Bhattacharyya’s distance measure as a precursor of genetic distance measures

In Population Genetics, two populations are distinguished from each other on the basis of the differences in the distributions of the alleles at the locus or loci under consideration. These differences are measured by a “genetic distance” between the two populations (not to be confused with genetic distance between two loci, which is based on recombination fractions) and they play a major role in inferences at the population level. Several measures of genetic distance have been proposed by different authors (Sanghvi 1953; Cavalli-Sforza and Edwards 1967; Jukes and Cantor 1969; Nei 1972; Kimura 1980; Reynoldset al 1983; reviews in Felsenstein 1991; Nei and Kumar 2000). Most of these measures are actually dissimilarity measures and not mathematically true distance measures (B-Rao and Majumdar 1999). Independently, and much before the geneticists, statisticians too were concerned with the idea of distinguishing between two (statistical) populations. In order to discriminate between two populations on the basis of one or more characters, divergence measures like “Mahalanobis’D ² statistic” or “Mahalanobis’ generalized distance” (1936) and “Bhattacharyya’s distance” (1943, 1946), Kullback-Leibler’s divergence measure (1951) etc. have been proposed by statisticians. Mukherjee and Chattopadhyaya (1986) have mentioned measures based on distances, association between two attributes and discrimination function. There are similarities between the distance measures defined by applied scientists and by theoreticians. Felsenstein (1985) shows that three of the allele frequency-based genetic distance measures were anticipated by Bhattacharyya (1946). Nei and Takezaki (1994) have also studied the effectiveness of several genetic distance measures in the context of phylogenetic analysis, including Bhattacharyya’s distance measure.     

‘Minority’ as a sociological concept

This article considers how a Muslim cultural discourse of ‘propriety’ has influenced Muslim Arab Sudanese ethnic identity in two locations and time periods in an expanding diaspora. Focusing in particular on women and their embodied practices of whitening and propriety in Egypt in the nineties and the United Kingdom a decade later, I argue that the recent turn towards Muslim expressions of Sudaneseness is a form of resistance to racial labelling. While Sudanese have rejected being labelled ‘black’ in Egypt and in the UK, their renegotiation of a Muslim religious identity in the diaspora nevertheless confirms a racialized Sudanese ethnicity. This study contributes to the rethinking of ethnicity in a transnational space where ethnic nationalism and globalized Islamic discourse intersect with local histories and hierarchies of race and gender.     

Implementation of a ‘standard’ LIMS

This article is an extract of a presentation given at the LIMS conference in the Hague June 4, 1997 [S.M. Fransen et al., Presentation given at the conference LIMS 97, June 4 1997 in the Hague.]. It describes the project steps for the LIMS project in the Danish company Novo Nordisk, with focus on vendor evaluation, validation and implementation of a ‘Standard’ LIMS software. The main project steps are described and experiences gained are discussed.     

‘Kumanasamuha’ a new genus of dematiaceae

Summary Kumanasamuha a new genus of Dematiaceae is described, collected growing as saprophyte on unidentified wood, from Pakhal forest, withK. sundara as type.     

The reef coral Goniastrea aspera: a ‘winner’ becomes a ‘loser’ during a severe bleaching event in Thailand

The reef coral Goniastrea aspera is regarded as one of the most environmentally tolerant species on Indo-Pacific reefs. Its demise, following a severe bleaching event in the Andaman Sea in the north-eastern Indian Ocean in 2010, was surprising in view of the rapid recovery of co-existing species such as Porites lutea. Demographic studies of G. aspera at this site showed the population was mainly composed of large individuals, which recruited in the early 1990s. These results, and size-specific mortality observed in G. aspera, post-bleaching, suggest that factors, related to size and age, may have contributed to the coral’s marked decline.     

Is there a ‘plenhaptic’ function?

One approach to gauge the complexity of the computational problem underlying haptic perception is to determine the number of dimensions needed to describe it. In vision, the number of dimensions can be estimated to be seven. This observation raises the question of what is the number of dimensions needed to describe touch. Only with certain simplified representations of mechanical interactions can this number be estimated, because it is in general infinite. Organisms must be sensitive to considerably reduced subsets of all possible measurements. These reductions are discussed by considering the sensing apparatuses of some animals and the underlying mechanisms of two haptic illusions.     

Synthesis of a ‘direct-linked’ C-disaccharide from a pyranulose glycoside

Syntheses of five ‘direct linked’ C-disaccharides 8a–e were reported. The (Et₃SiH/BF₃·Et₂O) reduction of pyranulose glycoside 1 yielded (6S)- and (6R)-6-(2,3,5-tri-O-benzoyl-β-d-ribofuranosyl)pyran-3(2H,6H)-one (2a and 2b) in a ratio of ca. 2:1 and in 88% combined yield. The absolute stereochemistry of each was determined from its CD spectrum. The reduction of 2a with NaBH₄ in methanol afforded two allylic alcohols 6a and 6b in 14 and 73% yield, respectively. The reduction of 2b with NaBH₄ afforded 6c and 6d in 30 and 56% yield, respectively. Cis hydroxylation of the double bond in compounds 6a–d with osmium tetroxide gave 7a–e. The stereoisomers 7a–e were separated and their configuration was established by ¹H NMR spectroscopy. Debenzoylation of compounds 7a–e with aqueous sodium carbonate produced deprotected C-disaccharides 8a–e.     

