bluuebunny/crossref_metadata_2025 huggingface dataset:
A Brief Review of Computational Gene Prediction Methods
Authors: Wang Zhuo , Chen Yazhu , Li Yixue
Published: November 2016

With the development of genome sequencing for many organisms, more and more raw sequences need to be annotated. Gene prediction by computational methods for finding the location of protein coding regions is one of the essential issues in bioinformatics. Two classes of methods are generally adopted: similarity based searches and ab initio prediction. Here, we review the development of gene prediction methods, summarize the measures for evaluating predictor quality, highlight open problems in this area, and discuss future research directions.
Granulometric Analysis of Spots in DNA Microarray Images
Authors: Latha Behara , Venkatesh Balasubramanian
Published: November 2016

As the topological properties of each spot in DNA microarray images may vary from one another, we employed granulometries to understand the shape-size content contributed due to a significant intensity value within a spot. Analysis was performed on the microarray image that consisted of 240 spots by using concepts from mathematical morphology. In order to find out indices for each spot and to further classify them, we adopted morphological multiscale openings, which provided microarrays at multiple scales. Successive opened microarrays were subtracted to identify the protrusions that were smaller than the size of structuring element. Spot-wise details, in terms of probability of these observed protrusions, were computed by placing a regularly spaced grid on microarray such that each spot was centered in each grid. Based on the probability of size distribution functions of these protrusions isolated at each level, we estimated the mean size and texture index for each spot. With these characteristics, we classified the spots in a microarray image into bright and dull categories through pattern spectrum and shape-size complexity measures. These segregated spots can be compared with those of hybridization levels.
EST-Based Analysis of Gene Expression in the Porcine Brain
Authors: Zhang Bing , Jin Wu , Zeng Yanwu , Su Zhixi , Hu Songnian , Yu Jun
Published: November 2016

Since pig is an important livestock species worldwide, its gene expression has been investigated intensively, but rarely in brain. In order to study gene expression profiles in the pig central nervous system, we sequenced and analyzed 43,122 high-quality 5’ end expressed sequence tags (ESTs) from porcine cerebellum, cortex cerebrum, and brain stem cDNA libraries, involving several different prenatal and postnatal developmental stages. The initial ESTs were assembled into 16,101 clusters and compared to protein and nucleic acid databases in GenBank. Of these sequences, 30.6% clusters matched protein databases and represented function known sequences; 75.1% had significant hits to nucleic acid databases and partial represented known function; 73.3% matched known porcine ESTs; and 21.5% had no matches to any known sequences in GenBank. We used the categories defined by the Gene Ontology to survey gene expression in the porcine brain.
A Mitochondrial Genome Sequence of the Tibetan Antelope (Pantholops Hodgsonii)
Authors: Xu Shu-Qing , Yang Ying-Zhong , Zhou Jun , Jin Guo-En , Chen Yun-Tian , Wang Jun , Yang Huan-Ming , Wang Jian , Yu Jun , Zheng Xiao-Guang , Ge Ri-Li
Published: November 2016

To investigate genetic mechanisms of high altitude adaptations of native mammals on the Tibetan Plateau, we compared mitochondrial sequences of the endangered Pantholops hodgsonii with its lowland distant relatives Ovis aries and Capra hircus, as well as other mammals. The complete mitochondrial genome of P. hodgsonii (16,498 bp) revealed a similar gene order as of other mammals. Because of tandem duplications, the control region of P. hodgsonii mitochondrial genome is shorter than those of O. aries and C. hircus, but longer than those of Bos species. Phylogenetic analysis based on alignments of the entire cytochrome b genes suggested that P. hodgsonii is more closely related to O. aries and C. hircus, rather than to species of the Antilopinae subfamily. The estimated divergence time between P. hodgsonii and O. aries is about 2.25 million years ago. Further analysis on natural selection indicated that the COXI (cytochrome c oxidase subunit I) gene was under positive selection in P. hodgsonii and Bos grunniens. Considering the same climates and environments shared by these two mammalian species, we proposed that the mitochondrial COXI gene is probably relevant for these native mammals to adapt the high altitude environment unique to the Tibetan Plateau.
MicroRNA: Biological and Computational Perspective
Authors: Kong Yong , Han Jin-Hua
Published: November 2016

