智能化鼠多功能行为训练系统的研究

目的：研制一种微机控制的大鼠多功能行为训练检测系统－梯度电压自动驱动大鼠及微机适时显示,记录和分析实验结果。方法：采用仿windows界面,以TurboC2．0编制,利用TC直接对硬件端口操作,完成信号的采集,处理和对实验仪器的控制。结果：本系统实现了：①梯度电压自动驱动;②声,光,电不同条件刺激;③多路径自动设置;④所没数据建立数据库以SAS软件处理其结果。结论：本系统自动化程度高,操作简便,数据处理科学、准确,尤其是还可用于听觉、视觉等特殊鼠记忆模型的建立。     

A new species of Armeria (Plumbaginaceae) from southern Spain with molecular and morphometric evidence on its origin

The taxonomic status of the populations of Armeria from the Horconera massif (Cordoba province), previously misidentified or referred to without an explicit identification, is re-examined on the basis of morphological and molecular data. A multivariate analysis indicates that they can be discriminated from morphologically and geographically close taxa using morphometric characters. According to these results, and taking into account the previous evidence that supports extensive reticulation in the genus, a new species, A. trianoi , is formally described. Molecular evidence from our previous works, in particular the nuclear ribosomal ITS sequence data, provides the frame for a discussion on the origin of the new entity. It is suggested that A. trianoi may be the result of introgression of sympatric populations of A. villosa subsp. longiaristata into a pre-existing taxon, possibly A. filicaulis var. minor presently occurring in Sierra Tejeda some 50 km apart.     

Anatomies and lifestyles,morphometrics and niche metrics: Tools for studying primate evolution

In recent years, comparative observations of primate anatomies have been extended using measurements and computer analyses: morphometrics. A question then follows. Can we extend field observations of animal lifestyles using measurement and computer analysis, using, in other words, a new «niche metrics», for comparison with the morphometrics of animal anatomies? This has been attempted (Oxnard, Crompton & Lieberman, 1990) by «measuring» 17 lifestyle variables (on locomotion, environment and diet) for 28 prosimian primate species. These data have been analysed by multivariate statistical methods entirely similar to those used in morphometrics. The results define groups of prosimian species that seem not to be related directly with taxonomy and evolution, but with functional adaptation to lifestyle. Comparisons between the morphometric and niche metric results reveal a degree of similarity of species grouping in each that is apparently related to adaptation and remarkably detailed. But further study of both the morphometric and niche metric results suggests that questions pertaining to evolution may also be asked. Thus, both morphometric investigations seeking clusterings of anatomical variables and niche metric studies seeking clustering of higher taxonomic groups of species produce results that seem to be of developmental and phylogenetic rather than directly adaptive import. Through the combination of these two approaches, it may eventually be possible to partition both evolutionary and adaptive components, even though, of course, there must always be overlap between them.     

The critical size bony defect in a small animal for bone healing studies (I): Comparative anatomical study on rats' femur.

Laboratory rats are small animal models which are often used for scientific investigations in medicine. So far there are only few scientific data about the meaning of these small animal models for in vivo bone healing studies available in literature. Although the rat's femur with its cyclic loadings during gait is an appropriate model for investigations in the field of experimental orthopaedics and traumatology there is a lack of morphometric information with respect to its anatomy. The aim of this study is to evaluate the anatomy of rat femurs in two species, which are often performed in animal experimental medicine. These morphometric data should contribute to develope an appropriated osseous fragment fixation system in the rat's femur. The femurs of Wistar (WR) and Sprague Dawley (SDR) cadavers were prepared and analysed by x-rays in two standard planes. The results were compared with the corresponding data for humans by literature. It could be demonstrated that SDR showed a higher caput-collum-diaphyseal and antetorsion angle, but a lower transcondylar femur valgus angle compared to WR. Cortical thickness, bone marrow cavity diameter and femur length were higher in WR. Wistar rat's femur anatomy shows more similarities to human anatomy than Sprague Dawley rats.     

A scanning cytophotometer for the analysis of closely contiguous objects

A measuring complex including microscope-photometer and computer is described to be used for scanning of a sample inside of an arbitrary contour. The complex is supplied with a television channel for simultaneous control of the sample and photometric diaphragm, and also with a manual manipulator for setting the boundaries of the informational zone. At the end of scanning the cytophotometric and morphometric data are registered.     

