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sequence-based PROTEIN-PROTEIN INTERACTION PREDICTION VIA SUPPORT VECTOR MACHINE

Journal of Systems Science & Complexity 2010年第5期23卷 1012-1023页

作者： Yongcui WANG Jiguang WANG Zhixia YANG Naiyang DENG College of Science China Agricultural University Beijing 100083 China Key Laboratory of Adaptation and Evolution of Plateau Biota Northwest Institute of Plateau Biology Chinese Academy of Sciences Xining 810008 China Institute of Systems Science Academy of Mathematics and Systems Science Chinese Academy of Sciences Beijing 100190 China College of Mathematics and Systems Science Xinjiang University Urumuchi 830046 China College of Science China Agricultural University Beijing 100083 China

This paper develops sequence-based methods for identifying novel protein-protein interactions （PPIs） by means of support vector machines （SVMs）. The authors encode proteins ont only in the gene level but also in the amino acid level, and design a procedure to select negative training set for dealing with the training dataset imbalance problem, i.e., the number of interacting protein pairs is scarce relative to large scale non-interacting protein pairs. The proposed methods are validated on PPIs data of Plasmodium falciparum and Escherichia coli, and yields the predictive accuracy of 93.8% and 95.3%, respectively. The functional annotation analysis and database search indicate that our novel predictions are worthy of future experimental validation. The new methods will be useful supplementary tools for the future proteomics studies.

关键词： Imbalance problem protein-protein interactions sequence-based support vector machine.

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一种基于SBL和APIT的混合定位算法

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传感技术学报 2014年第8期27卷 1094-1099页

作者：韩睿松杨维北京交通大学电子信息工程学院北京100044

由于子区域分割粒度的限制,基于阶次序列的定位算法(sequence-based localization,SBL)存在边缘区域节点定位误差较大和不能保证平均定位误差性能的问题。针对这些问题,提出了一种基于SBL和APIT的混合定位算法,利用APIT信标三角形切割SB... 详细信息

由于子区域分割粒度的限制,基于阶次序列的定位算法(sequence-based localization,SBL)存在边缘区域节点定位误差较大和不能保证平均定位误差性能的问题。针对这些问题,提出了一种基于SBL和APIT的混合定位算法,利用APIT信标三角形切割SBL算法子区域,减小子区域面积,实现了分割粒度的细化。通过预先进行系统训练,优化了混合算法的加权系数,进一步提升了算法的定位精度。仿真结果表明,相比于原算法,所提出的混合算法有效地提升了边界区域节点的定位精度,其平均定位误差降低了17.9%,使基于阶次序列的定位算法的定位精度得到了有效改善。

关键词：无线传感器网络定位阶次序列近似三角形内点法 wireless sensor network( WSN) sequence-based localization( SBL) approximate point-in-triangulation test( APIT)

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Molecular detection of oxacillinase genes and typing of clinical isolates of Acinetobacter baumannii in Tehran, Iran

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Journal of Acute Disease 2020年第1期9卷 33-39页

作者： Mostafa Alavi-Moghaddam Mehran Dolati Abdolreza Javadi Bahareh Ghobadi Saki Morteza Karami-Zarandi Saeed Khoshnood Emergency Medicine Departent Shahid Beheshti University of Medical SciencesTehranIran Clinical Research Development Unit Imam Hossein HospitalShahid Beheshti University of Medical SciencesTehranIran Department of Microbiology School of MedicineTehran University of Medical SciencesTehranIran Student Research Committee School of MedicineAhvaz Jundishapur University of Medical SciencesAhvazIran

Objective:To determine patterns of antimicrobial resistance,analyze the prevalence of oxacillinase and molecular typing of strains of Acinetobacter baumannii(***).Methods:A total of 121 strains of *** were obtained from patients admitted to Imam Hossein and Imam Khomeini Hospitals,Tehran,Iran,from January 2016 to November *** susceptibility testing was performed by Kirby-Bauer disc diffusion method according to the Clinical and Laboratory Standards Institute *** presence of oxacillinase genes was assessed by polymerase chain reaction(PCR).To determine clonal relatedness,all isolates were subjected to repetitive sequence-based PCR(REP-PCR).Results:The isolates were obtained from 56(46.3%)males and 65(53.7%)females with the mean age of 39.5 *** with 100.0%sensitivity rate had the highest effect,while ceftriaxone with 16.5%sensitivity rate had the least effect on *** *** addition,96(79.3%)and 99(81.8%)isolates were resistant to imipenem and meropenem,respectively.A total of 109 isolates(90.0%)exhibited multiple drug resistance with 10 different *** total,75(75.7%)of carbapenem resistant isolates were positive for blaOXA-23-like,and 14(14.1%)for blaOXA-24-like *** five main clones A,B,C,D,and E were detected in 25(25.2%),36(36.4%),10(10.1%),8(8.0%),and 6(6.1%)of isolates,***:Carbapenem-resistant *** strains are high in the current *** control the spread of carbapenem-resistant *** strains,regular monitoring programs are needed.

关键词： Acinetobacter baumannii Multidrug resistance Oxacillinase Repetitive sequence-based PCR

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