MicroRNAs (miRNAs) are endogenously expressed non-coding RNAs of 20–24 nucleotides, which post-transcriptionally regulate gene expression in plants and animals. Recently it has been recognized that miRNAs comprise one of the abundant gene families in multicellular species, and their regulatory functions in various biological processes are widely spread. There has been a surge in the research activities in this field in the past few years. From the very beginning, computational methods have been utilized as indispensable tools, and many discoveries have been obtained through combination of experimental and computational approaches. In this review, both biological and computational aspects of miRNA will be discussed. A brief history of the discovery of miRNA and discussion of microarray applications in miRNA research are also included.
The Evolutionary Relationship of the Domain Architectures in the RhoGEF-Containing Proteins
Authors: Sun Qing-Lan , Zhou Hong-Jun , Lin Kui
Published: November 2016

Domain insertions and deletions lead to variations in the domain architectures of the proteins from their common ancestor. In this work, we investigated four groups of the RhoGEF-containing proteins from different organisms with domain architectures RhoGEF-PH-SH3, SH3-RhoGEF-PH, RhoGEF-PH, and SH3-RhoGEF defined in the Pfam database. The phylogenetic trees were constructed using each individual domain and/or the combinations of all the domains. The phylogenetic analysis suggests that RhoGEF-PH-SH3 and SH3-RhoGEF-PH might have evolved from RhoGEF-PH through the insertion of SH3 independently, while SH3-RhoGEF of proteins in fruit fly might have evolved from SH3-RhoGEF-PH by the degeneration of PH domain.
Sorting by Restricted-Length-Weighted Reversals
Authors: Nguyen Thach Cam , Ngo Hieu Trung , Nguyen Nguyen Bao
Published: November 2016

Classical sorting by reversals uses the unit-cost model, that is, each reversal consumes an equal cost. This model limits the biological meaning of sorting by reversal. Bender and his colleagues extended it by assigning a cost function f(l) = lα for all α ≥ 0, where l is the length of the reversed subsequence. In this paper, we extend their results by considering a model in which long reversals are prohibited. Using the same cost function above for permitted reversals, we present tight or nearly tight bounds for the worst-case cost of sorting by reversals. Then we develop algorithms to approximate the optimal cost to sort a given 0/1 sequence as well as a given permutation. Our proposed problems are more biologically meaningful and more algorithmically general and challenging than the problem considered by Bender et al. Furthermore, our bounds are tight and nearly tight, whereas our algorithms provide good approximation ratios compared to the optimal cost to sort 0/1 sequences or permutations by reversals.
Proteome Analysis of Rice Root Proteins Regulated by Gibberellin
Authors: Komatsu Setsuko , Konishi Hirosato
Published: November 2016

To gain an enhanced understanding of the mechanism by which gibberellins (GAs) regulate the growth and development of plants, it is necessary to identify proteins regulated by GA. Proteome analysis techniques have been applied as a direct, effective, and reliable tool in differential protein expressions. In previous studies, sixteen proteins showed differences in accumulation levels as a result of treatment with GA3, uniconazole, or abscisic acid (ABA), and/or the differences between the GA-deficient semi-dwarf mutant, Tan-ginbozu, and normal cultivars. Among these proteins, aldolase increased in roots treated with GA3, was present at low levels in Tan-ginbozu roots, and decreased in roots treated with uniconazole or ABA. In a root elongation assay, the growth of aldolase-antisense transgenic rice was half of that of vector control transgenic rice. These results indicate that increases in aldolase activity stimulate the glycolytic pathway and may play an important role in the GA-induced growth of roots. In this review, we discuss the relationship among GA, aldolase, and root growth.
Preliminary DNA Identification for the Tsunami Victims in Thailand
Authors: Deng Ya-Jun , Li Yuan-Zhe , Yu Xiao-Guang , Li Li , Wu Dong-Ying , Zhou Jun , Man Tian-You , Yang Guang , Yan Jiang-Wei , Cai Da-Qing , Wang Jian , Yang Huan-Ming , Li Sheng-Bin , Yu Jun
Published: November 2016

