Revisiting recent etiological theories of functions

Arguably, the most widely endorsed account of normative functions in philosophy of biology is an etiological theory that holds that the function of current traits is fixed by the past selection history of other traits of that type. The earlier formulations of this “selected-effects” theory had trouble accommodating vestigial traits. In order to remedy these difficulties, the influential recent selection or modern history selected-effects theory was introduced. This paper expands upon and strengthens the argument that this theory has trouble stemming from recent “no variation” cases. In addition, several influential arguments for the necessity of including a selection requirement in a theory of normative biological functions are contested. It is suggested that accounting for biological functions in certain areas of biology (such as physiology and the neurosciences) does not require adverting to selection.     

Norms for emotions: biological functions and representational contents

Normative standards are often applied to emotions. Are there normative standards that apply to emotions in virtue solely of facts about their nature? I will argue that the answer is no. The psychological, behavioural, and neurological evidence suggests that emotions are representational brain states with various kinds of biological functions. Facts about biological functions are not (and do not by themselves entail) normative facts. Hence, there are no normative standards that apply to emotions just in virtue of their having various kinds of biological functions. Moreover, the peculiar features of emotions make the view that representational content is essentially normative very implausible. Hence, the representational properties of emotions cannot be seen as entailing normative standards. The conclusion is that there are no normative standards that apply to emotions solely in virtue of their nature.     

The uses of epidemic models.

This paper is concerned with models formulated to describe the spread of infectious diseases through a community. Some standard epidemic models are introduced and an overview of their uses is provided. The paper includes a discussion of the advantages of simple models over complex ones and the advantages of stochastic models over deterministic ones. The role that epidemic models can play in helping us to understand the spread of diseases and to plan control policies for diseases is explained. The paper also contains a review of some major insights gained from a study of epidemic models and from statistical analyses of disease data using epidemic models. Some explicit suggestions for future research projects are made.     

The system of epidemiological surveillance as a reflection of the structure of the epidemic process

The socio-ecological concept in epidemiology, formulated by the author in his earlier works and regarding the epidemic process as a biosocial hierarchical, integral system, can serve as a theoretical basis for the epidemiological surveillance of infectious and parasitic diseases. In accordance with the structure of the epidemic process, the system of epidemiological surveillance is subdivided into the following monitoring levels: molecular, microbiological, clinical, biocenological, statistical and sociological. The functions of epidemiological surveillance should be performed by the existing and newly organized All-Union Centers for the corresponding nosological forms.     

Random matrix theory in biological nuclear magnetic resonance spectroscopy

The statistical theory of energy levels or random matrix theory is presented in the context of the analysis of chemical shifts of nuclear magnetic resonance (NMR) spectra of large biological systems. Distribution functions for the spacing between nearest-neighbor energy levels are discussed for uncorrelated, correlated, and random superposition of correlated energy levels. Application of this approach to the NMR spectra of a vitamin, an antibiotic, and a protein demonstrates the state of correlation of an ensemble of energy levels that characterizes each system. The detection of coherent and dissipative structures in proteins becomes feasible with this statistical spectroscopic technique.     

Congruent epidemic models for unstructured and structured populations: analytical reconstruction of a 2003 SARS outbreak

Both the threat of bioterrorism and the natural emergence of contagious diseases underscore the importance of quantitatively understanding disease transmission in structured human populations. Over the last few years, researchers have advanced the mathematical theory of scale-free networks and used such theoretical advancements in pilot epidemic models. Scale-free contact networks are particularly interesting in the realm of mathematical epidemiology, primarily because these networks may allow meaningfully structured populations to be incorporated in epidemic models at moderate or intermediate levels of complexity. Moreover, a scale-free contact network with node degree correlation is in accord with the well-known preferred mixing concept. The present author describes a semi-empirical and deterministic epidemic modeling approach that (a) focuses on time-varying rates of disease transmission in both unstructured and structured populations and (b) employs probability density functions to characterize disease progression and outbreak controls. Given an epidemic curve for a historical outbreak, this modeling approach calls for Monte Carlo calculations (that define the average new infection rate) and solutions to integro-differential equations (that describe outbreak dynamics in an aggregate population or across all network connectivity classes). Numerical results are obtained for the 2003 SARS outbreak in Taiwan and the dynamical implications of time-varying transmission rates and scale-free contact networks are discussed in some detail.     

