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| 1 | A partition-ligation-combination-subdivision EM algorithm for haplotype inference with multiallelic markers: update of the SHEsis (http://analysis.bio-x.cn)显示文摘 | Zhiqiang Li Zhao Zhang Zangdong He Wei Tang Tao Li Zhen Zeng Lin He Yongyong Shi | 2009 | Cell Research2009，19，4： | 122 |
| 2 | Nanolubricant additives: A review显示文摘Using nanoadditives in lubricants is one of the most effective ways to control friction and wear,which is of great significance for energy conservation,emission reduction,and environmental protection.With the scientific and technological development,great advances have been made in nanolubricant additives in the scientific research and industrial applications.This review summarizes the categories of nanolubricant additives and illustrates the tribological properties of these additives.Based on the component elements of nanomaterials,nanolubricant additives can be divided into three types:nanometal-based,nanocarbon-based,and nanocomposite-based additives.The dispersion stabilities of additives in lubricants are also discussed in the review systematically.Various affecting factors and effective dispersion methods have been investigated in detail.Moreover,the review summarizes the lubrication mechanisms of nanolubricant additives including tribofilm formation,micro-bearing effect,self-repair performance,and synergistic effect.In addition,the challenges and prospects of nanolubricant additives are proposed,which guides the design and synthesis of novel additives with significant lubrication and antiwear properties in the future. | Jun ZHAO Yiyao HUANG Yongyong HE Yijun SHI | 2021 | Friction2021，9，5： | 9 |
| 3 | SHEsisEpi, a GPU-enhanced genome-wide SNP-SNP interaction scanning algorithm, efficiently reveals the risk genetic epistasis in bipolar disorder显示文摘 | Xiaohan Hu Qiang Liu Zhao Zhang Zhiqiang Li Shilin Wang Lin He Yongyong Shi | 2010 | Cell Research2010，20，7： | 5 |
| 4 | Shape and position of Earth's bow shock near-lunar orbit based on ARTEMIS data显示文摘Earth's bow shock is the result of interaction between the supersonic solar wind and Earth's magnetopause. However, data limitations mean the model of the shape and position of the bow shock are based largely on near-Earth satellite data. The model of the bow shock in the distant magnetotail and other factors that affect the bow shock, such as the interplanetary magnetic field(IMF) B_y, remain unclear. Here, based on the bow shock crossings of ARTEMIS from January 2011 to January 2015, new coefficients of the tail-flaring angle a of the Chao model(one of the most accurate models currently available) were obtained by fitting data from the middle-distance magnetotail(near-lunar orbit, geocentric distance -20R_E>X>-50R_E). In addition, the effects of the IMF B_y on the flaring angle a were analyzed. Our results showed that:(1) the new fitting coefficients of the Chao model in the middle-distance magnetotail are more consistent with the observed results;(2) the tail-flaring angle a of the bow shock increases as the absolute value of the IMF B_y increases. Moreover, positive IMF B_y has a greater effect than negative IMF B_y on flaring angle. These results provide a reference for bow shock modeling that includes the IMF B_y. | LIU Ji SHI QuanQi TIAN AnMin Lü JianYong WU Hao WANG Ming FU SuiYan YANG YuChen ZONG QiuGang ZHANG Jiang FENG YongYong PU ZuYin | 2016 | Science China Earth Sciences2016，59，8： | 3 |
| 5 | Development of retinol-binding protein 4 immunocolloidal gold fast test strip using high-sensitivity monoclonal antibodies generated by DNA immunization显示文摘DNA 免疫是为高亲密关系的 monoclonal 抗体产生的一个有效方法。这里,我们对松香油绑定蛋白质 4 描述几高质量的 monoclonal 抗体(mAbs ) 的产生(RBP4 ) ,为肾反常和机能障碍的一个重要标记,与 DNA 的一个联合方法, priming 和蛋白质增加。产生的 mAbs 能与高敏感并且用这些 mAbs 绑在 RBP4,一块 immunocolloidal 金牌快测试长带被构造。长带能交上结果 < 5 min 并且与大约 1 ng/ml 的察觉限制是很敏感的。小规模的临床的测试表明这脱衣的结果根据在市场上当前可得到的一个标记酶的 immunosorbent 试金工具包的好。因而,它能为在诊所的更方便、更快的 RBP4 决心是有用的。 | Chao Bian Fang Zhang Feng Wang Zhiyang Ling Min Luo Hongqiang Wu Yizhuo Sun Junhui Li B ingnan Li Jingyan Zhu Linna Tang Yanyan Zhou Qunfang Shi Yongyong Ji Lin Tian Guomei Lin Yu Fan Niansong Wang Bing Sun | 2010 | Acta Biochimica et Biophysica Sinica2010，42，12： | 2 |
