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Prediction of Intrinsically Disordered Proteins with a Low Computational Complexity Method

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Computer Modeling in Engineering & Sciences 2020年第10期125卷 111-123页

作者： jia Yang Haiyuan Liu hao He Nankai University School of Electronic Information and Optical EngineeringTianjin Key Laboratory of Optoelectronic Sensor and Sensing Network TechnologyTianjin300350China Hebei University of Technology Tianjin300400China

The prediction of intrinsically disordered proteins is a hot research area in *** to the high cost of experimental methods to evaluate disordered regions of protein sequences,it is becoming increasingly important to predict those regions through computational *** this paper,we developed a novel scheme by employing sequence complexity to calculate six features for each residue of a protein sequence,which includes the Shannon entropy,the topological entropy,the sample entropy and three amino acid preferences including Remark 465,Deleage/Roux,and Bfactor(2STD).Particularly,we introduced the sample entropy for calculating time series complexity by mapping the amino acid sequence to a time series of *** our knowledge,the sample entropy has not been previously used for predicting IDPs and hence is being used for the first time in our *** addition,the scheme used a properly sized sliding window in every protein sequence which greatly improved the prediction ***,we used seven machine learning algorithms and tested with 10-fold cross-validation to get the results on the dataset R80 collected by Yang et *** of the dataset DIS1556 from the Database of Protein Disorder(DisProt)(https://***)containing experimentally determined intrinsically disordered proteins(IDPs).The results showed that k-Nearest Neighbor was more appropriate and an overall prediction accuracy of 92%.Furthermore,our method just used six features and hence required lower computational complexity.

关键词： Bioinformatics intrinsically disordered proteins machine learning algorithms sequences computational complexity

Influence of substrate metals on the crystal growth of AlN films

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International Journal of Minerals,Metallurgy and Materials 2010年第1期17卷 98-103页

作者： Juan Xiong hao-shuang Gu Kuan hu Ming-zhe hu School of Physics and Electronic Technology Hubei University Wuhan 430062 China

AlN films were deposited by reactive radio frequency （RF） sputtering on various bottom electrodes, such as Al, Ti, Mo, Au/Ti, and Pt/Ti. The effects of substrate metals on the orientation of AlN thin films were investigated. The results of X-ray diffraction, atomic force microscopy, and field emission scanning electron microscopy show that the orientation of AlN films depends on the kinds of substrate metals evidently. The differences of AlN films deposited on various metal electrodes are attributed to the differences in lattice mismatch and thermal expansion coefficient between the AlN material and substrate metals. The AlN film deposited on the Pt/Ti electrode reveals highly the c-axis orientation with well-textured columnar structure. The positive role of the Pt/Ti electrode in achieving the high-quality AlN films and high-performance film bulk acoustic resonator （FBAR） may be attributed to the smaller lattice mismatch as well as the similarity of thermal expansion coefficient between the deposited AlN material and the Pt/Ti electrode substrate.

关键词： AlN films substrate orientation crystallinity

A Ruin Model with Compound Poisson Income and Dependence Between Claim Sizes and Claim Intervals

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Acta Mathematicae Applicatae Sinica 2015年第2期31卷 445-452页

作者： Yuan-yuan hao hu YANG Department of Statistics and Actuarial Science Chongqing University College of Mathematics Chongqing Normal University

We consider a ruin model with random income and dependence between claim sizes and claim intervals. In this paper, we extend the determinate premium income into a compound Poisson process and assume that the distribution of the time between two claim occurrences depends on the previous claim *** the premium size is exponentially distributed, the（Gerber-Shiu） discounted penalty functions is ***, we consider a similar model.

关键词： discounted penalty function laplace transform ruin model dependence

Phosphorylation of PHF2 by AMPK releases the repressive H3K9me2 and inhibits cancer metastasis

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Signal Transduction and Targeted Therapy 2023年第4期8卷 1857-1873页

作者： Ying Dong hao hu Xuan Zhang Yunkai Zhang Xin Sun Hanlin Wang Weijuan Kan Min-jia Tan Hong Shi Yi Zang jia Li State Key Laboratory of Drug Research Shanghai Institute of Materia MedicaChinese Academy of SciencesShanghai 201203China University of Chinese Academy of Sciences Beijing 100049China School of Pharmacy Henan UniversityKaifeng 475004China Department of Pharmacology Fudan UniversityShanghai 201203China Department of Anesthesiology Shanghai Pulmonary HospitalSchool of MedicineTongji UniversityShanghai 200433China Lingang laboratory Shanghai 201203China School of Pharmaceutical Science and Technology Hangzhou Institute for Advanced StudyUniversity of Chinese Academy of SciencesHangzhou 310024China Shandong Laboratory of Yantai Drug Discovery Bohai Rim Advanced Research Institute for Drug DiscoveryYantaiShandong 264117China Open Studio for Druggability Research of Marine Natural Products Pilot National Laboratory for Marine Science and Technology(Qingdao)1 Wenhai RoadAoshanweiJimoQingdao 266237China

