Chaos game representation （CGR） is an iterative mapping technique that processes sequences of units, such as nucleotides in a DNA sequence or amino acids in a protein, in order to determine the coordinates of their ...Chaos game representation （CGR） is an iterative mapping technique that processes sequences of units, such as nucleotides in a DNA sequence or amino acids in a protein, in order to determine the coordinates of their positions in a continuous space. This distribution of positions has two features： one is unique, and the other is source sequence that can be recovered from the coordinates so that the distance between positions may serve as a measure of similarity between the corresponding sequences. A CGR-walk model is proposed based on CGR coordinates for the DNA sequences. The CGR coordinates are converted into a time series, and a long-memory ARFIMA （p, d, q） model, where ARFIMA stands for autoregressive fractionally integrated moving average, is introduced into the DNA sequence analysis. This model is applied to simulating real CGR-walk sequence data of ten genomic sequences. Remarkably long-range correlations are uncovered in the data, and the results from these models are reasonably fitted with those from the ARFIMA （p, d, q） model.展开更多
A new chaos game representation of protein sequences based on the detailed hydrophobic-hydrophilic （HP） model has been proposed by Yu et al （Physica A 337（2004） 171）. A CGR-walk model is proposed based on the ne...A new chaos game representation of protein sequences based on the detailed hydrophobic-hydrophilic （HP） model has been proposed by Yu et al （Physica A 337（2004） 171）. A CGR-walk model is proposed based on the new CGR coordinates for the protein sequences from complete genomes in the present paper. The new CCR coordinates based on the detailed HP model are converted into a time series, and a long-memory ARFIMA（p, d, q） model is introduced into the protein sequence analysis. This model is applied to simulating real CCR-walk sequence data of twelve protein sequences. Remarkably long-range correlations are uncovered in the data and the results obtained from these models are reasonably consistent with those available from the ARFIMA（p, d, q） model.展开更多
Recent studies on alkaline soils of arid areas suggest a possible contribution of abiotic exchange to soil CO2 flux(Fc).However,both the overall contribution of abiotic CO2 exchange and its drivers remain unknown.He...Recent studies on alkaline soils of arid areas suggest a possible contribution of abiotic exchange to soil CO2 flux(Fc).However,both the overall contribution of abiotic CO2 exchange and its drivers remain unknown.Here we analyzed the environmental variables suggested as possible drivers by previous studies and constructed a function of these variables to model the contribution of abiotic exchange to Fc in alkaline soils of arid areas.An automated flux system was employed to measure Fc in the Manas River Basin of Xinjiang Uygur autonomous region,China.Soil pH,soil temperature at 0–5 cm(Ts),soil volumetric water content at 0–5 cm(θs)and air temperature at10 cm above the soil surface(Tas)were simultaneously analyzed.Results highlight reduced sensitivity of Fc to Ts and good prediction of Fc by the model Fc=R10Q10(Tas–10)/10+r7q7(pH–7)+λTas+μθs+e which represents Fc as a sum of biotic and abiotic components.This presents an approximate method to quantify the contribution of soil abiotic CO2 exchange to Fc in alkaline soils of arid areas.展开更多
In this paper, we consider the problem of determining the order ofINAR（Q） model on the basis of the Bayesian estimation theory. The Bayesian es-timator for the order is given with respect to a squared-error loss fu...In this paper, we consider the problem of determining the order ofINAR（Q） model on the basis of the Bayesian estimation theory. The Bayesian es-timator for the order is given with respect to a squared-error loss function. The consistency of the estimator is discussed. The results of a simulation study for the estimation method are presented.展开更多
This paper aims at investigating possible regional attenuation patterns in the case of Vrancea（Romania） intermediate-depth earthquakes.Almost 500 pairs of horizontal components recorded during 13 intermediate-depth ...This paper aims at investigating possible regional attenuation patterns in the case of Vrancea（Romania） intermediate-depth earthquakes.Almost 500 pairs of horizontal components recorded during 13 intermediate-depth Vrancea earthquakes are employed in order to evaluate the regional attenuation patterns.The recordings are grouped according to the azimuth with regard to the Vrancea seismic source and subsequently,Q models are computed for each azimuthal zone assuming similar geometrical spreading.Moreover,the local soil amplification which was disregarded in a previous analysis performed for Vrancea intermediate-depth earthquakes is now clearly evaluated.The results show minor differences between the four regions situated in front of the Carpathian Mountains and considerable differences in attenuation of seismic waves between the forearc and backarc regions（with regard to the Carpathian Mountains）.Consequently,an average Q model of the type Q（f） = 115×f^1.25 is obtained for the four forearc regions,while a separate Q model of the type Q（f） = 70×f^0.90 is computed for the backarc region.These results highlight the need to evaluate the seismic hazard of Romania by using ground motion models which take into account the different attenuation between the forearc/backarc regions.展开更多