The 2004 Southeast Asia Tsunami killed nearly 5,400 people in Southern Thailand, including foreign tourists and local residents. To recover DNA evidence as much as possible from the seriously decomposed bodies, we explored procedures of sample preparation from both bone and tooth samples as well as both mitochondrial and nuclear markers. Despite having failed to recover enough DNA for nuclear marker typing, we succeeded in obtaining fully informative results for mitochondrial markers (HV1 and HV2) from 258 tooth samples with a success rate of 51% (258/507). Using an organic DNA extraction method coupled with an ultrafiltration step, we obtained 16 STR (including 13 CODIS loci, one sex discrimination locus, and two Identifiler loci) profiles for 834 samples with a success rate of 79% (834/1,062). In addition, by comparing the allelic frequencies between the typed samples as a group and other index populations, we conclude that the Thai tsunami victims are a combined group of several populations. Our results provide valuable evidence and protocols for the future forensic practice.
A Comprehensive Software Suite for the Analysis of cDNAs
Authors: Arakawa Kazuharu , Suzuki Haruo , Fujishima Kosuke , Fujimoto Kenji , Ueda Sho , Matsui Motomu , Tomita Masaru
Published: November 2016

We have developed a comprehensive software suite for bioinformatics research of cDNAs; it is aimed at rapid characterization of the features of genes and the proteins they code. Methods implemented include the detection of translation initiation and termination signals, statistical analysis of codon usage, comparative study of amino acid composition, comparative modeling of the structures of product proteins, prediction of alternative splice forms, and metabolic pathway reconstruction. The software package is freely available under the GNU General Public License at http://www.g-language.org/data/cdna/.
A Contact Energy Function Considering Residue Hydrophobic Environment and Its Application in Protein Fold Recognition
Authors: Duan Mo-Jie , Zhou Yan-Hong
Published: November 2016

The three-dimensional (3D) structure prediction of proteins is an important task in bioinformatics. Finding energy functions that can better represent residue-residue and residue-solvent interactions is a crucial way to improve the prediction accuracy. The widely used contact energy functions mostly only consider the contact frequency between different types of residues; however, we find that the contact frequency also relates to the residue hydrophobic environment. Accordingly, we present an improved contact energy function to integrate the two factors, which can reflect the influence of hydrophobic interaction on the stabilization of protein 3D structure more effectively. Furthermore, a fold recognition (threading) approach based on this energy function is developed. The testing results obtained with 20 randomly selected proteins demonstrate that, compared with common contact energy functions, the proposed energy function can improve the accuracy of the fold template prediction from 20% to 50%, and can also improve the accuracy of the sequence-template alignment from 35% to 65%.
Constructing Support Vector Machine Ensembles for Cancer Classification Based on Proteomic Profiling
Authors: Mao Yong , Zhou Xiao-Bo , Pi Dao-Ying , Sun You-Xian
Published: November 2016

In this study, we present a constructive algorithm for training cooperative support vector machine ensembles (CSVMEs). CSVME combines ensemble architecture design with cooperative training for individual SVMs in ensembles. Unlike most previous studies on training ensembles, CSVME puts emphasis on both accuracy and collaboration among individual SVMs in an ensemble. A group of SVMs selected on the basis of recursive classifier elimination is used in CSVME, and the number of the individual SVMs selected to construct CSVME is determined by 10-fold cross-validation. This kind of SVME has been tested on two ovarian cancer datasets previously obtained by proteomic mass spectrometry. By combining several individual SVMs, the proposed method achieves better performance than the SVME of all base SVMs.
Prediction and Classification of Human G-Protein Coupled Receptors Based on Support Vector Machines
Authors: Wang Yun-Fei , Chen Huan , Zhou Yan-Hong
Published: November 2016

A computational system for the prediction and classification of human G-protein coupled receptors (GPCRs) has been developed based on the support vector machine (SVM) method and protein sequence information. The feature vectors used to develop the SVM prediction models consist of statistically significant features selected from single amino acid, dipeptide, and tripeptide compositions of protein sequences. Furthermore, the length distribution difference between GPCRs and non-GPCRs has also been exploited to improve the prediction performance. The testing results with annotated human protein sequences demonstrate that this system can get good performance for both prediction and classification of human GPCRs.
Cold War Freud
Authors: Herzog Dagmar
Published: November 2016