Epithelial to mesenchymal transition (EMT) plays a crucial role in cancer metastasis, accompanied with vast epigenetic ***-activated protein kinase (AMPK), a cellular energy sensor, plays regulatory roles in multiple biological processes. Although afew studies have shed light on AMPK regulating cancer metastasis, the inside epigenetic mechanisms remain unknown. Herein weshow that AMPK activation by metformin relieves the repressive H3K9me2-mediated silencing of epithelial genes (e.g., CDH1)during EMT processes and inhibits lung cancer metastasis. PHF2, a H3K9me2 demethylase, was identified to interact with AMPKα*** deletion of PHF2 aggravates lung cancer metastasis and abolishes the H3K9me2 downregulation and anti-metastasis effectof metformin. Mechanistically, AMPK phosphorylates PHF2 at S655 site, enhancing PHF2 demethylation activity and triggering thetranscription of CDH1. Furthermore, the PHF2-S655E mutant that mimics AMPK-mediated phosphorylation status further reducesH3K9me2 and suppresses lung cancer metastasis, while PHF2-S655A mutant presents opposite phenotype and reverses the antimetastasiseffect of metformin. PHF2-S655 phosphorylation strikingly reduces in lung cancer patients and the higherphosphorylation level predicts better survival. Altogether, we reveal the mechanism of AMPK inhibiting lung cancer metastasis viaPHF2 mediated H3K9me2 demethylation, thereby promoting the clinical application of metformin and highlighting PHF2 as thepotential epigenetic target in cancer metastasis.

关键词： metastasis lung cancer

Science Letters:Multi-frequency proportional-resonant (MFPR) current controller for PWM VSC under unbalanced supply conditions

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Journal of Zhejiang University-Science A(Applied Physics & Engineering) 2007年第10期8卷 1527-1531页

作者： hu jia-bing HE Yi-kang Sehool of Eleetrieal Engineering Zhejiang University Hangzhou 310027 China

This letter presents a multi-frequency proportional-resonant （MFPR） current controller developed for PWM voltage source converter （VSC） under the unbalanced supply voltage conditions. The delta operator is used in place of the shift operator for the implementation of MFPR by using a low-cost fixed-point DSE The experimental results with an alternative control strategy validated the feasibility of the proposed MFPR current controller for the PWM VSC during voltage unbalance.

关键词： PWM VSC Multi-frequency proportional-resonant (MFPR) Voltage unbalance

Design,fabrication,and testing of an X-band 9-MeV standing-wave electron linear accelerator

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Nuclear Science and Techniques 2023年第7期34卷 219-230页

作者： jian Gao hao Zha jia-Ru Shi Qiang Gao Xian-Cai Lin Fang-Jun hu Qing-Zhu Li huai-Bi Chen Department of Engineering Physics Tsinghua UniversityBeijing 100084China Key Laboratory of Particle and Radiation Imaging(Tsinghua University) Ministry of EducationBeijing 100084China

In this study,an X-band standing-wave biperiodic linear accelerator was developed for medical radiotherapy that can accel-erate electrons to 9 MeV using a 2.4-MW *** structure works atπ/2 mode and adopts magnetic coupling between cavities,generating the appropriate adjacent mode separation of 10 *** accelerator is less than 600-mm long and constitutes four bunching cells and 29 normal *** optimizations,full-scale radiofrequency(RF)simulations,and beam dynamics calculations were *** accelerator was fabricated and examined using a low-power RF *** cold test results showed a good agreement with the simulation and actual measurement *** the high-power RF test,the output beam current,energy spectrum,capture ratio,and spot size at the accelerator exit were *** the input power of 2.4 MW,the pulse current was 100 mA,and the output spot root-mean-square radius was approximately 0.5 *** output kinetic energy was 9.04 MeV with the spectral FWHM of 3.5%,demonstrating the good performance of this accelerator.