Suppose that the time series Xt satisfieswhere α0≥δ＞0,αi≥0 for i=1,2,…,q;βi,i=1,…,p, are real numbers; p and q are the order of the model. The sequence {ξt};（0,1） and is independent of {hs,s≤t} for fixed ...Suppose that the time series Xt satisfieswhere α0≥δ＞0,αi≥0 for i=1,2,…,q;βi,i=1,…,p, are real numbers; p and q are the order of the model. The sequence {ξt};（0,1） and is independent of {hs,s≤t} for fixed t. The above model is usually written as AR（p）-ARCH（q）.We consider stationary series AR（p）-ARCH（q） model and assume the stationary field is θ0. We express this statement asH1:α1≥α2…≥αq,β1≥β2≥…≥βp and we consider an order restricted testing problem, which is to testH0:α1=α2=…=αq,β1=β2=…=βpagainst H1-H0. We derive the likelihood ratio （LR） test statistic and its asymptotic distri-展开更多
In this paper, we study a stationary AR（p）-ARCH（q） model with parameter vectors α and β. We propose a method for computing the maximum likelihood estimator （MLE） of parameters under the nonnegative restriction...In this paper, we study a stationary AR（p）-ARCH（q） model with parameter vectors α and β. We propose a method for computing the maximum likelihood estimator （MLE） of parameters under the nonnegative restriction. A similar method is also proposed for the case that the parameters are restricted by a simple order： α1≥α2≥…≥αq and β1≥β2≥…≥βp. The strong consistency of the above two estimators is discussed. Furthermore, we consider the problem of testing homogeneity of parameters against the simple order restriction. We give the likelihood ratio （LR） test statistic for the testing problem and derive its asymptotic null distribution.展开更多
It is very im portant to analyze network traffic in the network control and management. In thi s paper, extreme value theory is first introduced and a model with threshold met hods is proposed to analyze the character...It is very im portant to analyze network traffic in the network control and management. In thi s paper, extreme value theory is first introduced and a model with threshold met hods is proposed to analyze the characteristics of network traffic. In this mode l, only some traffic data that is greater than threshold value is considered. Th en the proposed model with the trace is simulated by using S Plus software. The modeling results show the network traffic model constructed from the extreme va lue theory fits well with that of empirical distribution. Finally, the extreme v alue model with the FARIMA(p,d,q) modeling is compared. The anal ytical results illustrate that extreme value theory has a good application foreg round in the statistic analysis of network traffic. In addition, since only some traffic data which is greater than the threshold is processed, the computation overhead is reduced greatly.展开更多
γ-Aminobutyric acid（GABA）,plays a key role in all stages of life,also is considered the main inhibitory neurotransmitter.GABA activates two kind of membrane receptors known as GABAA and GABAB,the first one is respo...γ-Aminobutyric acid（GABA）,plays a key role in all stages of life,also is considered the main inhibitory neurotransmitter.GABA activates two kind of membrane receptors known as GABAA and GABAB,the first one is responsible to render tonic inhibition by pentameric receptors containing α4-6,β3,δ,or ρ1-3 subunits,they are located at perisynaptic and/or in extrasynaptic regions.The biophysical properties of GABAA tonic inhibition have been related with cellular protection against excitotoxic injury and cell death in presence of excessive excitation.On this basis,GABAA tonic inhibition has been proposed as a potential target for therapeutic intervention of Huntington＇s disease.Huntington＇s disease is a neurodegenerative disorder caused by a genetic mutation of the huntingtin protein.For experimental studies of Huntington＇s disease mouse models have been developed,such as R6/1,R6/2,Hdh Q92,Hdh Q150,as well as YAC128.In all of them,some key experimental reports are focused on neostriatum.The neostriatum is considered as the most important connection between cerebral cortex and basal ganglia structures,its cytology display two pathways called direct and indirect constituted by medium sized spiny neurons expressing dopamine D1 and D2 receptors respectively,they display strong expression of many types of GABAA receptors,including tonic subunits.The studies about of GABAA tonic subunits and Huntington＇s disease into the neostriatum are rising in recent years,suggesting interesting changes in their expression and localization which can be used as a strategy to delay the cellular damage caused by the imbalance between excitation and inhibition,a hallmark of Huntington＇s disease.展开更多
