ray diffraction （XRD）, transmission electron microscopy （TEM）, thermogravimetric analysis （TGA）, and magnetic susceptibility. It is found that Cs0.24MnO2 crystallizes in a monoclinic phase with a nanosheet morphology. With lowering the temperature, Cs0.24MnO2 shows an antiferromagnetic transition at about 43.8 K, which is different from its paramagnetic K-counterpart. The effective moment of Mn ions in Cs0.24MnO2 is determined to be 4.2 μB, indicating a mixed valence of Mng＋/Mn3＋.

关键词： birnessite magnetic antiferromagnetic

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Formation Mechanism and Binding Energy for Body-Centred Regular Octahedral Structure of li7 Cluster

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Communications in Theoretical Physics 2007年第4X期48卷 717-720页

作者： ma Hai-Rong li ping GOU Qing-Quan li Hui-li Institute of Atomic and Molecular Physics Sichuan University Chengdu 610065 China

The formation mechanism for the body-centred regular octahedral structure of li7 cluster is proposed. The curve of the total energy versus the separation R between the nucleus at the centre and nuclei at the apexes for this structure of li7 has been calculated by using the method of Gou＇s modified arrangement channel quantum mechanics （maCQM）. The result shows that the curve has a minimal energy of-52.169 73 a.u. at R = 5.06ao. When R approaches infinity, the total energy of seven lithium atoms has the value of-51.996 21 a.u. So the binding energy of li7 with respect to seven lithium atoms is 0.173 52 a.u. Therefore the binding energy per atom for li7 is 0.024 79 a.u. or 0.674 eV, which is greater than the binding energy per atom of 0.453 eV for li2, the binding energy per atom of 0.494 eV for li3 and the binding energy per atom of 0.632 eV for li5 calculated previously by us. This means that the li7 cluster may be formed stably in a body-centred regular octahedral structure with a greater binding energy.

关键词： li7 cluster formation mechanism binding energy

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Preparing amphiphilic acidic zeolite via chemically coating alkylamine

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Chinese Science Bulletin 2007年第17期52卷 2316-2319页

作者： SUN RuiQin CHUN Yuant ma Bingli li ping DONG JiaLu XU QinHua Key Laboratory of Mesoscopic Chemistry of the Ministry of Education School of Chemistry and Chemical Engineering NanjingUniversity Nanjing 210093 China

Amphiphilic ODA/HY and ODA/ Hβ zeolites have been prepared via chemically coating octadecylamine (ODA) with alcohol as solvent. IR and titrimetric results indicate that ODA molecules are chemisorbed on the acidic sites in zeolite, showing the higher thermostability and alcohol-resistance. These am- phiphilic zeolites contain both the hydrophobic and hydrophilic groups, orient at the liquid-liquid phase-boundary in both cyclohexane/water and water/carbon tetrachloride systems, and exhibit the potential to be used in the phase-boundary catalysis and adsorption. No by-products with strong acid- ity are formed in this approach, therefore, it can be used to prepare amphiphilic acidic zeolites with low Si/Al ratio.

关键词：酸性沸石两性分子化学涂覆烷基胺制备方法

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Original article Inhibition of collagen-induced arthritis by DNA vaccines encoding TCR Vβ5.2 and TCR Vβ8.2

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Chinese Medical Journal 2009年第9期122卷 1039-1048页

作者： GE ping-ling ma li-ping WANG Wei li Yun ZHAO Wen-ming Department of Transfusion Aerospace Center Hospital Beijing100049 China Department of Immunology Capital Medical University Beijing100069 China