关键词： Standing-wave accelerating structure RF analysis Thermal DC gun Low-power RF test High-power experiment

Classification using wavelet packet decomposition and support vector machine for digital modulations

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Journal of Systems Engineering and Electronics 2008年第5期19卷 914-918页

作者： Zhao Fucai hu Yihua hao Shiqi Hefei Inst. of Electronic Engineering Hefei 230037 P. R. China

To make the modulation classification system more suitable for signals in a wide range of signal to noise rate （SNR）, a feature extraction method based on signal wavelet packet transform modulus maxima matrix （WPTMMM） and a novel support vector machine fuzzy network （SVMFN） classifier is presented. The WPTMMM feature extraction method has less computational complexity, more stability, and has the preferable advantage of robust with the time parallel moving and white noise. Further, the SVMFN uses a new definition of fuzzy density that incorporates accuracy and uncertainty of the classifiers to improve recognition reliability to classify nine digital modulation types （i.e. 2ASK, 2FSK, 2PSK, 4ASK, 4FSK, 4PSK, 16QAM, MSK, and OQPSK）. Computer simulation shows that the proposed scheme has the advantages of high accuracy and reliability （success rates are over 98% when SNR is not lower than 0dB）, and it adapts to engineering applications.

关键词： modulation classification wavelet packet transform modulus maxima matrix support vector machine,fuzzy density.

Microstructure and Thermoelectric Properties of Bi- and Cu-Substituted Ca_3Co_4O_9 Oxides

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Journal of Materials Science & Technology 2009年第1期25卷 105-108页

作者： haoshan hao Limin Zhao Xing hu Department of Mathematical and Physical Sciences Henan Institute of Engineering Zhengzhou 451191 China School of Physical Engineering and Material Physics Laboratory Zhengzhou University Zhengzhou 450052 China

Bi- and Cu-substituted Ca3Co4O9 samples were prepared by conventional solid-state reaction method and the effect of element substitution on the microstructures and thermoelectric properties was investigated. Partial substitution of Cu for Co leads to an increase in electrical conductivity and a decrease in Seebeck coefficient due to the rise of hole concentration. The microstructure of Cu-substituted sample is almost unchanged compared with undoped Ca3Co4O9. On the other hand, partial substitution of Bi for Ca gives rise to a significant increase in the grain size, and c-axis-oriented structure can be formed in Ca2.7Bi0.3Co4O9, resulting in an obvious increase in electrical conductivity. Cu and Bi co-substitution further increases the grain growth and the electrical conductivity of Ca2.7Bi0.3Co3.7Cu0.3O9. Thus, Cu and Bi co-substitution samples possess the optimal thermoelectric performance at high temperature and the highest value of power factor can reach 3.1×10^-4 Wm^-1.K^-2 at 1000 K.

关键词： Ca3Co4O9 Element substitution Microstructure Thermoelectric properties

Optimal Assimilation of Microwave Upper-Level Sounding Data in CMA-GFS

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Advances in Atmospheric Sciences 2024年第10期41卷 2043-2060页

作者： Changjiao DONG hao hu Fuzhong WENG School of Atmospheric Physics Nanjing University of Information Science and TechnologyNanjing 210044China CMA Earth System Modeling and Prediction Centre(CEMC) China Meteorological AdministrationBeijing 100081China State Key Laboratory of Severe Weather Chinese Academy of Meteorological SciencesBeijing 100081China

Various approaches have been proposed to minimize the upper-level systematic biases in global numerical weather prediction(NWP)models by using satellite upper-air sounding channels as ***,since the China Meteorological Administration Global Forecast System(CMA-GFS)has a model top near 0.1 hPa(60 km),the upper-level temperature bias may exceed 4 K near 1 hPa and further extend to 5 *** this study,channels 12–14 of the Advanced Microwave Sounding Unit A(AMSU-A)onboard five satellites of NOAA and METOP,whose weighting function peaks range from 10 to 2 hPa are all used as anchor observations in *** is shown that the new“Anchor”approach can effectively reduce the biases near the model top and their downward propagation in three-month assimilation *** bias growth rate of simulated upper-level channel observations is reduced to±0.001 K d^(–1),compared to–0.03 K d^(–1)derived from the current dynamic correction *** relatively stable bias significantly improves the upper-level analysis field and leads to better global medium-range forecasts up to 10 days with significant reductions in the temperature and geopotential forecast error above 10 hPa.

关键词： CMA-GFS upper-level model bias anchoring bias correction satellite microwave data assimilation