The ‘Psychic Surgeon’ and the schizophrenic patient: Crisis in a ‘Medicodrama’

This paper is concerned with a Filipino psychic surgeon confronted by a particularly challenging case of a kind perhaps unprecedented in his practice. The paper describes and analyzes how the practitioner modified his usual clinical performance and adapted his actions to demands of an extremely difficult situation. The case is viewed in wider perspective relative to the significance of performative acts of healing in a pluralistic medical setting.     

‘Neurosecretion’ by a classic cholinergic innervation apparatus

Summary Nerve terminals forming typical synapses with adrenal chromaffin tissues have been examined in the goldfish, frog (Rana pipiens), hamster and rat. Presumptive secretory inclusions present in the terminals are of two distinct types. Electron-lucent synaptic vesicles 30–50 nm in diameter are densely clustered adjacent to membrane thickenings and presumably discharge their contents into the synaptic clefts. Secretory granules (i.e. large dense-cored vesicles) 60–100 nm in diameter are more abundant in other parts of the terminals. Sites of granule exocytosis have been observed in each of the animals investigated. They are usually encountered within apparently undifferentiated areas of plasmalemma and only rarely occur within synaptic thickenings. Granule exocytosis from within synaptic terminals and chromaffin gland cells is most readily observed in specimens exposed, prior to fixation, to saline solutions containing both tannic acid, and 4-aminopyridine and/or elevated levels of K⁺. These findings show that the pattern of secretory discharge, involving both synaptic and non-synaptic release, which is widespread in invertebrate central nervous systems, is also characteristic of vertebrate, peripheral cholinergic terminals.     

QTL analysis: a simple ‘marker-regression’ approach

A method to locate quantitative trait loci (QTL) on a chromosome and to estimate their additive and dominance effects is described. It applies to generations derived from an F₁ by selfing or backcrossing and to doubled haploid lines, given that marker genotype information (RFLP, RAPD, etc.) and quantitative trait data are available. The method involves regressing the additive difference between marker genotype means at a locus against a function of the recombination frequency between that locus and a putative QTL. A QTL is located, as by other regression methods, at that point where the residual mean square is minimised. The estimates of location and gene effects are consistent and as reliable as conventional flanking-marker methods. Further applications include the ability to test for the presence of two, or more, linked QTL and to compare different crosses for the presence of common QTL. Furthermore, the technique is straightforward and may be programmed using standard pc-based statistical software.     

Als ‘A’ niet meer als ‘a’ wordt herkend. Een analyse van verworven woordblindheid

A right-handed patient, aged 72, manifested alexia without agraphia, a right homonymous hemianopia and an impaired ability to identify visually presented objects. He was completely unable to read words aloud and severely deficient in naming visually presented letters. He responded to orthographic familiarity in the lexical decision tasks of the Psycholinguistic Assessments of Language Processing in Aphasia (PALPA) rather than to the lexicality of the letter strings. He was impaired at deciding whether two letters of different case (e.g., A, a) are the same, though he could detect real letters from made-up ones or from their mirror image. Consequently, his core deficit in reading was posited at the level of the abstract letter identifiers. When asked to trace a letter with his right index finger, kinesthetic facilitation enabled him to read letters and words aloud. Though he could use intact motor representations of letters in order to facilitate recognition and reading, the slow, sequential and error-prone process of reading letter by letter made him abandon further training.     

Performance of Young Children on ‘‘Traveling Salesperson’’ Navigation Tasks Presented on a Touch Screen

Background

The traveling salesperson problem (TSP) refers to a task in which one finds the shortest path when traveling through multiple spatially distributed points. Little is known about the developmental course of the strategies used to solve TSPs. The present study examined young children''s performance and route selection strategies in one-way TSPs using a city-block metric. A touch screen-based navigation task was applied.

Methodology/Principal Findings

Children (39–70 months) and adults (21–35 years) made serial responses on a touch screen to move a picture of a dog (the target) to two or three identical pictures of a bone (the goals). For all the versions of the tasks, significant improvement in measures of performance was observed from younger to older participants. In TSPs in which a specific route selection strategy such as the nearest-neighbor strategy minimized the total traveling distance, older participants used that strategy more frequently than younger ones. By contrast, in TSPs in which multiple strategies equally led to the minimal traveling distance, children tended to use strategies different from those used by adults, such as traveling straight to the farthest goal first.

Conclusions/Significance

The results primarily suggest development of efficient route selection strategies that can optimize total numbers of movements and/or solution time. Unlike adults, children sometimes prioritized other strategies such as traveling straight ahead until being forced to change directions. This may reflect the fact that children were either less attentive to the task or less efficient at perceiving the overall shape of the problem and/or the relative distance from the starting location to each goal.     

Special Issue on‘‘Computational Cardiology’’

<正>We are pleased to announce a special issue on‘‘Computational Cardiology’’of the journal Genomics,ProteomicsBioinformatics(GPB),aiming to provide a platform for high-quality papers focusing on the topic and we invite submissions for this special issue(to be published in the fall of 2015).Dr.Benjamin Meder(University of Heidelberg and German Center for Cardiovascular Research–DZHK