Video-based image collection for quantitative histopathology

Obtaining histologic images for computer-based morphometric analysis is associated with a number of standardization problems, which must be solved if reproducible data collection is expected. These problems include tissue processing, sectioning and staining, standardizing and calibrating the video camera and determining the appropriate sampling rate (pixels/micron). Suggested solutions for these problems are presented for a specific image analysis system, but are applicable to other systems with similar capabilities. Biologic variability is not eliminated by computer-assisted analysis, so it is important to minimize data-collection artifacts by parallel processing of experimental and control material, as in other investigative work.     

An off-line system for in-time analysis of cardiac catheterization data and for establishment of a cardiological database for retrospective studies.

The system described may be divided in two major parts: (i) automatic analysis of cardiac catheterization data running off-line on a Siemens 305 computer; (ii) storage and retrieval of the results from these analyses and additional data from related departments (thoracic surgery, internal medicine and clinical physiology) in a cardiological database on an IBM 370/155 computer. The first part is described with special regard to (i) operation and control during the phases of data collection, pre-processing, processing and storage of results; (ii) the presentation of the results in a complete and readable form and (iii) the modular design of the software. The results of an evaluation of the computer methods versus manual methods are also presented. The second part has been described with regard to the type of data entered in the cardiological database. The structure of the database and the programs used for storage and retrieval have not been described in detail in the present publication.     

A new cryptic species of Aphaenops (Coleoptera: Carabidae: Trechinae) from a French Pyrenean cave: Congruence between morphometrical and geographical data confirm species isolation

A new species of cave-dwelling beetle from the pyrenean massif, Aphaenops (Cerbaphaenops) jauzioni n. sp. (Coleoptera: Carabidae), is described. Geometric morphometric analyses based on five morphological structures and comparisons with two populations of the closely related species Aphaenops (Cerbaphaenops) cerberus Dieck 1869 support the uniqueness of the new species. The specific status of the new taxon is also confirmed by the male genitalia structures. A putative scenario of population isolation is proposed.     

Temporal organization of the thyroid gland in A/He mice (morphometric investigation)

Biological rhythms of structural elements of the thyroid gland of A/He mice were studied by morphometric methods followed by spectral amplitude and phase analysis on the Minsk-32 computer. The morphological data show that the activity of the organ is maximal at night. The biorhythms have a complex frequency spectrum, including intradian, circadian, and ultradian components.     

A knowledge model for analysis and simulation of regulatory networks

MOTIVATION: In order to aid in hypothesis-driven experimental gene discovery, we are designing a computer application for the automatic retrieval of signal transduction data from electronic versions of scientific publications using natural language processing (NLP) techniques, as well as for visualizing and editing representations of regulatory systems. These systems describe both signal transduction and biochemical pathways within complex multicellular organisms, yeast, and bacteria. This computer application in turn requires the development of a domain-specific ontology, or knowledge model. RESULTS: We introduce an ontological model for the representation of biological knowledge related to regulatory networks in vertebrates. We outline a taxonomy of the concepts, define their 'whole-to-part' relationships, describe the properties of major concepts, and outline a set of the most important axioms. The ontology is partially realized in a computer system designed to aid researchers in biology and medicine in visualizing and editing a representation of a signal transduction system.     

Combined Ki-67 and feulgen stain for morphometric determination of the Ki-67 labelling index

In this note we present a combined Ki-67 and Feulgen stain for morphometric determination of the Ki-67 labelling index. The immunohistochemical part of this double staining technique is based on the alkaline-phosphatase-anti-alkaline-phosphatase (APAAP) method, visualizing the enzyme activity by the nitro-blue-tetrazolium chloride (NBT)/bromo-chloro-3-indolyl-phosphate (BCIP) technique. The NBT/BCIP complex resists the hydrolytic activity of the Feulgen stain. The staining method presented allows semi-automatic determination of both the total nucleus-area as well as the Ki-67 positive nucleus-area using a morphometric computer system. The Ki-67 labelling index thus achieved is based on the relative nuclear area of Ki-67 positive nuclei and is clearly more precise and efficient than the counting method using an ocular grid.     