In Cold War Freud Dagmar Herzog uncovers the astonishing array of concepts of human selfhood which circulated across the globe in the aftermath of World War II. Against the backdrop of Nazism and the Holocaust, the sexual revolution, feminism, gay rights, and anticolonial and antiwar activism, she charts the heated battles which raged over Freud's legacy. From the postwar US to Europe and Latin America, she reveals how competing theories of desire, anxiety, aggression, guilt, trauma and pleasure emerged and were then transformed to serve both conservative and subversive ends in a fundamental rethinking of the very nature of the human self and its motivations. Her findings shed new light on psychoanalysis' enduring contribution to the enigma of the relationship between nature and culture, and the ways in which social contexts enter into and shape the innermost recesses of individual psyches.
The Beginnings of Islamic Law
Authors: Salaymeh Lena
Published: November 2016

The Beginnings of Islamic Law is a major and innovative contribution to our understanding of the historical unfolding of Islamic law. Scrutinizing its historical contexts, the book proposes that Islamic law is a continuous intermingling of innovation and tradition. Salaymeh challenges the embedded assumptions in conventional Islamic legal historiography by developing a critical approach to the study of both Islamic and Jewish legal history. Through case studies of the treatment of war prisoners, circumcision, and wife-initiated divorce, she examines how Muslim jurists incorporated and transformed 'Near Eastern' legal traditions. She also demonstrates how socio-political and historical situations shaped the everyday practice of law, legal education, and the organization of the legal profession in the late antique and medieval eras. Aimed at scholars and students interested in Islamic history, Islamic law, and the relationship between Jewish and Islamic legal traditions, this book's interdisciplinary approach provides accessible explanations and translations of complex materials and ideas.
Criminal Defense in China
Authors: Liu Sida , Halliday Terence C.
Published: November 2016

Criminal Defense in China studies empirically the everyday work and political mobilization of defense lawyers in China. It builds upon 329 interviews across China, and other social science methods, to investigate and analyze the interweaving of politics and practice in five segments of the practicing criminal defense bar in China from 2005 to 2015. This book is the first to examine everyday criminal defense work in China as a political project. The authors engage extensive scholarship on lawyers and political liberalism across the world, from seventeenth-century Europe to late twentieth-century Korea and Taiwan, drawing on theoretical propositions from this body of theory to examine the strategies and constraints of lawyer mobilization in China. The book brings a fresh perspective through its focus on everyday work and ordinary lawyering in an authoritarian context and raises searching questions about law and lawyers, politics and society, in China's uncertain future.
Ethics in the Conflicts of Modernity
Authors: MacIntyre Alasdair
Published: November 2016

Alasdair MacIntyre explores some central philosophical, political and moral claims of modernity and argues that a proper understanding of human goods requires a rejection of these claims. In a wide-ranging discussion, he considers how normative and evaluative judgments are to be understood, how desire and practical reasoning are to be characterized, what it is to have adequate self-knowledge, and what part narrative plays in our understanding of human lives. He asks, further, what it would be to understand the modern condition from a neo-Aristotelian or Thomistic perspective, and argues that Thomistic Aristotelianism, informed by Marx's insights, provides us with resources for constructing a contemporary politics and ethics which both enable and require us to act against modernity from within modernity. This rich and important book builds on and advances MacIntyre's thinking in ethics and moral philosophy, and will be of great interest to readers in both fields.
Three-dimensional rotating Couette flow via the generalised quasilinear approximation
Authors: Tobias S. M. , Marston J. B.
Published: November 2016

We examine the effectiveness of the generalised quasilinear (GQL) approximation introduced by Marston et al. (Phys. Rev. Lett., vol. 116 (21), 2016, 214501). This approximation splits the variables into large and small scales in directions where there is a translational symmetry and removes nonlinear interactions involving only small scales. We utilise as a paradigm problem three-dimensional, turbulent, rotating Couette flow. We compare the results obtained from direct numerical solution of the equations with those from quasilinear (QL) and GQL calculations. In this three-dimensional setting, there is a choice of cutoff wavenumber for the GQL approximation both in the streamwise and in the spanwise directions. We demonstrate that the GQL approximation significantly improves the accuracy of mean flows, spectra and two-point correlation functions over models that are quasilinear in any of the translationally invariant directions, even if only a few streamwise and spanwise modes are included. We argue that this provides significant support for a programme of direct statistical simulation utilising the GQL approximation.
Mediating links between HRM bundle and individual innovative behavior
Authors: Liu Fang , Chow Irene Hau-Siu , Gong Yuanyuan , Wang Hao
Published: November 2016

