发布求助
文献互助 智能选刊 最新文献

arXiv: Quantitative Methods最新文献

筛选
英文 中文
Fast matrix multiplication techniques based on the Adleman-Lipton model 基于Adleman-Lipton模型的快速矩阵乘法技术
arXiv: Quantitative Methods Pub Date : 2009-12-03 DOI: 10.5897/IJCER10.016
Aran Nayebi
{"title":"Fast matrix multiplication techniques based on the Adleman-Lipton model","authors":"Aran Nayebi","doi":"10.5897/IJCER10.016","DOIUrl":"https://doi.org/10.5897/IJCER10.016","url":null,"abstract":"On distributed memory electronic computers, the implementation and association of fast parallel matrix multiplication algorithms has yielded astounding results and insights. In this discourse, we use the tools of molecular biology to demonstrate the theoretical encoding of Strassen’s fast matrix multiplication algorithm with DNA based on an n-moduli set in the residue number system, thereby demonstrating the viability of computational mathematics with DNA. As a result, a general scalable implementation of this model in the DNA computing paradigm is presented and can be generalized to the application of all fast matrix multiplication algorithms on a DNA computer. We also discuss the practical capabilities and issues of this scalable implementation. Fast methods of matrix computations with DNA are important because they also allow for the efficient implementation of other algorithms (that is inversion, computing determinants, and graph theory) with DNA. \u0000 \u0000   \u0000 \u0000 Key words: DNA computing, residue number system, logic and arithmetic operations, Strassen algorithm.","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"23 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2009-12-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"125419955","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 7
An Analytically Solvable Asymptotic Model of Atrial Excitability 心房兴奋性的解析可解渐近模型
arXiv: Quantitative Methods Pub Date : 2009-05-25 DOI: 10.1007/978-0-8176-4556-4_26
Radostin D Simitev, V. N.Biktashev
{"title":"An Analytically Solvable Asymptotic Model of Atrial Excitability","authors":"Radostin D Simitev, V. N.Biktashev","doi":"10.1007/978-0-8176-4556-4_26","DOIUrl":"https://doi.org/10.1007/978-0-8176-4556-4_26","url":null,"abstract":"","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2009-05-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"130541860","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
Bioinformatics Research and Development 生物信息学研究与开发
arXiv: Quantitative Methods Pub Date : 2008-10-30 DOI: 10.1007/978-3-540-70600-7
M. Elloumi, J. Küng, M. Linial, R. Murphy, K. Schneider, Cristian Toma
{"title":"Bioinformatics Research and Development","authors":"M. Elloumi, J. Küng, M. Linial, R. Murphy, K. Schneider, Cristian Toma","doi":"10.1007/978-3-540-70600-7","DOIUrl":"https://doi.org/10.1007/978-3-540-70600-7","url":null,"abstract":"","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"34 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2008-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"114950313","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
Reconstruction of Biological Networks by Supervised Machine Learning Approaches 基于监督机器学习方法的生物网络重构
arXiv: Quantitative Methods Pub Date : 2008-09-22 DOI: 10.1002/9780470556757.CH7
Jean-Philippe Vert
{"title":"Reconstruction of Biological Networks by Supervised Machine Learning Approaches","authors":"Jean-Philippe Vert","doi":"10.1002/9780470556757.CH7","DOIUrl":"https://doi.org/10.1002/9780470556757.CH7","url":null,"abstract":"We review a recent trend in computational systems biology which aims at using pattern recognition algorithms to infer the structure of large-scale biological networks from heterogeneous genomic data. We present several strategies that have been proposed and that lead to different pattern recognition problems and algorithms. The strenght of these approaches is illustrated on the reconstruction of metabolic, protein-protein and regulatory networks of model organisms. In all cases, state-of-the-art performance is reported.","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2008-09-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124525329","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 46
Comparative analysis of the nucleotide composition biases in exons and introns of human genes 人类基因外显子和内含子核苷酸组成偏倚的比较分析
arXiv: Quantitative Methods Pub Date : 2008-09-20 DOI: 10.7124/BC.0007B4
D. Duplij
{"title":"Comparative analysis of the nucleotide composition biases in exons and introns of human genes","authors":"D. Duplij","doi":"10.7124/BC.0007B4","DOIUrl":"https://doi.org/10.7124/BC.0007B4","url":null,"abstract":"The nucleotide composition of human genes with a special emphasis on transcription-related strand asymmetries is analyzed. Such asymmetries may be associated with different mutational rates in two principal factors. The first one is transcription-coupled repair and the second one is the selective pressure related to optimization of the translation efficiency. The former factor affects both coding and noncoding regions of a gene, while the latter factor is applicable only to the coding regions. Compositional asymmetries calculated at the third position of a codon in coding (exons) and noncoding (introns, UTR, upstream and downstream) regions of human genes are compared. It is shown that the keto-skew (excess of the frequencies of G and T nucleotides over the frequencies of A and C nucleotides in the same strand) is most pronounced in intronic regions, less pronounced in coding regions, and has near zero values in untranscribed regions. The keto-skew correlates with the level of gene expression in germ-line cells in both introns and exons. We propose to use the results of our analysis to estimate the contribution of different evolutionary factors to the transcription-related compositional biases.","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"21 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2008-09-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126233476","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Do quantum effects hold together DNA condensates 量子效应能将DNA凝聚在一起吗
arXiv: Quantitative Methods Pub Date : 2008-06-19 DOI: 10.1142/S0217979210054919
A. Iorio, Samik Sen, S. Sen