Background Arthritogenic T lymphocytes with common T cell receptor （TCR） Vβ clonotypes, infiltrating in the articulars of rheumatoid arthritis （RA） patients, play a central role in the pathogenesis of RA. TCR Vβ5.2 and TCR Vβ8.2 are the main pathogenic T cell clonotypes in the course of collagen-induced arthritis （CIA） progression in Lewis rats. To investigate a TCR-based immunotherapy for RA, we constructed recombinant DNA vaccines encoding TCR Vβ5.2 and TCR Vβ8.2, and evaluated the inhibitive effects of the two vaccines on CIA rats.Methods Genes encoding TCR Vβ5.2 and TCR Vβ8.2 were amplified by RT-PCR from spleen lymphocytes of Lewis rats and cloned into the eukaryotic expression vector pTargeT. The expression of vaccines was confirmed by RT-PCR and immunohistochemistry. The inhibitive effects of the vaccines on articulars of CIA rats were assessed with arthritis index evaluation and histology. Interferon γ （IFN-γ） and interleukin （IL）-4 production by spleen lymphocytes were tested with enzyme-linked immunospot assay （EliSPOT） technique, the changes in peripheral CD4^＋ and CD8^＋ lymphocyte populations were tested by flow cytometry, and the level of anti-CII antibody in serum was assayed by enzyme-linked immunosorbent assay （EliSA）.Results Recombinant DNA vaccines pTargeT-TCR Vβ5.2 and pTargeT-pTCR Vβ8.2 were successfully constructed. Both vaccines inhibited CIA, which alleviated the arthritis index score （P 〈0.05）, decreased the level of IFN-γ （P 〈0.05）, and reduced the ratio of CD4^＋/CD8^＋ lymphocytes （P 〈0.05） and the anti-CII antibody in serum （P 〈0.05）. In addition, the histological change in DNA-vaccinated rats was less serious than CIA rats. Compared to pTCR Vβ 8.2 and pTCR Vβ 5.2 groups, the group that was injected with a combination of the two vaccines showed stronger inhibitive effects on CIA than either individual vaccine.Conclusion The recombinant plasmids pTargeT-TCR Vβ5.2 and pTargeT-TCR Vβ8.2 have obvious inhibatory effects on CIA rats and bet

关键词： arthritis, collagen-induced T cell receptor vaccines, DNA

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Diagnostic Value of Cerebrospinal Fluid *** for Tuberculousis Meningitis in China

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Biomedical and Environmental Sciences 2017年第9期30卷 681-684页

作者： li Xue lian XIE Na WANG Song Wang WU Qian Hong ma Yan SHU Wei CHEN Hong Mei ZHANG li Qun WU Xiao Guang ma li ping CHE Nan Ying GAO Meng Qiu Beijing Chest Hospital Capital Medical UniversityBeijing 101149China Beijing Tuberculosis and Thoracic Tumor Research Institute Beijing 101149China Administration Office Clinical Center on Tuberculosis ControlChinese Center for Disease Control and PreventionBeijing 101149China Public Health Monitor and Information Service Center Chinese Center for Disease Control and PreventionBeijing 102206China Department of Tuberculosis Prevention and Treatment HosDital of Shanxi Province.Xian 7101130.Shanxi China

The aim of this study was to evaluate the diagnostic value of the cerebrospinal fluid（CSF） T‐*** test for the diagnosis of TB meningitis（TBM）. A retrospective analysis of 96 patients with manifested meningitis was conducted; T‐*** test was performed for diagnosing TBM to determine the diagnostic sensitivity, specificity, positive predictive value（PPV）, and negative predictive value（NPV）. A receiver operating characteristic（ROC） curve was also drawn to assess the diagnostic accuracy. The sensitivity, specificity, PPV, and NPV of CSF T‐*** test were 97.8%, 78.0%, 80.3%, and 97.5%, respectively, for 52 patients（54.2%） of the 96 enrolled patients. The area under the curve（AUC） was 0.910, and the sensitivities of CSF T‐*** for patients with stages I, II, and III of TBM were 96.7%, 97.2%, and 98.9%, respectively. CSF T‐*** test is a rapid and accurate diagnostic method with higher sensitivity and specificity for diagnosing TBM.

关键词： T‐SPOT TB Tuberculous meningitis Cerebrospinal fluid Diagnosis

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Detection and functional annotation of misregulated microRNAs in the brain of the Ts65Dn mouse model of Down syndrome

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Chinese Medical Journal 2013年第1期126卷 108-113页

作者： HE Xiang-jun XIAO Yun ZHANG Qi ma li-ping li Na YANG Jing Institute of Clinica(Molecular Biology Peking University People'sHospital Beijing 100044 China College of Bioinformatics Science and Technology HarbinMedical University Harbin Heilongjiang 150081 China

