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1.
PHILLIP CASSEY GAVIN H. THOMAS STEVEN J. PORTUGAL GOLO MAURER MARK E. HAUBER TOMÁŠ GRIM P. GEORGE LOVELL IVAN MIKŠÍK 《Biological journal of the Linnean Society. Linnean Society of London》2012,106(3):657-672
The colourful appearance of bird eggshells has long fascinated biologists and considerable research effort has focused on the structure and biochemistry of the avian eggshell matrix. The presence of tetrapyrrole pigments was identified nearly a century ago. Surprisingly, how the concentrations of avian eggshell pigments vary among related species, and whether this variability is associated with either eggshell appearance and/or species life‐history traits, remains poorly understood. We quantified the concentrations of the two key eggshell pigments, protoporphyrin IX and biliverdin, from a diverse sample of eggshells stored at the Natural History Museum, Tring, UK. We explicitly tested how these two pigments are associated with physical measures of eggshell coloration and whether the pigment concentrations and colour diversity co‐vary with phylogenetic affiliations among species. We also tested a series of comparative hypotheses regarding the association between the concentrations of the two pigments and specific life‐history and breeding ecology traits. Across species, the average concentrations of protoporphyrin and biliverdin were positively correlated, and both strongly co‐varied with phylogenetic relatedness. Controlling for phylogeny, protoporphyrin concentration was associated with a higher likelihood of cavity nesting and ground nesting, whereas biliverdin concentration was associated with a higher likelihood of non‐cavity nesting habit and bi‐parental provisioning. Although unlikely to be explained by a single function, the breeding ecology and life history‐dependence of eggshell pigment concentrations in these comparative analyses implies that related species share pigment strategies, and that those strategies relate to broad adaptive roles in the evolution of variation in avian eggshell coloration and its underlying mechanisms. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, 106 , 657–672. 相似文献
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Michael A. Berthaume 《American journal of physical anthropology》2014,153(2):226-235
Mammalian molars have undergone heavy scrutiny to determine correlates between morphology and diet. Here, the relationship between one aspect of occlusal morphology, tooth cusp radius of curvature (RoC), and two broad dietary categories, folivory and frugivory, is analyzed in apes. The author hypothesizes that there is a relationship between tooth cusp RoC and diet, and that folivores have sharper teeth than frugivores, and further test the correlation between tooth cusp RoC and tooth cusp size. Eight measures of tooth cusp RoC (two RoCs per cusp) were taken from 53 M2s from four species and subspecies of frugivorous apes (Pongo pygmaeus, Pan troglodytes troglodytes, Pan troglodytes schweinfurthii, and Gorilla gorilla gorilla) and two subspecies of folivorous apes (Gorilla beringei beringei, and Gorilla beringei graueri). Phylogenetically corrected ANOVAs were run on the full dataset and several subsets of the full dataset, revealing that, when buccolingual RoCs are taken into account, tooth cusp RoCs can successfully differentiate folivores and frugivores. PCAs revealed that folivores consistently had duller teeth than frugivores. In addition, a weak, statistically significant positive correlation exists between tooth cusp size and tooth cusp RoC. The author hypothesizes differences in tooth cusp RoC are correlated with wear rates, where, per vertical unit of wear, duller cusps will have a longer length of exposed enamel ridge than sharper cusps. More data need to be gathered to determine if the correlation between tooth cusp RoC and tooth cusp size holds true when small primates are considered. Am J Phys Anthropol 153:226–235, 2014. © 2013 Wiley Periodicals, Inc. 相似文献
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Improved statistical tests for differential gene expression by shrinking variance components estimates 总被引:14,自引:0,他引:14