| 6 | Structural Comparison and Drug Screening of Spike Proteins of Ten SARS-CoV-2 Variants显示文摘SARS-CoV-2(severe acute respiratory syndrome coronavirus 2)has evolved many variants with stronger infectivity and immune evasion than the original strain,including Alpha,Beta,Gamma,Delta,Epsilon,Kappa,lota,Lambda,and 21H strains.Amino acid mutations are enriched in the spike protein of SARS CoV-2.which plays a crucial role in cell infetion.However,the impact of these mutations on protein structure and function is unclear.Understanding the pathophysiology and pandemic feaures of these SARS-CoV-2 variants requires knowledge of the spike protein structures.Here,we obtained the spike protein structures of 10 main globally endemic SARS CoV-2 strains using AlphaFold2.The clustering analysis based on structural similarity revealed the unique features of the mainly pandemic SARS CoV-2 Delta variants.indicating that structural clusters can reflect the current characteristics of the epidemic more accurately than those based on the protein sequence.The analysis of the binding afinities of ACE2-RBD,antibody-NTD,and antibody-RBD complexes in the different variants revealed that the recognition of antibodies against SI NTD and RBD was decreased in the variants,especally the Delta variant compared with the original strain,which may induce the immune evasion of SARS-CoV-2 variants.Furthermore,by virtual screening the ZINC database against a high-accuracy predicted structure of Delta spike protein and experimental validation,we identified multiple compounds that target S1 NTD and RBD,which might contribute towards the development of clinical anti-SARS-CoV-2 medicines.Our findings provided a basic foundation for future in vitro and in vivo investigations that might speed up the development of potential therapies for the SARS-CoV-2 va riants. | Qiangzhen Yang Xuemin Jian Ali Alamdar Shah Syed Aamir Fahira Chenxiang Zheng zijia Zhu Ke Wang Jinmai Zhang Yangin Wen Zhiqiang Li Dun Pan Tingting Lu Zhuo Wang Yongyong Shi | 2022 | Research2022，，2： | 2 |
| 7 | Decoding psychosis:from national genome project to national brain project显示文摘The mind has puzzled humans for centuries,and its disorders,such as psychoses,have caused tremendous difficulties.However,relatively recent biotechnological breakthroughs,such as DNA technology and neuroimaging,have empowered scientists to explore the more fundamental aspects of psychosis.From searching for psychosis-causing genes to imaging the depths of the brain,scientists worldwide seek novel methods to understand the mind and the causes of its disorders.This article will briefly review the history of understanding and managing psychosis and the main findings of modern genetic research and then attempt to stimulate thought for decoding the biological mechanisms of psychosis in the present era of brain science. | Liya Sun Manfei Xu Yongyong Shi Yifeng Xu Jinghong Chen Lin He | 2022 | General Psychiatry2022，35，4： | 1 |
| 8 | Positive association of the human GABA-A-receptor beta 2 subunit gene haplotype with schizophrenia in the Chinese Han population显示文摘 | Jixia Liu Yongyong Shi Wei Tang Tingwei Guo Dawei Li Yifeng Yang Xinzhi Zhao Hongsheng Wang Xingwang Li Guoyin Feng Niufan Gu Shaomin Zhu Huijun Liu Yangling Guo Jianguo Shi Hong Sang Lijuan Yan Lin He | 2005 | Biochemical and Biophysical Research Communications2005，，3： | 1 |
| 9 | Differences in CYP3A4 ? 1G genotype distribution and haplotypes of CYP3A4 , CYP3A5 and CYP3A7 in 3 Chinese populations显示文摘 | Jing Du Lan Yu Lei Wang Aiping Zhang Anli Shu Lingyun Xu Mingsheng Xu Yongyong Shi Xingwang Li Guoyin Feng Qinghe Xing Lin He | 2007 | Clinica Chimica Acta2007，，1： | 1 |
| 10 | Systematic screening for polymorphisms in the CYP3A4 gene in the Chinese population显示文摘 | Jing Du Qinghe Xing Lingyun Xu Mingsheng Xu Anli Shu Yongyong Shi Lan Yu Aiping Zhang Lei Wang Hongsheng Wang Xingwang Li Guoyin Feng Lin He | 2006 | Pharmacogenomics2006，，6： | 1 |
| 11 | SNPs and haplotypes in the S100B gene reveal association with schizophrenia显示文摘 | Jixia Liu Yongyong Shi Junxia Tang | 2005 | Biothem Biophys Res Commun2005，328，1： | 1 |