Background Brain hypoplasia and mental retardation in Down syndrome （DS） can be attributed to a severe and selective disruption of neurogenesis. Secondary disruption of the transcriptome, as well as primary gene dosage imbalance, is responsible for the phenotype. MicroRNA （miRNA） expression is relatively abundant in brain tissue. Perturbed miRNA expression might contribute to the cellular events underlying the pathology in DS. Methods MiRNA expression profiles in the cerebrum of Ts65Dn mice, a DS model, were examined with a real-time RT-PCR array. MiRNA target gene expression was detected by real-time quantitative PCR and Western blotting. Based on the prediction of their cerebrum-specific targets, the functions of the misregulated miRNAs were annotated by Gene Ontology （GO） enrichment analysis. Results A total of 342 miRNAs were examined. Among them, 20 miRNAs showed decreased expression in the brains of Ts65Dn mice, and some of these belonged to the same family. Two known targets of the miR-200 family, Lfng and Zeb2, were specifically selected to compare their expression in the cerebrum of Ts65Dn mice with those of euploids. However, no significant difference was found in terms of mRNA and protein expression levels of these genes. By enrichment analysis of the cerebrum-specific targets of each miRNA, we found that 15 of the differential miRNAs could significantly affect target genes that were enriched in the GO biological processes related to nervous system development. Conclusion Perturbed expression of multiple functionally cooperative miRNAs contributes to the cellular events underlying the pathogenesis of DS.

关键词： Down syndrome microRNA differential expression neurogenesis functional annotation

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Aberrant Alternative Polyadenylation is Responsible for Survivin Up-regulation in Ovarian Cancer

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Chinese Medical Journal 2016年第10期129卷 1140-1146页

作者： Xiang-Jun He Qi Zhang li-ping ma Na li Xiao-Hong Chang Yu-Jun Zhang Institute of Clinical Molecular Biology Peking University People's Hospital Beijing 100044 China Gynecology Oncology Center Peking University People's Hospital Beijing 100044 China

Background： Survivin is an oncoprotein silenced in normal mature tissues but reactivated in serous ovarian cancer （SOC）. Although transcriptional activation is assumed for its overexpression, the long 3＇-untranslated region （3＇-UTR） in survivin gene, which contains many alternate polyadenylation （APA） sites, implies a propensity for posttranscriptional control and therefore was the aim of our study. Methods： The abundance of the coding region, the proximal and the distal region of survivin mRNA 3＇-UTR, was evaluated by real-time polymerase chain reaction （PCR） in SOC samples, cell lines, and normal fallopian tube （NFT） tissues. The APA sites were confirmed by rapid amplification ofcDNA 3＇ ends and DNA sequencing. Real-time PCR were used to screen survivin-targeting microRNAs （miRNAs） that were inversely correlated with survivin. The expression of an inversely correlated miRNA was restored by pre-miRNA transfection or induction with a genotoxic agent to test its inhibitory effect on survivin overexpression. Results： Varying degrees of APA were observed in SOC by comparing the abundance of the proximal and the distal region of survivin 3＇-UTR, and changes of 3＇-UTR correlated significantly with survivin expression （r = 0.708, P 〈 0.01）. The main APA sites are proved at 1197 and 1673 of survivin 3＇-UTR by DNA sequencing. Higher level of 3＇-UTR proximal region than coding region was observed in NFT, as well as in SOC and cell lines. Among the survivin-targeting miRNAs, only a few highly expressed miRNAs were inversely correlated with survivin levels, and they mainly targeted the distal part of the 3＇-UTR. However, in ovarian cancer cells, restoration of an inversely correlated miRNA （miR-34c） showed little effect on survivin expression. Conclusions： In NFT tissues, survivin is not transcriptionally silenced but regulate posttranscriptionally. In SOC, aberrant APA leads to the shortening of survivin 3＇-UTR which enables it to escape the negative regulation of miRNAs and

关键词： 3'-Untranslated Region Shortening Alternative Polyadenylation MicroRNA Serous Ovarian Cancer Survivin

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Effects of allitridi on cell cycle arrest of human gastric cancer cells

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World Journal of Gastroenterology 2005年第35期11卷 5433-5437页

作者： Min-Wen Rui ma li-ping Shun Yue-Hua Gong Yuan Yuan Cancer Institute of the First Affiliated Hospital of ChinaMedical University Shenyang 110001 Liaoning Province China