A method of factor analysis for shape coordinates

Currently the most common reporting style for a geometric morphometric (GMM) analysis of anthropological data begins with the principal components of the shape coordinates to which the original landmark data have been converted. But this focus often frustrates the organismal biologist, mainly because principal component analysis (PCA) is not aimed at scientific interpretability of the loading patterns actually uncovered. The difficulty of making biological sense of a PCA is heightened by aspects of the shape coordinate setting that further diverge from our intuitive expectations of how morphometric measurements ought to combine. More than 50 years ago one of our sister disciplines, psychometrics, managed to build an algorithmic route from principal component analysis to scientific understanding via the toolkit generally known as factor analysis. This article introduces a modification of one standard factor‐analysis approach, Henry Kaiser's varimax rotation of 1958, that accommodates two of the major differences between the GMM context and the psychometric context for these approaches: the coexistence of “general” and “special” factors of form as adumbrated by Sewall Wright, and the typical loglinearity of partial warp variance as a function of bending energy. I briefly explain the history of principal components in biometrics and the contrast with factor analysis, introduce the modified varimax algorithm I am recommending, and work three examples that are reanalyses of previously published cranial data sets. A closing discussion emphasizes the desirability of superseding PCA by algorithms aimed at anthropological understanding rather than classification or ordination.     

The Good,the Bad,and the Ugly: The Influence of Skull Reconstructions and Intraspecific Variability in Studies of Cranial Morphometrics in Theropods and Basal Saurischians

Several studies investigating macroevolutionary skull shape variation in fossil reptiles were published recently, often using skull reconstructions taken from the scientific literature. However, this approach could be potentially problematic, because skull reconstructions might differ notably due to incompleteness and/or deformation of the material. Furthermore, the influence of intraspecific variation has usually not been explored in these studies. Both points could influence the results of morphometric analyses by affecting the relative position of species to each other within the morphospace. The aim of the current study is to investigate the variation in morphometric data between skull reconstructions based on the same specimen, and to compare the results to shape variation occurring in skull reconstructions based on different specimens of the same species (intraspecific variation) and skulls of closely related species (intraspecific variation). Based on the current results, shape variation of different skull reconstructions based on the same specimen seems to have generally little influence on the results of a geometric morphometric analysis, although it cannot be excluded that some erroneous reconstructions of poorly preserved specimens might cause problems occasionally. In contrast, for different specimens of the same species the variation is generally higher than between different reconstructions based on the same specimen. For closely related species, at least with similar ecological preferences in respect to the dietary spectrum, the degree of interspecific variation can overlap with that of intraspecific variation, most probably due to similar biomechanical constraints.     

Learning to see the wood for the trees: machine learning,decision trees,and the classification of isolated theropod teeth

Taxonomic identification of fossils based on morphometric data traditionally relies on the use of standard linear models to classify such data. Machine learning and decision trees offer powerful alternative approaches to this problem but are not widely used in palaeontology. Here, we apply these techniques to published morphometric data of isolated theropod teeth in order to explore their utility in tackling taxonomic problems. We chose two published datasets consisting of 886 teeth from 14 taxa and 3020 teeth from 17 taxa, respectively, each with five morphometric variables per tooth. We also explored the effects that missing data have on the final classification accuracy. Our results suggest that machine learning and decision trees yield superior classification results over a wide range of data permutations, with decision trees achieving accuracies of 96% in classifying test data in some cases. Missing data or attempts to generate synthetic data to overcome missing data seriously degrade all classifiers predictive accuracy. The results of our analyses also indicate that using ensemble classifiers combining different classification techniques and the examination of posterior probabilities is a useful aid in checking final class assignments. The application of such techniques to isolated theropod teeth demonstrate that simple morphometric data can be used to yield statistically robust taxonomic classifications and that lower classification accuracy is more likely to reflect preservational limitations of the data or poor application of the methods.     

Cellular automaton simulation of tumour growth -- equivocal relationships between simulation parameters and morphologic pattern features.