Combining information across genes in the statistical analysis of microarray data is desirable because of the relatively small number of data points obtained for each individual gene. Here we develop an estimator of the error variance that can borrow information across genes using the James-Stein shrinkage concept. A new test statistic (FS) is constructed using this estimator. The new statistic is compared with other statistics used to test for differential expression: the gene-specific F test (F1), the pooled-variance F statistic (F3), a hybrid statistic (F2) that uses the average of the individual and pooled variances, the regularized t-statistic, the posterior odds statistic B, and the SAM t-test. The FS-test shows best or nearly best power for detecting differentially expressed genes over a wide range of simulated data in which the variance components associated with individual genes are either homogeneous or heterogeneous. Thus FS provides a powerful and robust approach to test differential expression of genes that utilizes information not available in individual gene testing approaches and does not suffer from biases of the pooled variance approach. 相似文献
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Yoshito Hirata Kai Morino Taiji Suzuki Qian Guo Hiroshi Fukuhara Kazuyuki Aihara 《Quantitative Biology.》2016,4(1):13
We review our studies on how to identify the most appropriate models of diseases, and how to determine their parameters in a quantitative manner given a short time series of biomarkers, using intermittent androgen deprivation therapy of prostate cancer as an example. Recently, it has become possible to estimate the specific parameters of individual patients within a reasonable time by employing the information concerning other previous patients as a prior. We discuss the importance of using multiple mathematical methods simultaneously to achieve a solid diagnosis and prognosis in the future practice of personalized medicine. 相似文献
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We are interested in finding a dose that has a prespecified toxicity rate in the target population. In this article, we investigate five estimators of the target dose to be used with the up-and-down biased coin design (BCD) introduced by Durham and Flournoy (1994, Statistical Decision Theory and Related Topics). These estimators are derived using maximum likelihood, weighted least squares, sample averages, and isotonic regression. A linearly interpolated isotonic regression estimate is shown to be simple to derive and to perform as well as or better than the other target dose estimators in terms of mean square error and average number of subjects needed for convergence in most scenarios studied. 相似文献
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It is well known that point estimates in group sequential designs are biased. This also applies to adaptive designs that enable, e.g., data driven reassessments of group sample sizes. For triangular designs, Whitehead (1986) (Biometrika 73 , 573–581) proposed a bias adjusted estimate. But this estimate is not feasible in adaptive designs although it is in group sequential designs. Furthermore, there is a waste of information because it does not use the information at which stage the trial was stopped. We present a modification which does use this information and which is applicable to adaptive designs. The modified estimate achieves an improvement in group sequential designs and shows similar results in adaptive designs. 相似文献
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Point estimation in group sequential and adaptive trials is an important issue in analysing a clinical trial. Most literature in this area is only concerned with estimation after completion of a trial. Since adaptive designs allow reassessment of sample size during the trial, reliable point estimation of the true effect when continuing the trial is additionally needed. We present a bias adjusted estimator which allows a more exact sample size determination based on the conditional power principle than the naive sample mean does. 相似文献
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Mark Stemmler 《Biometrical journal. Biometrische Zeitschrift》1994,36(8):911-925
The interaction structure analysis (ISA) is proposed as a nonparametric procedure for the evaluation of uni- and multivariate analysis of variance models. Main effects and interactions of (independent) treatment variables are replaced by interaction-types where types are defined as those treatment-response combinations which occur significantly more often than expected under a null hypothesis (Ho) of no treatment effects. The application of ISA and the typological interpretation of ISA results are illustrated for an ANOVA design from toxicology and for a MANOVA design from psychopharmacology. 相似文献