| 12 | Structural Analysis of the SARS-CoV-2 Omicron Variant Proteins显示文摘The spread of the latest SARS-CoV-2 variant Omicron is particularly concerning because of the large number of mutations present in its genome and lack of knowledge about how these mutations would affect the current SARS-CoV-2 vaccines and treatments.Here,by performing phylogenetic analysis using the Omicron spike(S)protein sequence,we found that the Omicron S protein presented the longest evolutionary distance in relation to the other SARS-CoV-2 variants.We predicted the structures of S,M,and N proteins of the Omicron variant using AlphaFold2 and investigated how the mutations have affected the S protein and its parts,S1 NTD and RBD,in detail.We found many amino acids on RBD were mutated,which may influence the interactions between the RBD and ACE2,while also showing the S309 antibody could still be capable of neutralizing Omicron RBD.The Omicron S1 NTD structures display significant differences from the original strain,which could lead to reduced recognition by antibodies resulting in potential immune escape and decreased effectiveness of the existing vaccines.However,this study of the Omicron variant was mainly limited to structural predictions,and these findings should be explored and verified by subsequent experiments.This study provided basic data of the Omicron protein structures that lay the groundwork for future studies related to the SARS-CoV-2 Omicron variant. | Qiangzhen Yang Ali Alamdar Shah Syed Aamir Fahira Yongyong Shi | 2021 | Research2021，，1： | 1 |
| 13 | Genetic variants at 5p15 are associated with risk and early onset of gastric cancer in Chinese populations显示文摘 | Jiangbo Du Yaochu Xu Juncheng Dai Chuanli Ren Chen Zhu Ningbin Dai Hongxia Ma Yongyong Shi Zhibin Hu Dongxin Lin Hongbing Shen Guangfu Jin | 2013 | Carcinogenesis2013，，11： | 1 |
| 14 | Significant Association Between the Genetic Variationsin the 5' end of the N-Methyl-D-Aspartate Receptor Subunit Gene GRIN1 and Schizophrenia显示文摘 | ZHAO XINZHI LI HUAFANG SHI YONGYONG | 2006 | Biol Psychiatry2006，59，8： | 1 |
| 15 | Biological data processing based on bio-processor unit(BPU), a new concept for next generation computational biology显示文摘The revolution of biotechnology has pushed forward life sciences into the Big Data era.Particularly,high-throughput bio-techniques have greatly accelerated the integration of biology,computing and informatics,and hence substantially pushed forward the development of bioinformatics and computational biology.According to the latest report of data deposition within National Centre for Biotechnology Information(NCBI),the genome sequencing projects have increased 49.94%,the sequence reads generated from next generation sequencing have increased 44.37%and the protein sequences have increased 39.85%,compared with | Di Liu Dongbo Bu Tieliu Shi Jianxiao Quan Depeng Wang Yongyong Shi Xiao-Chen Bo Wenbao Han | 2018 | Science China(Life Sciences)2018，61，5： | 0 |
| 16 | Scrutinizing the causal relationship between schizophrenia and vitamin supplementation:a Mendelian randomization study显示文摘Objective: Observational studies have reported malnutrition and vitamin deficiency in patients with schizophrenia (SZ), which can lead to serious metabolic syndromes and decrease anti-psychiatric drug outcomes. Whereas, vitamin intake along with psychiatric medication can enhance the medication outcomes. However, it is still unknown if SZ induces vitamin deficiency. Herein, we conduct the Mendelian randomization analysis to explore the causal relationship between schizophrenia and vitamins supplementation.Methods: We retrieved the genome-wide summary statistical data for schizophrenia from recent SZ GWAS data (43,175 cases and 65,166 controls) and vitamins supplementation GWAS data from Neale’s GWAS datasets (more than 337,000 samples from the European population) and performed a two-sample Mendelian randomization analysis to determine the causal association of SZ with vitamin supplementation, in addition, we conduct the sensitivity analysis to obtain reliable results and remove confounding bias.Results: SZ have causal relationships with vitamins A, B, C, D, and E (SZ/vitamin A: β = 0.002, se= 0.001, 95% confidence interval (CI): 0.001 to 0.004,P= 1.41E-05, heterogeneityP= 0.4486;SZ/vitamin B: β= 0.004, se= 0.001, 95% CI: 0.002-0.005,P= 7.0E-05, heterogeneityP= 0.2217;SZ/vitamin C: β= 0.004, se= 0.001, 95% CI: 0.002-0.007,P= 0.001, heterogeneityP= 0.1349;SZ/vitamin D: β= 0.003, se= 0.001, 95% CI: 0.002-0.005,P= 0.001, heterogeneityP= 0.433;SZ/vitamin E: β= 0.003, se= 0.001, 95% CI: 0.002-0.005,P= 5.0E-05, heterogeneityP= 0.1382).Conclusion: Our findings suggest that vitamin levels and supplementation should be carefully controlled in patients with SZ, which in turn may enhance the therapeutic effects of antipsychotic drug treatments. | Aamir Fahira Zijia Zhu Zhiqiang Li Yongyong Shi | 2022 | Journal of Bio-X Research2022，5，1： | 0 |