Soil respiration （SR） is commonly modeled by a Q10 （an indicator of temperature sensitivity） function in ecosystem models. Q10 is usually treated as a constant of 2 in these models, although Q10 value of SR often ...Soil respiration （SR） is commonly modeled by a Q10 （an indicator of temperature sensitivity） function in ecosystem models. Q10 is usually treated as a constant of 2 in these models, although Q10 value of SR often decreases with increasing temperatures. It remains unclear whether a general temperature- dependent Q10 model of SR exists at biome and global scale. In this paper, we have compiled the long-term Q10 data of 38 SR studies ranging from the Boreal, Temperate, to Tropical/Sublropical biome on four continents. Our analysis indicated that the general temperature-dependent biome Q10 models of SR existed, especially in the Boreal and Temperate biomes. A single-exponential model was better than a simple linear model in fitting the average Q10 values at the biome scale. Average soil temperature is a better predictor of Q10 value than average air temperature in these models, especially in the Boreal biome. Soil temperature alone could explain about 50% of the Q10 variations in both the Boreal and Temperate biome single-exponential Q10 model. Q10 value of SR decreased with increasing soil temperature but at quite different rates among the three biome Q10 models. The k values （Q10 decay rate constants） were 0.09, 0.07, and 0.02/℃ in the Boreal, Temperate, and Tropical/Subtropical biome, respectively, suggesting that Q10 value is the most sensitive to soil temperature change in the Boreal biome, the second in the Temperate biome, and the least sensitive in the Tropical/ Subtropical biome. This also indirectly confirms that acclimation of SR in many soil warming experiments probably occurs. The k value in the ＂global＂ single-exponential Q10 model which combined both the Boreal and Temperate biome data set was 0.08/℃. However, the global general temperature-dependent Q10 model developed using the data sets of the three biomes is not adequate for predicting Q10 values of SR globally. The existence of the general temperature-dependent Q10 models of SR in the Boreal and Temperate biome has important implications for modeling SR, especially in the Boreal biome. More detail model runs are needed to exactly evaluate the impact of using a fixed Q10 vs a temperature-dependent Q10 on SR estimate in ecosystem models （e.g., TEM, Biome-BGC, and PnET）.展开更多
The integer-valued generalized autoregressive conditional heteroskedastic(INGARCH)model is often utilized to describe data in biostatistics,such as the number of people infected with dengue fever,daily epileptic seizu...The integer-valued generalized autoregressive conditional heteroskedastic(INGARCH)model is often utilized to describe data in biostatistics,such as the number of people infected with dengue fever,daily epileptic seizure counts of an epileptic patient and the number of cases of campylobacterosis infections,etc.Since the structure of such data is generally high-order and sparse,studies about order shrinkage and selection for the model attract many attentions.In this paper,we propose a penalized conditional maximum likelihood(PCML)method to solve this problem.The PCML method can effectively select significant orders and estimate the parameters,simultaneously.Some simulations and a real data analysis are carried out to illustrate the usefulness of our method.展开更多
基金Project supported by the National Natural Science Foundation of China (Grant No 60575038)the Natural Science Foundation of Jiangnan University,China (Grant No 20070365)
文摘Chaos game representation （CGR） is an iterative mapping technique that processes sequences of units, such as nucleotides in a DNA sequence or amino acids in a protein, in order to determine the coordinates of their positions in a continuous space. This distribution of positions has two features： one is unique, and the other is source sequence that can be recovered from the coordinates so that the distance between positions may serve as a measure of similarity between the corresponding sequences. A CGR-walk model is proposed based on CGR coordinates for the DNA sequences. The CGR coordinates are converted into a time series, and a long-memory ARFIMA （p, d, q） model, where ARFIMA stands for autoregressive fractionally integrated moving average, is introduced into the DNA sequence analysis. This model is applied to simulating real CGR-walk sequence data of ten genomic sequences. Remarkably long-range correlations are uncovered in the data, and the results from these models are reasonably fitted with those from the ARFIMA （p, d, q） model.
基金Project supported by the National Natural Science Foundation of China (Grant No 60575038)the Natural Science Foundation of Jiangnan University, China (Grant No 20070365)the Program for Innovative Research Team of Jiangnan University, China
文摘A new chaos game representation of protein sequences based on the detailed hydrophobic-hydrophilic （HP） model has been proposed by Yu et al （Physica A 337（2004） 171）. A CGR-walk model is proposed based on the new CGR coordinates for the protein sequences from complete genomes in the present paper. The new CCR coordinates based on the detailed HP model are converted into a time series, and a long-memory ARFIMA（p, d, q） model is introduced into the protein sequence analysis. This model is applied to simulating real CCR-walk sequence data of twelve protein sequences. Remarkably long-range correlations are uncovered in the data and the results obtained from these models are reasonably consistent with those available from the ARFIMA（p, d, q） model.
