Shrinkage‐based Diagonal Discriminant Analysis and Its Applications in High‐Dimensional Data

Summary High‐dimensional data such as microarrays have brought us new statistical challenges. For example, using a large number of genes to classify samples based on a small number of microarrays remains a difficult problem. Diagonal discriminant analysis, support vector machines, and k‐nearest neighbor have been suggested as among the best methods for small sample size situations, but none was found to be superior to others. In this article, we propose an improved diagonal discriminant approach through shrinkage and regularization of the variances. The performance of our new approach along with the existing methods is studied through simulations and applications to real data. These studies show that the proposed shrinkage‐based and regularization diagonal discriminant methods have lower misclassification rates than existing methods in many cases.     

Mitotic spindle association of TACC3 requires Aurora‐A‐dependent stabilization of a cryptic α‐helix

Aurora‐A regulates the recruitment of TACC3 to the mitotic spindle through a phospho‐dependent interaction with clathrin heavy chain (CHC). Here, we describe the structural basis of these interactions, mediated by three motifs in a disordered region of TACC3. A hydrophobic docking motif binds to a previously uncharacterized pocket on Aurora‐A that is blocked in most kinases. Abrogation of the docking motif causes a delay in late mitosis, consistent with the cellular distribution of Aurora‐A complexes. Phosphorylation of Ser558 engages a conformational switch in a second motif from a disordered state, needed to bind the kinase active site, into a helical conformation. The helix extends into a third, adjacent motif that is recognized by a helical‐repeat region of CHC, not a recognized phospho‐reader domain. This potentially widespread mechanism of phospho‐recognition provides greater flexibility to tune the molecular details of the interaction than canonical recognition motifs that are dominated by phosphate binding.     

Cultural Competency and Rural Disorder in PNG Health Promotion

ABSTRACT

Health workers in Papua New Guinea strongly emphasise their duty to provide services to the country’s rural majority. Trained to see rural communities as lacking modern discipline and order, they worry that rural people will resist, perhaps with violence, if health workers fail to ‘show respect for culture’. Examining cultural improvisation among nursing students on a rural experience practicum in the Eastern Highlands, I show how students and teachers tried to craft culturally respectful health education. However, when difficulties emerged, local people were described as unable or unwilling to harim tok (understand, heed or follow instructions). The capacity to follow instructions, cultivated through education and Christian faith, was cast as incompatible with Highlands culture. Rural health promotion activities, when they fail to foment major transformation, can help reproduce the ideological construction of the people of the hauslain (village, hamlet) as emotionally volatile and ungovernable.     

北京城市公园环境下自生植物物种组成及多样性时空特征

城市绿地中的人工栽培植物景观已造成资源消耗过高、景观同质化等一系列问题。随着人类生态意识的提高,城市中可自播繁衍、无需过多养护管理同时可发挥生态效益的自生植物引起了国内外的广泛关注,但以往研究主要以整个城市环境作为基底,针对其在城市绿地中的分布特征鲜有报道。为揭示城市绿地中自生植物的多样性特征及其分布的时空格局以指导低维护景观的营建,本研究以北京奥林匹克森林公园为例,采用网格布样法,于2015年生长季的3—11月对所有样点重复调研七次,运用多样性指数、群落聚类、Duncan检验等统计计算方法针对物种组成、群落多样性及群落分类进行了深入探讨。结果表明:全园自生植物丰富,共记录到32科98属128种,其中乡土植物占76.56%,外来植物占23.44%,入侵植物占12.50%。在物种组成的时间变化上,各月份记录到的物种数呈单峰型分布,8月末物种数达到峰值,为98种;菊科(Asteraceae)植物物种数在整个生长季显著高于其他科,外来植物物种数及其所占比例均在夏季达到最高。从空间格局看,路边和林地是样方数量最多的生境类型,所容纳的物种数也最多,分别为109和106种。自生植物群落多样性在10月初显著高于其他月份,其次是8月末、4月末和6月初;各生境下的群落多样性排序较为不稳定,分析认为这是由于各季节不同程度的外界干扰所致。依据物种优势度,自生植物群落共被划分成了42个群落组,各季节和各生境下有其特定优势种和群落组合,其中有9个群落组在春、夏、秋三季均有出现,且大多数群落组随着季节变化景观呈现出丰富的野趣效果。这些研究结果在未来低维护、具有较高生物多样性及地域性特色的可持续性城市绿地植被景观营造中具有重要的参考价值。     