| 17 | SHEsis PCA: A GPU-Based Software to Correct for Population Stratification that Efficiently Accelerates the Process for Handling Genome-Wide Datasets显示文摘Population stratification is a problem in genetic association studies because it is likely to highlight loci that underlie the population structure rather than disease-related loci. At present, principal component analysis(PCA) has been proven to be an effective way to correct for population stratification. However, the conventional PCA algorithm is time-consuming when dealing with large datasets. We developed a Graphic processing unit(GPU)-based PCA software named SHEsis PCA(http://analysis.bio-x.cn/SHEsis Main.htm) that is highly parallel with a highest speedup greater than 100 compared with its CPU version. A cluster algorithm based on X-means was also implemented as a way to detect population subgroups and to obtain matched cases and controls in order to reduce the genomic inflation and increase the power. A study of both simulated and real datasets showed that SHEsis PCA ran at an extremely high speed while the accuracy was hardly reduced. Therefore, SHEsis PCA can help correct for population stratification much more efficiently than the conventional CPU-based algorithms. | Jiawei Shen Zhiqiang Li Yongyong Shi | 2015 | Journal of Genetics and Genomics2015，42，8： | 0 |
| 18 | Wideband polarization-independent anomalous reflection metasurface with multiple resonance modes显示文摘An ultra-thin metasurface is proposed to realize wideband polarization-independent anomalous reflection. The sub-wavelengthresonator can produce different resonance modes, which are the result of the combined effect of dielectric and the metallic structure.The gradient metasurface is done by six discrete orientation of the local sub-wavelength resonator which provides a phase gradient.The simulation and measured results show that 9 GHz bandwidth of the anomalous reflection is achieved. | Guoxiang Dong Song Xia Yongyong Zhuang Hongyu Shi Zhan Zhang Yuchen He Anxue Zhang Xiaoyong Wei Zhuo Xu | 2017 | Journal of Advanced Dielectrics2017，7，2： | 0 |
| 19 | Structural Analysis of the SARS-CoV-2 Omicron Variant Proteins显示文摘The spread of the latest SARS-CoV-2 variant Omicron is particularly concerning because of the large number of mutations present in its genome and lack of knowledge about how these mutations would affect the current SARS-CoV-2 vaccines and treatments.Here,by performing phylogenetic analysis using the Omicron spike(S)protein sequence,we found that the Omicron Sprotein presented thelongest evolutionary distance in relation totheother SARS-CoV-2variants.We predicted the structures of S,M,and N proteins of the Omicron variant using AlphaFold2 and investigated how the mutations have affected the S protein and its parts,SI NTD and RBD,in detail.We found many amino acids on RBD were mutated,which may infuence the interactions between the RBD and ACE2,while also showing the S309 antibody could stllbe capable of neutralizing Omicron RBD.The Omicron SI NTD structures display significant differences from the original strain,which could lead toreduced recognition by antibodies resulting in potential immune escape and decreased efectiveness ofthe existing vaccines.However,this study of the Omicron variant was mainly limited to structural predictions,and these findings should be explored and verifed by subsequent experiments.This study provided basic data of the Omicron protein structures that lay the groundwork for future studies related to the SARS-CoV-2 Omicron variant. | Qiangzhen Yang AliAlamdar Shah Syed amir Fahira Yongyong Shi | 2022 | Research2022，，2： | 0 |
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