A stochastic approach to solving the problem of sensory system thresholds]

On the basis of an analysis of mathematical models realizing concept of discrete and signal detection probability of the threshold it is shown that utilization for describing the discrete model concepts of probability and the apparatus of Dirac delta functions and root-mean-square of noise distribution being reduced to zero in the continuous model the analytical expressions of the models are identical. The evidence obtained shows inner unity of the examined thresholds models and universal nature of the thresholds model of Swets, Tanner and Birdsall built on the basis of the statistical theory of signal detectability. It provides solution of one of the central problems of psychophysics--that of the threshold of the sensory systems.     

The system of the epidemic process

An original social-ecological concept of the epidemic process has been constructed on the basis of using social ecology, systemic approach and the basic principles of cybernetics. According to this concept, the epidemic process is regarded as a biosocial, hierarchic, integral system providing for the reproduction of the species of human parasites. At a higher level of organization, the epidemic process is an epidemiological social-ecological system consisting of two interacting subsystems: the biological (epidemiological ecosystem) and the social (social and economic conditions of life of the society) subsystems where the biological subsystem plays the role of the governed object and the social acts as the internal regulator of these interactions. On the basis of this concept a rational structure of the system of epidemiological surveillance over infectious diseases has been proposed according to which each level of the structure of the epidemic process should be subject to adequate monitoring.     

Connecting lipid droplet biology and the metabolic syndrome

In the recent years, new advances in the biology of lipid droplets led these structures specialized for lipid storage to be considered as new universal intracellular organelles playing active roles in cell physiology. Concomitantly, studies on the pathogenesis of metabolic diseases such as type 2 diabetes or atherosclerosis, associated with ongoing epidemic obesity, have pointed out the importance of lipotoxic effects in metabolic dysfunction, generated by ectopic lipid storage in non-adipose tissues. The purpose of this paper is to establish connections between recent discoveries in lipid droplet biology and novel views in the pathology of the metabolic syndrome. Bringing together the new concepts produced in these two separated fields might show the way towards the definition of innovative strategies to treat metabolic diseases. Particular attention is given to the role of adipocyte-specific proteins that interact with lipid droplets and confer unique functions to adipocyte lipid storage by limiting the spill-over of fatty acids and their lipotoxic effects.     

MicroRNA，lncRNA与神经退行性疾病

综述了microRNA和lncRNA在一些神经退行性疾病病理生理中的作用机制．随着社会生产的发展,人类文明的进步,人口日益老年化,神经退行性疾病正在全球范围内流行,严重地危害着人类的健康．尽管长期的研究使人们对神经退行性疾病有了比较全面和深入的了解,但是其背后隐藏的发病机制仍然是个谜．人类基因组约98%的转录产物为非编码RNA(ncRNA),在生命活动中有着许多鲜为人知的广泛而多样性的生物功能．小分子RNA(microRNA)是研究得相对比较深入的一类小ncRNA,最近2～3年,长非编码RNA(lncRNA)受到人们的重视,已积累了一些相关研究成果．     

Obesity and postprandial lipemia in adolescents: risk factors for cardiovascular disease

In the last 50 years, obesity has become a global epidemic and is one of the main public health problems in many parts of the world. Adolescence is a critical period regarding weight control. The factors determining obesity include a complex group of interrelated biological, behavioral and environmental factors which reinforce each other. In children and adolescents, obesity is associated with premature cardiovascular diseases, diabetes mellitus type 2, acanthosis nigricans, respiratory and skeletal muscle problems, as well as psychological problems. The clinical manifestations of cardiovascular disease begin in middle age. Nevertheless, studies indicate that the atherosclerotic process begins to develop during childhood. Postprandial hyperlipemia is a physiological process that occurs several times a day after the complete absorption of a diet including lipids and has been suggested as a risk factor for coronary heart disease (CHD). New study areas include the effects of different fatty acids, lipid sources (endogenous and exogenous), and the effect ingesting alcoholic beverages during meals. Given the evidence that postprandial lipidemia is an independent risk factor for CHD, it is vital to establish normative values for children and adolescents such that more effective and efficient preventive and therapeutic measures can be adopted.     