{"title":"Do quantum effects hold together DNA condensates","authors":"A. Iorio, Samik Sen, S. Sen","doi":"10.1142/S0217979210054919","DOIUrl":"https://doi.org/10.1142/S0217979210054919","url":null,"abstract":"The classical electrostatic interaction between DNA molecules in water in the presence of counterions is reconsidered and we propose it is governed by a modified Poisson-Boltzmann equation. Quantum fluctuations are then studied and shown to lead to a vacuum interaction that is numerically computed for several configurations of many DNA strands and found to be strongly many-body. This Casimir vacuum interaction can be the ``glue'' holding together DNA molecules into aggregates.","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"59 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2008-06-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129942553","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
Optimal metabolic pathway activation 最佳代谢途径激活
arXiv: Quantitative Methods Pub Date : 2008-01-16 DOI: 10.3182/20080706-5-KR-1001.02130
Diego A. Oyarz'un, B. Ingalls, R. Middleton, D. Kalamatianos
{"title":"Optimal metabolic pathway activation","authors":"Diego A. Oyarz'un, B. Ingalls, R. Middleton, D. Kalamatianos","doi":"10.3182/20080706-5-KR-1001.02130","DOIUrl":"https://doi.org/10.3182/20080706-5-KR-1001.02130","url":null,"abstract":"This paper deals with temporal enzyme distribution in the activation of biochemical pathways. Pathway activation arises when production of a certain biomolecule is required due to changing environmental conditions. Under the premise that biological systems have been optimized through evolutionary processes, a biologically meaningful optimal control problem is posed. In this setup, the enzyme concentrations are assumed to be time dependent and constrained by a limited overall enzyme production capacity, while the optimization criterion accounts for both time and resource usage. \u0000Using geometric arguments we establish the bang-bang nature of the solution and reveal that each reaction must be sequentially activated in the same order as they appear in the pathway. The results hold for a broad range of enzyme dynamics which includes, but is not limited to, Mass Action, Michaelis-Menten and Hill Equation kinetics.","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"22 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2008-01-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124441021","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
Offdiagonal Complexity: A Computationally Quick Network Complexity Measure—Application to Protein Networks and Cell Division 非对角线复杂性:一种计算快速的网络复杂性度量——在蛋白质网络和细胞分裂中的应用
arXiv: Quantitative Methods Pub Date : 2007-12-27 DOI: 10.1007/978-0-8176-4556-4_25
J. Claussen
{"title":"Offdiagonal Complexity: A Computationally Quick Network Complexity Measure—Application to Protein Networks and Cell Division","authors":"J. Claussen","doi":"10.1007/978-0-8176-4556-4_25","DOIUrl":"https://doi.org/10.1007/978-0-8176-4556-4_25","url":null,"abstract":"","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-12-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129211782","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 12
Filter Out High Frequency Noise in EEG Data Using The Method of Maximum Entropy 利用最大熵法滤除脑电数据中的高频噪声
arXiv: Quantitative Methods Pub Date : 2007-11-15 DOI: 10.1063/1.2821286
C. Tseng, Hc Lee
{"title":"Filter Out High Frequency Noise in EEG Data Using The Method of Maximum Entropy","authors":"C. Tseng, Hc Lee","doi":"10.1063/1.2821286","DOIUrl":"https://doi.org/10.1063/1.2821286","url":null,"abstract":"We propose a maximum entropy (ME) based approach to smooth noise not only in data but also to noise amplified by second order derivative calculation of the data especially for electroencephalography (EEG) studies. The approach includes two steps, applying method of ME to generate a family of filters and minimizing noise variance after applying these filters on data selects the preferred one within the family. We examine performance of the ME filter through frequency and noise variance analysis and compare it with other well known filters developed in the EEG studies. The results show the ME filters to outperform others. Although we only demonstrate a filter design especially for second order derivative of EEG data, these studies still shed an informatic approach of systematically designing a filter for specific purposes.","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"27 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"116851935","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Data Processing Approach for Localizing Bio-magnetic Sources in the Brain 脑内生物磁源定位的数据处理方法
arXiv: Quantitative Methods Pub Date : 2007-07-20 DOI: 10.1063/1.2759772
Hung-I Pai, C. Tseng, H. C. Lee
{"title":"Data Processing Approach for Localizing Bio-magnetic Sources in the Brain","authors":"Hung-I Pai, C. Tseng, H. C. Lee","doi":"10.1063/1.2759772","DOIUrl":"https://doi.org/10.1063/1.2759772","url":null,"abstract":"Magnetoencephalography (MEG) provides dynamic spatial-temporal insight of neural activities in the cortex. Because the number of possible sources is far greater than the number of MEG detectors, the proposition to localize sources directly from MEG data is notoriously ill-posed. Here we develop an approach based on data processing procedures including clustering, forward and backward filtering, and the method of maximum entropy. We show that taking as a starting point the assumption that the sources lie in the general area of the auditory cortex (an area of about 40 mm by 15 mm), our approach is capable of achieving reasonable success in pinpointing active sources concentrated in an area of a few mm's across, while limiting the spatial distribution and number of false positives.","PeriodicalId":119149,"journal":{"name":"arXiv: Quantitative Methods","volume":"19 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-07-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"114577474","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
首页 上一页 下一页 尾页
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整，为了账户安全，请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
请完成安全验证×
相关产品
×
本文献相关产品
联系我们：info@booksci.cn Book学术提供免费学术资源搜索服务，方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号：481959085
Book学术官方微信