OBJECTIVE: To develop an interpretation procedure which estimates simulation parameters (tumour cell motility, tumour cell adhesion, autocrine and paracrine growth control, stroma destruction) of simulated patterns solely based on morphometric features of the morphologic pattern. METHODS: A cellular automaton computer simulation program was developed which produces morphologic patterns by growth of a seed of tumour cells. At the beginning of each simulation run certain simulation parameters are assigned to the tumour cells. After the run has been completed, the resulting pattern is evaluated by a set of morphometric features. Simulation parameters and resulting morphometric features of 27,800 simulations were stored in a database and were used for the evaluation of potential relationships. RESULTS: Correlation analysis showed highly significant correlations between morphometric features on the one hand and the preset simulation parameters (tumour cell motility, tumour cell adhesion, autocrine and paracrine growth control, stroma destruction) on the other. Correlation coefficients, however, varied from 0.72 to 0.99. When only one simulation parameter varied while all others were kept constant, morphometric features yielded a highly reliable estimate of the particular simulation parameter. When variability was extended to 4 simulation parameters, morphometric features were less effective in estimating the setting of the parameters. Though in all patterns tested several possible simulation parameter constellations could be ruled out, morphometric features were usually compatible with more than one set of simulation parameters thus preventing a straightforward interpretation. CONCLUSIONS: Though simulation parameters significantly and reproducibly influence the resulting morphologic pattern as characterized by morphometric features, estimates of the simulation parameters based on morphometric features yield equivocal results.     

Morphometric characteristics of the muscles of the lower extremities during movement in the human

Systemic investigation of the mechanisms that control locomotions in the man provides elaboration of some problems concerning properties and construction of the locomotory apparatus, especially morphometric characteristics of the muscles--length and shoulder of the thrust force. Various methods for determining length and shoulder of the thrust force are considered. The first method is based on substituting the muscles for mathematical or mechanical model. The second method makes it possible to define the degree of the muscle elongation by means of measuring the distance between the ends of the sectioned tendon; it includes regression equations, connecting a relative elongation of the muscles with the angle change in the joints. As a result of perfection of the previously known methods, mathematical models are made, owing to them it is possible to calculate morphometric characteristics of 8 muscles in the lower extremities using computer facilities. As an example, results of calculations, by means of various methods, morphometric characteristics of the gastrocnemius muscle are presented. They are obtained at registration of the kinematics of the run with a maximal speed. Satisfactive coincidence of the results is obtained.     

A double scanning microphotometer for image analysis: hardware, software and biomedical applications.

A new image processing system designed for densitometry and pattern analysis of microscopic specimens is described with special regard to the hardware, the software and the biologic applications. The data acquisition procedure involves the combination between the scanning of the preparation by means of a motorized stage and the scanning of successive fields by a mechanical device. The signal provided by the photomultiplier is converted into digital values which are directed to an on-line computer. The data processing is based on a one-pass computation involving automata theory and therefore it avoids the storage of the image in the computer memory. In so doing, an entire and continuous image of the whole preparation can be processed at the highest magnification of the microscope whatever the size of the analyzed specimen may be. A biologic application of the system is reported and concerns the automatic identification and counting of cells in the various phases of the mitotic cycle.     

Geometric craniometric analysis of sexual dimorphism and ontogenetic variation: A case study based on two geographically disparate species, Aethomys ineptus from southern Africa and Arvicanthis niloticus from Sudan (Rodentia: Muridae)

Non-geographic morphometric variation, particularly at the level of sexual dimorphism and ontogenetic (age-related) variation, has been documented in rodents, and useful for establishing whether to analyse sexes separately or together, and for selecting adult specimens for subsequent data recording and analysis. However, such studies have largely been based on traditional morphometric analyses of linear measurements that mainly focus on overall size, rather than shape-related morphometric variation. Unit-free, landmark/outline-based geometric morphometric analyses are considered to offer a more appropriate tool for assessing shape-related morphometric variation. In this study, we used geometric cranial morphometric analysis to assess the nature and extent of sexual dimorphism and age variation within the Tete veld rat, Aethomys ineptus (Thomas and Wroughton, 1908) from southern Africa and the African Nile rat, Arvicanthis niloticus (Desmarest, 1822) from Sudan. The results obtained were in turn compared with previously published results based on independent geometric and traditional cranial morphometric data from the same sampled populations examined in the present study. While our geometric morphometric results detected statistically significant sexual dimorphism in cranial shape within Ar. niloticus only, previously published results based on traditional morphometric data failed to detect significant sexual dimorphism within this species. However, similar to previously published traditional morphometric data, our geometric morphometric results detected statistically significant age-related variation in cranial shape and size within both Ae. ineptus and Ar. niloticus, with individuals of age classes 5 and 6 being considered to represent adult specimens. Our results highlight the importance of carefully evaluating both size- and shape-related non-geographic morphometric variation prior to the analysis of geographic variation and the delineation of species. Erroneous conclusions of non-geographic variation may have implications in the interpretation of geographic and evolutionary processes that may be responsible for morphological differences at both the inter- and intra-specific levels.