血型与气质类型和疾病相关性的生物学机制

血型与气质类型关系的研究属于人格的生物学研究范畴,其最早的研究在日本,1927年日本学者古川竹二(Furukawa)提出气质血型学说,在学术界和社会上都产生很大影响。早期对气质血型论的研究主要是通过统计学方法进行研究,缺少对其相关生物学机制的探讨,从而引起较大的争论。上世纪五十年代血型与疾病相关性的研究也引起许多学者的关注。气质类型与遗传因素、机体生活环境和文化因素等都具有相关性,本文介绍了血型与气质类型和疾病现阶段的主要研究结果,重点是从生物学角度阐述血型与气质类型和疾病等方面具有相关性的原因。     

Evolution of Virulence in Emerging Epidemics

Theory predicts that selection for pathogen virulence and horizontal transmission is highest at the onset of an epidemic but decreases thereafter, as the epidemic depletes the pool of susceptible hosts. We tested this prediction by tracking the competition between the latent bacteriophage λ and its virulent mutant λcI857 throughout experimental epidemics taking place in continuous cultures of Escherichia coli. As expected, the virulent λcI857 is strongly favored in the early stage of the epidemic, but loses competition with the latent virus as prevalence increases. We show that the observed transient selection for virulence and horizontal transmission can be fully explained within the framework of evolutionary epidemiology theory. This experimental validation of our predictions is a key step towards a predictive theory for the evolution of virulence in emerging infectious diseases.     

Discussion on the problems of general epidemiology

The key problems of general epidemiology: the subject, method, causality in the epidemic process, the main categories and laws, the systematization of infectious pathology and epidemiological terminology are under discussion. It is at this stage when students should form valid notions, well grounded on scientific facts and practical experience, concerning the epidemiology of noninfectious diseases with due regard to the existing differences in the interpretation of the causes of the epidemic process in noninfectious diseases and to the characteristic distribution of noninfectious diseases among the population under the influence of environmental factors without any participation of parasitic systems. The review of the notion apparatus of the theoretical epidemiology and putting it in order in accordance with general biological concepts are proposed in connection with the necessity of differentiation between the epidemic process proper (in cases of anthroponosis) and the epidemic manifestations of epizoonotic and epiphytotic processes (in cases of zoonoses and sapronoses).     

传播的人群生态动力学模型

研究了HIV传播的动力学模型,描述了流行性传染病区域的人群传播规律,特别是利用摄动理论对艾滋病的传播动力学非线性方程作了定量、定性的讨论。     

Exponential mapping of quantitative trait loci governing allometric relationships in organisms

Allometric scaling relationships or quarter-power rules, as a universal biological law, can be viewed as having some genetic component, and the particular genes (or quantitative trait loci, QTL) underlying these allometric relationships can be mapped using molecular markers. We develop a mathematical and statistical model for mapping allometric QTL on the basis of nonlinear power functions using Taylors approximation theory. Simulation studies indicate that the QTL position and effect can be estimated using our model, but the estimation precision can be improved from the higher- over lower-order approximation when the sample size used and gene effects are small. The application of our approach in a real example from forest trees leads to successful detection of a QTL governing the allometric relationship between 3rd-year stem height and 3rd-year stem biomass. It is expected that our model will have broad implications for genetic, evolutionary, biomedical and breeding research.     