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McNamee R 《Biometrics》2004,60(3):783-792
Two-phase designs for estimation of prevalence, where the first-phase classification is fallible and the second is accurate but relatively expensive, are not necessarily justified on efficiency grounds. However, they might be advantageous for dual-purpose studies, for example where prevalence estimation is followed by a clinical trial or case-control study, if they can identify cases of disease for the second study in a cost-effective way. Alternatively, they may be justified on ethical grounds if they can identify more, previously undetected but treatable cases of disease, than a simple random sample design. An approach to sampling is proposed, which formally combines the goals of efficient prevalence estimation and case detection by setting different notional study costs for investigating cases and noncases. Two variants of the method are compared with an \"ethical\" two-phase scheme proposed by Shrout and Newman (1989, Biometrics 45, 549-555), and with the most efficient scheme for prevalence estimation alone, in terms of the standard error of the prevalence estimate, the expected number of cases, and the fraction of cases among second-phase subjects, given a fixed budget. One variant yields the highest fraction and expected number of cases but also the largest standard errors. The other yields a higher fraction than Shrout and Newman's scheme and a similar number of cases but appears to do so more efficiently. 相似文献
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Bergrun T. Magnusdottir 《Biometrical journal. Biometrische Zeitschrift》2016,58(3):518-534
The aim of dose finding studies is sometimes to estimate parameters in a fitted model. The precision of the parameter estimates should be as high as possible. This can be obtained by increasing the number of subjects in the study, N, choosing a good and efficient estimation approach, and by designing the dose finding study in an optimal way. Increasing the number of subjects is not always feasible because of increasing cost, time limitations, etc. In this paper, we assume fixed N and consider estimation approaches and study designs for multiresponse dose finding studies. We work with diabetes dose–response data and compare a system estimation approach that fits a multiresponse Emax model to the data to equation‐by‐equation estimation that fits uniresponse Emax models to the data. We then derive some optimal designs for estimating the parameters in the multi‐ and uniresponse Emax model and study the efficiency of these designs. 相似文献
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本文就遗传参数的估算,对双列杂交分析中应用最广的Griffing法和Hayman法作了比较。结果表明,Hayman法估算非加性方差的结果比Griffing法小(p-1)/P~2_5~2, 而估算加性方差和遗传方差的结果则分别比Griffing法大2(p-1)/P~2_s~2和(p-1)/P~2_s~2。另外,本文还就造成两种方法分析结果不同的原因作了讨论。 相似文献
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单种群生长的广义Logistic模型中参数的一种估值方法 总被引:2,自引:1,他引:2
本文提出种群生长的实测数据与广义Logistic模型的相容性条件,给出估计环境容纳量K的数学方法,利用常微分方程反问题的处理方法与麦夸特方法,对模型中参数进行近似估计与优化估计,其方法简便、通用性强. 相似文献
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不同程度人为干扰对古田山森林群落谱系结构的影响 总被引:2,自引:0,他引:2
群落谱系结构包含群落发育的历史信息,能从新的角度反映群落形成的生态过程.作者在浙江古田山自然保护区亚热带常绿阔叶林中选择了人为干扰强度不同的4种群落类型,以20 m×20 m为研究尺度探讨了不同干扰程度对群落谱系结构的影响.结果表明,人工林(类型Ⅰ)谱系结构发散;但间伐林(类型Ⅱ)、自然恢复林(类型Ⅲ)以及自然老龄林(类型Ⅳ)谱系结构聚集,且以类型Ⅱ和Ⅳ聚集度最高.进一步分析不同径级谱系结构发现,在中小径级(DBH≤5 cm和5 cm10 cm时,除了类型Ⅳ,其他3种群落都是谱系结构发散,这反映了在恢复早期种子扩散对这些林型群落构建影响较大:而皆伐后的演替和间伐增加了群落生境异质性,生境过滤作用增强,使类型Ⅱ、Ⅲ群落中小径级谱系结构表现为聚集;类型Ⅳ群落不同径级谱系结构均表现为聚集,可能与其稳定的生境过滤作用有关. 相似文献
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The pharmacokinetic behavior of furosemide concentrations in performance horses is of great interest to the equine industry and equine researchers. Specifically, such information is useful for the evaluation of the existing guidelines in several racing jurisdictions and for the possible development of new guidelines for varying time periods after administration. We studied several approaches within the framework of nonlinear mixed effects models to increase the accuracy of evaluating these guidelines. Theoretical properties of the proposed methods were examined and the variances of the resulting estimators compared. Their numerical performances were further evaluated through simulations. Finally, we applied these methods to a furosemide concentration profile data set and used our findings to address certain important practical issues. 相似文献
