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| 1 | A High-Density SNP Genotyping Array for Rice Biology and Molecular Breeding显示文摘一个高密度的单个核苷酸多型性(SNP ) 数组为遗传学者和分子的 breeders.With 是极其重要的 genomic 的巨大的数量的累积重新定序为精确 SNP 察觉的数据和可得到的技术,设计高密度、高质量的米饭 SNP 数组是可能的。这里,我们报导一个高密度的 riceSNP 数组和它的实用程序的开发。SNP 探针被屏蔽超过 10 设计从变化和一个数组说出 RiceSNP50 的 801 米饭的 re-sequencingdata 提取的 000 000 SNP loci 在 Illumina Infinium 站台上被生产。数组 contained51 478 个均匀地分布式的标记,其 68% 个在遗传因子的区域以内。有 parent/F1 relationshipswere 的几百米饭植物过去常为精确 SNP 打电话产生一个高质量的簇文件。应用程序测试证明这穿有的 highgenotyping 精确性,并且能被用于不同目的。例如,有好分辨率的精英米饭变化 wasclustered 的一个核心集合。染色体宽的协会研究(GWAS ) 分析正确地识别了描绘的 QTL.Further,这个数组成功地为变化确认和特点基因渗入被使用。作为一个精确 high-throughputgenotyping 工具, RiceSNP50 将在两功能的 genomics 学习和分子的 breeding.Key 词起一个重要作用: | Haodong Chen Weibo Xie Hang He Huihui Yu Wei Chen Jing Li Renbo Yu Yue Yao Wenhui Zhang Yuqing He Xiaoyan Tang Fasong Zhou Xing Wang Deng Qifa Zhang | 2014 | Molecular Plant2014，7，3： | 38 |
| 2 | Screen efficiency comparisons of decision tree and neural network algorithms in machine learning assisted drug design显示文摘In view of huge search space in drug design, machine learning has become a powerful method to predict the affinity between small molecular drug and targeting protein with the development of artificial intelligence technology. However, various machine learning algorithms including massive different parameters make the prediction framework choice to be quite difficult. In this work, we took a recent drug design competition(from XtalPi company on the DataCastle platform) as the typical case to find the optimized parameters for different machines learning algorithms and the most effective algorithm. After the parameter optimizations, we compared the typical machine learning methods as decision tree(XGBoost, LightGBM) and artificial neural network(MLP, CNN) with root-mean-square error(RMSE) and coefficient of determination(R^2) evaluation. As a result, decision tree is more effective than the neural network as LightGBM>XGBoost>CNN>MLP in the affinity prediction of the specific drug design problem with ~160000 samples. For a much larger screening task in a more complicated drug design study, the sophisticated neural network model may go beyond the decision tree algorithm after generalization enhancing and overfitting reducing. The advanced machine learning methods could extract more information of protein-ligand bindings than traditional ones and improve the screen efficiency of drug design up to 200–1000 times. | Qiumei Pu Yinghao Li Hong Zhang Haodong Yao Bo Zhang Bingji Hou Lin Li Yuliang Zhao Lina Zhao | 2019 | Science China Chemistry2019，62，4： | 5 |
| 3 | Advances in 3D bioprinting technology for cardiac tissue engineering and regeneration显示文摘Cardiovascular disease is still one of the leading causes of death in the world,and heart transplantation is the current major treatment for end-stage cardiovascular diseases.However,because of the shortage of heart donors,new sources of cardiac regenerative medicine are greatly needed.The prominent development of tissue engineering using bioactive materials has creatively laid a direct promising foundation.Whereas,how to precisely pattern a cardiac structure with complete biological function still requires technological breakthroughs.Recently,the emerging three-dimensional(3D)bioprinting technology for tissue engineering has shown great advantages in generating micro-scale cardiac tissues,which has established its impressive potential as a novel foundation for cardiovascular regeneration.Whether 3D bioprinted hearts can replace traditional heart transplantation as a novel strategy for treating cardiovascular diseases in the future is a frontier issue.In this review article,we emphasize the current knowledge and future perspectives regarding available bioinks,bioprinting strategies and the latest outcome progress in cardiac 3D bioprinting to move this promising medical approach towards potential clinical implementation. | Nanbo Liu Xing Ye Bin Yao Mingyi Zhao Peng Wu Guihuan Liu Donglin Zhuang Haodong Jiang Xiaowei Chen Yinru He Sha Huang Ping Zhu | 2021 | Bioactive Materials2021，6，5： | 4 |
| 4 | CD44 expression is a feature of prostatic small cell Carcinoma and Distinguishes it from its Mimickers显示文摘 | Rochelle A. Simon P. Anthony di Sant’Agnese Li-Shan Huang Haodong Xu Jorge L. Yao Qi Yang Sharon Liang Jinsong Liu Rena Yu Liang Cheng William K. Oh Ganesh S. Palapattu Jianjun Wei Jiaoti Huang | 2009 | Human Pathology2009，，2： | 1 |