Selected effects and causal role functions in the brain: the case for an etiological approach to neuroscience

Despite the voluminous literature on biological functions produced over the last 40 years, few philosophers have studied the concept of function as it is used in neuroscience. Recently, Craver (forthcoming; also see Craver 2001) defended the causal role theory against the selected effects theory as the most appropriate theory of function for neuroscience. The following argues that though neuroscientists do study causal role functions, the scope of that theory is not as universal as claimed. Despite the strong prima facie superiority of the causal role theory, the selected effects theory (when properly developed) can handle many cases from neuroscience with equal facility. It argues this by presenting a new theory of function that generalizes the notion of a ‘selection process’ to include processes such as neural selection, antibody selection, and some forms of learning—that is, to include structures that have been differentially retained as well as those that have been differentially reproduced. This view, called the generalized selected effects theory of function, will be defended from criticism and distinguished from similar views in the literature.     

The Modeling of Global Epidemics: Stochastic Dynamics and Predictability

The global spread of emergent diseases is inevitably entangled with the structure of the population flows among different geographical regions. The airline transportation network in particular shrinks the geographical space by reducing travel time between the world's most populated areas and defines the main channels along which emergent diseases will spread. In this paper, we investigate the role of the large-scale properties of the airline transportation network in determining the global propagation pattern of emerging diseases. We put forward a stochastic computational framework for the modeling of the global spreading of infectious diseases that takes advantage of the complete International Air Transport Association 2002 database complemented with census population data. The model is analyzed by using for the first time an information theory approach that allows the quantitative characterization of the heterogeneity level and the predictability of the spreading pattern in presence of stochastic fluctuations. In particular we are able to assess the reliability of numerical forecast with respect to the intrinsic stochastic nature of the disease transmission and travel flows. The epidemic pattern predictability is quantitatively determined and traced back to the occurrence of epidemic pathways defining a backbone of dominant connections for the disease spreading. The presented results provide a general computational framework for the analysis of containment policies and risk forecast of global epidemic outbreaks. On leave from CEA-Centre d'Etudes de Bruyères-Le-Chatel, France.     

Predicting epidemics on directed contact networks

Contact network epidemiology is an approach to modeling the spread of infectious diseases that explicitly considers patterns of person-to-person contacts within a community. Contacts can be asymmetric, with a person more likely to infect one of their contacts than to become infected by that contact. This is true for some sexually transmitted diseases that are more easily caught by women than men during heterosexual encounters; and for severe infectious diseases that cause an average person to seek medical attention and thereby potentially infect health care workers (HCWs) who would not, in turn, have an opportunity to infect that average person. Here we use methods from percolation theory to develop a mathematical framework for predicting disease transmission through semi-directed contact networks in which some contacts are undirected-the probability of transmission is symmetric between individuals-and others are directed-transmission is possible only in one direction. We find that the probability of an epidemic and the expected fraction of a population infected during an epidemic can be different in semi-directed networks, in contrast to the routine assumption that these two quantities are equal. We furthermore demonstrate that these methods more accurately predict the vulnerability of HCWs and the efficacy of various hospital-based containment strategies during outbreaks of severe respiratory diseases.     

Statistical assessment of population variability: a methodological approach

We have implemented a multivariate statistical methodology to assess the degree and pattern of cranial variability in skeletal samples. Specifically, the method is designed to test whether variability in a skeletal sample exceeds "normal within-group variability" defined in the present instance as variability present among crania from a cemetery associated with a village. It involves comparing a covariance matrix derived from a sample of unknown composition to one representing "normal within-group variability." The method has been applied to two Plains Indian craniometric samples. The Leavenworth site (39CO9) represents the remnants of previously autonomous Arikara Indian villages devastated by epidemic diseases in the late 1700s. The Bad River 2 Phase is an archaeological designation grouping together closely related sites in the Bad-Cheyenne region of South Dakota dating from 1740-1795 AD. We were able to show substantial heterogeneity among crania from Leavenworth. District burial areas at Leavenworth account for some of the heterogeneity, supporting the notion that they represent an attempt to maintain former social distinctions. We were unable to differentiate among sites within the Bad River 2 Phase, suggesting that it is a valid biological unit.