FlyXCDB—A Resource for Drosophila Cell Surface and Secreted Proteins and Their Extracellular Domains

Genomes of metazoan organisms possess a large number of genes encoding cell surface and secreted (CSS) proteins that carry out crucial functions in cell adhesion and communication, signal transduction, extracellular matrix establishment, nutrient digestion and uptake, immunity, and developmental processes. We developed the FlyXCDB database (http://prodata.swmed.edu/FlyXCDB) that provides a comprehensive resource to investigate extracellular (XC) domains in CSS proteins of Drosophila melanogaster, the most studied insect model organism in various aspects of animal biology. More than 300 Drosophila XC domains were discovered in Drosophila CSS proteins encoded by over 2500 genes through analyses of computational predictions of signal peptide, transmembrane (TM) segment, and GPI-anchor signal sequence, profile-based sequence similarity searches, gene ontology, and literature. These domains were classified into six classes mainly based on their molecular functions, including protein–protein interactions (class P), signaling molecules (class S), binding of non-protein molecules or groups (class B), enzyme homologs (class E), enzyme regulation and inhibition (class R), and unknown molecular function (class U). Main cellular functions such as cell adhesion, cell signaling, and extracellular matrix composition were described for the most abundant domains in each functional class. We assigned cell membrane topology categories (E, secreted; S, type I/III single-pass TM; T, type II single-pass TM; M, multi-pass TM; and G, GPI-anchored) to the products of genes with XC domains and investigated their regulation by mechanisms such as alternative splicing and stop codon readthrough.     

Factors influencing Manx Shearwater grounding on the west coast of Scotland

Grounding of thousands of newly fledged petrels and shearwaters (family Procellariidae) in built‐up areas due to artificial light is a global problem. Due to their anatomy these grounded birds find it difficult to take off from built‐up areas and many fall victim to predation, cars, dehydration or starvation. This research investigated a combination of several factors that may influence the number of Manx Shearwater Puffinus puffinus groundings in a coastal village of Scotland located close to a nesting site for this species. A model was developed that used meteorological variables and moon cycle to predict the daily quantity of birds that were recovered on the ground. The model, explaining 46.32% of the variance of the data, revealed how new moon and strong onshore winds influence grounding. To a lesser extent, visibility conditions can also have an effect on grounding probabilities. The analysis presented in this study can improve rescue campaigns of not only Manx Shearwaters but also other species attracted to the light pollution by predicting conditions leading to an increase in the number of groundings. It could also inform local authorities when artificial light intensity needs to be reduced.     

基于多光谱影像的森林树种识别及其空间尺度响应

当前,不同空间分辨率卫星影像对森林类型识别结果中普遍存在的尺度效应,而且纹理参量对不同尺度下树种识别精度的影响仍缺乏广泛认知.本研究以中国东北旺业甸林场为研究区,采用观测时相同步、地理坐标匹配的GF-1 PMS、GF-2 PMS、GF-1 WFV,以及Landsat-8 OLI卫星传感器数据组成空间尺度观测序列(1、2、4、8、16、30 m),并结合支持向量机(SVM)模型,探讨了区域内5种优势树种遥感识别结果的尺度变化规律及其纹理特征参数的影响,同时检验了基于尺度上推转换影像的树种识别结果差异.结果表明: 影像空间分辨率对区域树种识别结果具有显著影响,其中,研究区森林树种识别的最佳影像分辨率为4 m,当分辨率降低至30 m时,树种识别结果最差.在1～8 m影像分辨率范围内,增加纹理信息能够显著提高不同优势树种的识别精度,使总分类精度提升了2.0%～3.6%,但纹理信息对16～30 m影像的识别结果没有显著影响.与真实尺度卫星影像相比,基于升尺度转换影像的树种识别结果及其尺度响应特征存在显著差异,表明在面向多个空间尺度的遥感观测和应用研究中,需要采用真实分辨率影像以确保结果的准确性.