Autonomous forward inference via DNA computing

Recent studies direct the researchers into building DNA computing machines with intelligence, which is measured by three main points: autonomous, programmable and able to learn and adapt. Logical inference plays an important role in programmable information processing or computing. Here we present a new method to perform autonomous molecular forward inference for expert system. A novel repetitive recognition site (RRS) technique is invented to design rule-molecules in knowledge base. The inference engine runs autonomously by digesting the rule-molecule, using a Class IIB restriction enzyme PpiI. Concentration model has been built to show the feasibility of the inference process under ideal chemical reaction conditions. Moreover, we extend to implement a triggering communication between molecular automata, as a further application of the RRS technique in our model.     

A DNA sequence alignment algorithm using quality information and a fuzzy inference method

DNA sequence alignment algorithms in computational molecular biology have been improved by diverse methods. In this paper, we propose a DNA sequence alignment that uses quality information and a fuzzy inference method developed based on characteristics of DNA fragments and a fuzzy logic system in order to improve conventional DNA sequence alignment methods that uses DNA sequence quality information. In conventional algorithms, DNA sequence alignment scores are calculated by the global sequence alignment algorithm proposed by Needleman-Wunsch, which is established by using quality information of each DNA fragment. However, there may be errors in the process of calculating DNA sequence alignment scores when the quality of DNA fragment tips is low, because only overall DNA sequence quality information are used. In our proposed method, an exact DNA sequence alignment can be achieved in spite of low quality of DNA fragment tips by improvement of conventional algorithms using quality information. Mapping score parameters used to calculate DNA sequence alignment scores are dynamically adjusted by the fuzzy logic system utilizing lengths of DNA fragments and frequencies of low quality DNA bases in the fragments. From the experiments by applying real genome data of National Center for Biotechnology Information, we could see that the proposed method is more efficient than conventional algorithms.     

A DNA sequence alignment algorithm using quality information and a fuzzy inference method

DNA sequence alignment algorithms in computational molecular biology have been improved by diverse methods. In this paper, we propose a DNA sequence alignment that uses quality information and a fuzzy inference method developed based on the characteristics of DNA fragments and a fuzzy logic system in order to improve conventional DNA sequence alignment methods that uses DNA sequence quality information. In conventional algorithms, DNA sequence alignment scores are calculated by the global sequence alignment algo- rithm proposed by Needleman-Wunsch, which is established by using quality information of each DNA fragment. However, there may be errors in the process of calculating DNA sequence alignment scores when the quality of DNA fragment tips is low, because only the overall DNA sequence quality information are used. In our proposed method, an exact DNA sequence alignment can be achieved in spite of the low quality of DNA fragment tips by improvement of conventional algorithms using quality information. Mapping score param- eters used to calculate DNA sequence alignment scores are dynamically adjusted by the fuzzy logic system utilizing lengths of DNA fragments and frequencies of low quality DNA bases in the fragments. From the experiments by applying real genome data of National Center for Biotechnology Information, we could see that the proposed method is more efficient than conventional algorithms.     

3G时代移动IP技术应用展望

从介绍移动IP技术的概念入手,阐述了移动IP技术发展的客观必然性,讨论了3G时代移动IP技术的应用前景和不足之处。     

重磁震统计推断联合建模反演技术研究与应用

提出了一种新的基于统计推断的重磁震联合反演方法。首先利用重磁差值趋势面进行场源分离 ,以分布独立的断裂系统为单元 ,把反映目标层地震波反射界面深度作为与其对应的重磁异常的二元复合逆函数 ,然后利用已知重磁震资料统计推断其逆函数在空间域上的泰勒级数分布。该方法无须事先对地质模型进行假设 ,避免了反演的多解性。对合肥盆地印度支面构造的反演结果说明了该方法的有效性 ,并成功地编绘了合肥盆地印度支面重磁震联合反演构造图     

DNA分子标记技术在中草药鉴别中的应用

DNA分子标记技术以其特异性强、可靠性好、灵敏度高等特点为中草药鉴别开辟了新的道路．RFLP,RAPD,AFLP,DNA序列分析等DNA分子标记技术已经在该领域被广泛研究,并且取得了可喜的成绩．介绍了这几种技术的原理和特点,概括了近年来的应用进展,并对前景进行了展望．