AIM： To determine the effect of allitridi on cell cycle of human gastric cancer （HGC） cell lines MGC803 and SGC7901 and its possible mechanism. METHODS： Trypan blue dye exclusion was used to evaluate the proliferation, inhibition of cells and damages of these ceils were detected with electron microscope, Flow cytometry and cell mitotic index were used to analyze the change of cell cycle, immunohistochemistry, and RT- PCR was used to examine expression of the p21^WAF1 gene, RESULTS： MGC803 cell growth was inhibited by allitridi with 24 h ICso being 6.4μg/mL, SGC7901 cell growth was also inhibited by allitridi with 24 h IC50 being 7.3μg/mL, After being treated with allitridi at the concentration of 12μg/mL for 24 h, cells were found to have direct cytotoxic effects, including broken cellular membrane, swollen and vesiculated mitochondria and rough endoplasmic reticula, and mass lipid droplet, When cells were treated with allitridi at the concentration of 3, 6, and 9μg/mL for 24 h, the percentage of Go/G1 phase cells was decreased and that of G2/M phase cells was significantly increased （P = 0.002） compared with those in the group, When cells were treated with allitridi at the concentration of 6μg/mL, cell mitotic index was much higher （P = 0.003） than that of control group, indicating that allitridi could cause gastric cancer cell arrest in M phase, Besides, the expression levels of p21^WAF1 gene of MGC803 cells and p21^WAF1 gene of SGC7901 cells were remarkably upregulated after treatment, CONCLUSION： Allitridi can cause gastric cancer cell arrest in M phase, and this may be one of the mechanisms for inhibiting cell proliferation, Effect of allitridi on cells in M phase may be associated with the upregulation of p21^WAF1 genes. This study provides experimental data for clinical use of allitridi in the treatment of gastric carcinoma.

关键词： Allitridi Gastric cancer cells Cell cycle p21^WAF1

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Role of Diabetes Mellitus on Treatment Effects in Drug-susceptible Initial Pulmonary Tuberculosis Patients in China

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Biomedical and Environmental Sciences 2017年第9期30卷 671-675页

作者： ma Yan HUANG mai ling li Tao DU Jian SHU Wei XIE Shi Heng WANG Hong Hong ZHU Guo Feng TAN Shou Yong FU Yan Yong ma li ping ZHANG lian Ying liU Fei Ying HU Dai Yu ZHANG Yan ling li Xiang Qun liU Yu Hong li liang Beijing Chest Hospital Capital Medical UniversityBeijing 101149China Beijing Tuberculosis and Thoracic Tumor Research Institute Beijing 101149China Administration Office Clinical Center on Tuberculosis ControlChinese Center for Disease Control and PreventionBeijing 101149China National Center for Tuberculosis Control and Prevention Chinese Center for Disease Control and PreventionBeijing 102206China Shanghai Municipal Center for Disease Control and Prevention Shanghai 200336China Guangzhou Chest Hospital Guangzhou 510095GuangdongChina Tianjin Centers for Disease Control and Prevention Tianjin 300041China Department of TB Control Henan Center for Disease Control and PreventionZhengzhou 450016HenanChina Hebei Center for Disease Control and Prevention Shijiazhuang 050021HebeiChina Department of TB Control Guangxi Center for Disease Control and PreventionNanning 530021GuangxiChina Chongqing Anti-tuberculosis Institute Chongqing 400050China Yunnan Center for Disease Control and Prevention Kunming 650022YunnanChina

We assessed the role of diabetes mellitus（DM） on treatment effects in drug‐susceptible initial pulmonary tuberculosis（PTB） patients. A prospective study was conducted in eight provinces of China from October 2008 to December 2010. We enrolled 1,313 confirmed drug‐susceptible initial PTB patients, and all subjects received the treatment regimen（2 H3 R3 E3 Z3/4 H3 R3） as recommended by the national guidelines. Of the 1,313 PTB patients, 157（11.9%） had DM; these patients had more sputum smear‐positive rates at the end of the second month [adjusted odds ratios（aO R） 2.829, 95% confidence intervals（CI） 1.783‐4.490], and higher treatment failure（aO R 2.120, 95% CI 1.565‐3.477） and death rates（aO R 1.536, 95% CI 1.011‐2.628）. DM was a contributing factor for culture‐positive rates at the end of the second month and treatment failure and death of PTB patients, thus playing an unfavorable role in treatment effects of PTB.

关键词： Tuberculosis Diabetes mellitus Treatment outcome

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