基金supported by the National Basic Research Program of China(2009CB825105)
文摘Recent studies on alkaline soils of arid areas suggest a possible contribution of abiotic exchange to soil CO2 flux(Fc).However,both the overall contribution of abiotic CO2 exchange and its drivers remain unknown.Here we analyzed the environmental variables suggested as possible drivers by previous studies and constructed a function of these variables to model the contribution of abiotic exchange to Fc in alkaline soils of arid areas.An automated flux system was employed to measure Fc in the Manas River Basin of Xinjiang Uygur autonomous region,China.Soil pH,soil temperature at 0–5 cm(Ts),soil volumetric water content at 0–5 cm(θs)and air temperature at10 cm above the soil surface(Tas)were simultaneously analyzed.Results highlight reduced sensitivity of Fc to Ts and good prediction of Fc by the model Fc=R10Q10(Tas–10)/10+r7q7(pH–7)+λTas+μθs+e which represents Fc as a sum of biotic and abiotic components.This presents an approximate method to quantify the contribution of soil abiotic CO2 exchange to Fc in alkaline soils of arid areas.
文摘In this paper, we consider the problem of determining the order ofINAR（Q） model on the basis of the Bayesian estimation theory. The Bayesian es-timator for the order is given with respect to a squared-error loss function. The consistency of the estimator is discussed. The results of a simulation study for the estimation method are presented.
基金Romanian National Authority for Scientific Research and Innovation,CNCS–UEFISCDI,project number PN-II-RU-TE-2014-4-0697
文摘This paper aims at investigating possible regional attenuation patterns in the case of Vrancea（Romania） intermediate-depth earthquakes.Almost 500 pairs of horizontal components recorded during 13 intermediate-depth Vrancea earthquakes are employed in order to evaluate the regional attenuation patterns.The recordings are grouped according to the azimuth with regard to the Vrancea seismic source and subsequently,Q models are computed for each azimuthal zone assuming similar geometrical spreading.Moreover,the local soil amplification which was disregarded in a previous analysis performed for Vrancea intermediate-depth earthquakes is now clearly evaluated.The results show minor differences between the four regions situated in front of the Carpathian Mountains and considerable differences in attenuation of seismic waves between the forearc and backarc regions（with regard to the Carpathian Mountains）.Consequently,an average Q model of the type Q（f） = 115×f^1.25 is obtained for the four forearc regions,while a separate Q model of the type Q（f） = 70×f^0.90 is computed for the backarc region.These results highlight the need to evaluate the seismic hazard of Romania by using ground motion models which take into account the different attenuation between the forearc/backarc regions.
文摘Suppose that the time series Xt satisfieswhere α0≥δ＞0,αi≥0 for i=1,2,…,q;βi,i=1,…,p, are real numbers; p and q are the order of the model. The sequence {ξt};（0,1） and is independent of {hs,s≤t} for fixed t. The above model is usually written as AR（p）-ARCH（q）.We consider stationary series AR（p）-ARCH（q） model and assume the stationary field is θ0. We express this statement asH1:α1≥α2…≥αq,β1≥β2≥…≥βp and we consider an order restricted testing problem, which is to testH0:α1=α2=…=αq,β1=β2=…=βpagainst H1-H0. We derive the likelihood ratio （LR） test statistic and its asymptotic distri-
文摘In this paper, we study a stationary AR（p）-ARCH（q） model with parameter vectors α and β. We propose a method for computing the maximum likelihood estimator （MLE） of parameters under the nonnegative restriction. A similar method is also proposed for the case that the parameters are restricted by a simple order： α1≥α2≥…≥αq and β1≥β2≥…≥βp. The strong consistency of the above two estimators is discussed. Furthermore, we consider the problem of testing homogeneity of parameters against the simple order restriction. We give the likelihood ratio （LR） test statistic for the testing problem and derive its asymptotic null distribution.
文摘It is very im portant to analyze network traffic in the network control and management. In thi s paper, extreme value theory is first introduced and a model with threshold met hods is proposed to analyze the characteristics of network traffic. In this mode l, only some traffic data that is greater than threshold value is considered. Th en the proposed model with the trace is simulated by using S Plus software. The modeling results show the network traffic model constructed from the extreme va lue theory fits well with that of empirical distribution. Finally, the extreme v alue model with the FARIMA(p,d,q) modeling is compared. The anal ytical results illustrate that extreme value theory has a good application foreg round in the statistic analysis of network traffic. In addition, since only some traffic data which is greater than the threshold is processed, the computation overhead is reduced greatly.