| 5 | Broken electron transfer pathway in enzyme:Gold clusters inhibiting TrxR1/Trx via cell studies and theory simulations显示文摘Thioredoxin reductase 1(TrxR1)is over activity in tumor cell to maintain their redox balance.Although gold clusters have great potential in antitumor drug as they could well inhibit TrxR1,the molecular mechanism has not been disclosed yet.In this work,we revealed gold clusters can well inhibit the activity of TrxR1 in lung tumor cells and further disclosed the inhibition mechanism by using computational simulation methods.We firstly inferred the binding sites of gold in the hydrophobic cavities on TrxR1.The simulation results show that the gold ion(released from Au cluster)interact with–SH of Cys189 in TrxR1,this greatly increase the distance between the C-terminal redox center of TrxR1 and the Trx redox center,thereby destroy the electron transfer pathway between them.Our electron transfer destroying mechanism is different from the previous hypothesis that gold binds to the Sec498 of TrxR1 which has never been proved by experimental and theory studies.This work provides a new understanding of the gold clusters to inhibit TrxR1 activity. | Wenchao Niu Zhongying Du Chunyu Zhang Deting Xu Jiaojiao Li Minghui Sun Liyuan Wu Haodong Yao Lina Zhao Xueyun Gao | 2022 | Chinese Chemical Letters2022，33，7： | 0 |
| 6 | Tuning band structure of graphitic carbon nitride for efficient degradation of sulfamethazine: Atmospheric condition and theoretical calculation显示文摘Numerous approaches have been used to modify graphitic carbon nitride (g-C_(3)N_(4)) for improving its photocatalytic activity. In this study, we demonstrated a facial post-calcination method for modified graphitic carbon nitride (g-C_(3)N_(4)-Ar/Air) to direct tuning band structure, i.e., bandgap and positions of conduction band (CB)/valence band (VB), through the control of atmospheric condition without involving any additional elements or metals or semiconductors. The synthesized g-C_(3)N_(4)-Ar/Air could efficiently degrade sulfamethazine (SMT) under simulated solar light, i.e., 99.0% removal of SMT with rate constant k1 = 2.696 h-1 within 1.5 h (4.9 times than pristine g-C_(3)N_(4)). Material characterizations indicated that the damaged/partial-collapsed structure and decreased nanosheet-interlayer distance for g-C_(3)N_(4)-Ar/Air resulted in the shift of band structure due to the denser stacking of pristine g-C_(3)N_(4) through oxidative exfoliation and planarization by air calcination. In addition, the bandgap of g-C_(3)N_(4)-Ar/Air was slightly shrunk from 2.82 eV (pristine g-C_(3)N_(4)) to 2.79 eV, and the CB was significantly upshifted from -0.44 eV (pristine g-C_(3)N_(4)) to -0.81 eV, suggesting the powerful ability for donating the electrons for O_(2) to form ^(·)O_(2)^(-). Fukui index (f -) based on theoretical calculation indicated that the sites of SMT molecule with high values, i.e., N9, C4 and C6, preferred to be attacked by ^(·)O_(2)^(-) and ^(·)OH, which is confirmed by the intermediates’ analysis. The tuning method for graphitic carbon nitride provides a simple approach to regulate the charge carrier lifetime then facilitate the utilization efficiency of solar light, which exhibits great potential in efficient removal of emerging organic contaminants from wastewater. | Yue Liu Long Chen Xiaona Liu Tianwei Qian Meng Yao Wen Liu Haodong Ji | 2022 | Chinese Chemical Letters2022，33，3： | 0 |
| 7 | Study on the evaluation method of diffuse radiation models——taking 5 typical cities in China as examples显示文摘Diffuse solar radiation models play an extremely important role in solar photothermal utilization,resource assess-ment and energy consumption simulation,etc.The accuracy of these diffuse solar radiation models usually need to be evaluated by various statistical parameters.Among these statistical parameters,the Global Performance In-dex(GPI)has been extensively employed in recent years because of its comprehensiveness and wide applicability.This paper takes five cities in China as representatives of 5 typical climate regions,and 12 solar scattered radia-tion models are fitted with the meteorological data of 5 cities.Based on the comparative analysis of the existing GPI calculation methods,this paper points out that there are some defects in the existing GPI,and modifies the existing GPI based on the comprehensive consideration of statistical parameters,normalization preprocessing of statistical parameters,unified evaluation direction of parameters,weight redistribution of statistical parameters,and adjustment of extreme coefficient.12 types of new GPI are established in this paper,and the performance of diffuse solar radiation models are compared based on these GPI.The rationality of GPI corrective measures is analyzed by means of the method reasonable index(MRI).The results show that the GPI calculation method(N10)which takes five corrective measures has the best performance,and the accuracy of the existing GPI can be improved by 13.33 to 65%. | Gang Su Shuangyang Zhang Wanxiang Yao Mengru Hu Haodong Hao | 2023 | Energy and Built Environment2023，4，2： | 0 |
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