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FERNANDO LENCASTRE SICURO 《Biological journal of the Linnean Society. Linnean Society of London》2011,103(1):176-190
The skulls of 33 extant cat species were characterized through three‐dimensional geometric morphometrics using 20 landmarks. A principal component analysis (PCA) was performed with Procrustes fitted coordinates, and the PC‐scores were phylogenetically corrected by independent contrasts method. Three PCs allowed for the definition of five cat skull patterns. PC1: ‘snouted/massive‐headed cats’ (genus Panthera) opposing the ‘round‐headed small cats’ (genus Oncifelis, Prionailurus rubiginosus, Prionailurus bengalensis, among other small cats); PC2: ‘tapering‐headed cats’ (Neofelis nebulosa, Herpailurus yagouaroundi, Prionailurus planiceps) opposing the ‘stout‐headed cats’ (Acinonyx jubatus, Uncia uncia, Otocolobus manul, Felis margarita, and Felis nigripes); and PC3: ‘low profiled‐headed cats’ (mostly, Pr. planiceps). A sixth pattern, the ‘generalized skull’, observed in the Caracal lineage, genus Lynx, Leopardus pardalis, and Catopuma temminckii, indicates a morphological convergence among midsized‐cats. The morphological trends ‘snouted/massive’ and ‘round’ clearly denote a co‐evolution between size and shape. The other skull patterns evolved unrelatedly to the size (i.e. their allometric variations are not a size function). Nevertheless, each species comprises an amalgam of these patterns, so the influence of the size permeates, in some extent, the skull morphology along all cat lineages. The felid ecomorphological fit to hypercarnivory is obvious; however, different skull shapes in same‐sized species with similar habits, indicate that the variation in the skull morphology may result from phenotypic fluctuations, whose adaptive value (if indeed there is any) is still obscure. © 2011 The Linnean Society of London, Biological Journal of the Linnean Society, 2011, 103 , 176–190. 相似文献
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介绍了一种采用标记-重捕获技术估计动物种群密度的捕获网抽样方法。在回顾该方法国内外研究进展的基础上,分析了由于该法参数估算过程复杂和缺乏相关的处理计算软件对其应用的限制,提出了捕获网抽样方法参数估计的表格化处理技术。并以美国New Mexico附近白脚鼠的种群密度调查数据分析为例,介绍了嵌入DPS电子工作表的捕获网抽样参数估计表格化处理过程;最后就捕获网抽样参数估计的研究重点提出一些看法和展望。 相似文献
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《Animal : an international journal of animal bioscience》2014,8(10):1577-1585
This study aimed to identify genetic evaluation models (GEM) to accurately select cattle for milk production when only limited data are available. It is based on a data set from the Pakistani Sahiwal progeny testing programme which includes records from five government herds, each consisting of 100 to 350 animals, with lactation records dating back to 1968. Different types of GEM were compared, namely: (1) multivariate v. repeatability model when using the first three lactations, (2) an animal v. a sire model, (3) different fixed effects models to account for effects such as herd, year and season; and (4) fitting a model with genetic parameters fixed v. estimating the genetic parameters as part of the model fitting process. Two methods were used for the comparison of models. The first method used simulated data based on the Pakistani progeny testing system and compared estimated breeding values with true breeding values. The second method used cross-validation to determine the best model in subsets of actual Australian herd-recorded data. Subsets were chosen to reflect the Pakistani data in terms of herd size and number of herds. Based on the simulation and the cross-validation method, the multivariate animal model using fixed genetic parameters was generally the superior GEM, but problems arise in determining suitable values for fixing the parameters. Using mean square error of prediction, the best fixed effects structure could not be conclusively determined. The simulation method indicated the simplest fixed effects structure to be superior whereas in contrast, the cross-validation method on actual data concluded that the most complex one was the best. In conclusion it is difficult to propose a universally best GEM that can be used in any data set of this size. However, some general recommendations are that it is more appropriate to estimate the genetic parameters when evaluating for selection purposes, the animal model was superior to the sire model and that in the Pakistani situation the repeatability model is more suitable than a multivariate. 相似文献