基金the programs for the postdoctoral fellowships-Chilean CONICYT-FONDECYT#3140218,Mexican CONACYT#164978 and DID-UACh S-2015-81Sistema Nacional de Investigadores#58512 to Abraham Rosas-Arellano+2 种基金supported by USACH PhD fellowshipsupported with a PhD fellowship from CONACYT(#299627)FONDECYT grants 1151206 and 1110571 to Maite A.Castro
文摘γ-Aminobutyric acid（GABA）,plays a key role in all stages of life,also is considered the main inhibitory neurotransmitter.GABA activates two kind of membrane receptors known as GABAA and GABAB,the first one is responsible to render tonic inhibition by pentameric receptors containing α4-6,β3,δ,or ρ1-3 subunits,they are located at perisynaptic and/or in extrasynaptic regions.The biophysical properties of GABAA tonic inhibition have been related with cellular protection against excitotoxic injury and cell death in presence of excessive excitation.On this basis,GABAA tonic inhibition has been proposed as a potential target for therapeutic intervention of Huntington＇s disease.Huntington＇s disease is a neurodegenerative disorder caused by a genetic mutation of the huntingtin protein.For experimental studies of Huntington＇s disease mouse models have been developed,such as R6/1,R6/2,Hdh Q92,Hdh Q150,as well as YAC128.In all of them,some key experimental reports are focused on neostriatum.The neostriatum is considered as the most important connection between cerebral cortex and basal ganglia structures,its cytology display two pathways called direct and indirect constituted by medium sized spiny neurons expressing dopamine D1 and D2 receptors respectively,they display strong expression of many types of GABAA receptors,including tonic subunits.The studies about of GABAA tonic subunits and Huntington＇s disease into the neostriatum are rising in recent years,suggesting interesting changes in their expression and localization which can be used as a strategy to delay the cellular damage caused by the imbalance between excitation and inhibition,a hallmark of Huntington＇s disease.
文摘Soil respiration （SR） is commonly modeled by a Q10 （an indicator of temperature sensitivity） function in ecosystem models. Q10 is usually treated as a constant of 2 in these models, although Q10 value of SR often decreases with increasing temperatures. It remains unclear whether a general temperature- dependent Q10 model of SR exists at biome and global scale. In this paper, we have compiled the long-term Q10 data of 38 SR studies ranging from the Boreal, Temperate, to Tropical/Sublropical biome on four continents. Our analysis indicated that the general temperature-dependent biome Q10 models of SR existed, especially in the Boreal and Temperate biomes. A single-exponential model was better than a simple linear model in fitting the average Q10 values at the biome scale. Average soil temperature is a better predictor of Q10 value than average air temperature in these models, especially in the Boreal biome. Soil temperature alone could explain about 50% of the Q10 variations in both the Boreal and Temperate biome single-exponential Q10 model. Q10 value of SR decreased with increasing soil temperature but at quite different rates among the three biome Q10 models. The k values （Q10 decay rate constants） were 0.09, 0.07, and 0.02/℃ in the Boreal, Temperate, and Tropical/Subtropical biome, respectively, suggesting that Q10 value is the most sensitive to soil temperature change in the Boreal biome, the second in the Temperate biome, and the least sensitive in the Tropical/ Subtropical biome. This also indirectly confirms that acclimation of SR in many soil warming experiments probably occurs. The k value in the ＂global＂ single-exponential Q10 model which combined both the Boreal and Temperate biome data set was 0.08/℃. However, the global general temperature-dependent Q10 model developed using the data sets of the three biomes is not adequate for predicting Q10 values of SR globally. The existence of the general temperature-dependent Q10 models of SR in the Boreal and Temperate biome has important implications for modeling SR, especially in the Boreal biome. More detail model runs are needed to exactly evaluate the impact of using a fixed Q10 vs a temperature-dependent Q10 on SR estimate in ecosystem models （e.g., TEM, Biome-BGC, and PnET）.
文摘The integer-valued generalized autoregressive conditional heteroskedastic(INGARCH)model is often utilized to describe data in biostatistics,such as the number of people infected with dengue fever,daily epileptic seizure counts of an epileptic patient and the number of cases of campylobacterosis infections,etc.Since the structure of such data is generally high-order and sparse,studies about order shrinkage and selection for the model attract many attentions.In this paper,we propose a penalized conditional maximum likelihood(PCML)method to solve this problem.The PCML method can effectively select significant orders and estimate the parameters,simultaneously.Some simulations and a real data analysis are carried out to illustrate the usefulness of our method.