Using multi-level analysis, the present study proposes that psychological empowerment and perceived organizational support serve as mediators of the effects of human resource management (HRM) bundle on individual innovative behavior. We tested the model using data from 705 employees of 162 firms in China. The results revealed that both psychological empowerment and perceived organizational support partially mediate the relationship between HRM bundle and individual innovative behavior. This study contributes to the understanding of how HRM bundle impact on individual innovative behavior.
Toleration or Latitude? Two Models for Liberal Politics
Authors: Vernon Richard
Published: November 2016

Theories of toleration maintain that people sometimes have good reasons not to act on their convictions, however strong. Theories of latitude maintain that one should doubt the strength of one's convictions. While toleration has often been taken to be foundational for the liberal tradition, another view (made fully explicit by Brian Barry'sJustice as Impartiality) is that we should look, rather, to the idea of latitude, as exemplified in late seventeenth-century Anglican writings. Taking these writings as its initial point of reference, the article maintains that toleration, rather than latitude, should be seen as foundational for the liberal tradition, which is better understood in terms of what one person owes to another than in terms of the relative validity of their beliefs.
SOME LATIN FUNERARY FORMULAE WITHOBITVSAS A DIRECT OBJECT: ORIGIN, MEANING AND USE
Authors: Adams Iveta
Published: November 2016

This paper is about several little-known Latin funerary formulae of some interest. It is also intended as an addition to the growing literature on what are now called in English ‘support verbs’, with special focus onfacio.
Genetic diversity of infective larvae of Gnathostoma spinigerum (Nematoda: Gnathostomatidae) in freshwater swamp eels from Thailand
Authors: Eamsobhana P. , Wanachiwanawin D. , Roongruangchai K. , Song S.L. , Yong H.S.
Published: November 2016

Human gnathostomiasis is a food-borne zoonosis caused by a tissue nematode of the genus Gnathostoma. The disease is highly endemic in Asia, including Thailand. The freshwater swamp eel (Monopterus albus), the second intermediate host of the gnathostome nematode, has an important role in transmitting the infection in Thailand. Surveys on the infective larvae of Gnathostoma spinigerum based on morphological features in freshwater swamp eels have been performed continuously and reported in Thailand. However, there is still limited molecular data on intra-species variations of the parasite. In this study, a total of 19 third-stage larvae of morphologically identified G. spinigerum were collected from 437 liver samples of freshwater swamp eels purchased from a large wholesale market in Bangkok, Thailand. Molecular characterization based on mitochondrial cytochrome c oxidase subunit I (COI) sequences was performed to elucidate their genetic variations and phylogenetic relationship. Among the 19 infective larvae recovered from these eels, 16 were sequenced successfully. Phylogenetic analyses inferred from the partial COI gene showed the presence of three distinct COI haplotypes. Our findings confirm the presence of G. spinigerum as the main species in Thailand.
Target implosion uniformity in heavy-ion fusion
Authors: Karino T. , Kawata S. , Kondo S. , Iinuma T. , Kubo T. , Kato H. , Ogoyski A. I.
Published: November 2016

In this paper, the robustness of the dynamic instability mitigation mechanism is first examined, and then the instability mitigation phenomenon is demonstrated in a deuterium–tritium (DT) fuel target implosion by wobbling heavy-ion beams (HIBs). The results presented here show that the mechanism of the dynamic instability mitigation is rather robust against changes in the phase, the amplitude and the wavelength of the wobbling perturbation applied. In general instability would emerge from the perturbation of the physical quantity. Normally the perturbation phase is unknown, so that the instability growth rate is discussed. However, if the perturbation phase is known, the instability growth can be controlled by a superposition of perturbations imposed actively: if the perturbation is induced by, for example, a driving beam axis oscillation or wobbling, the perturbation phase could be controlled and the instability growth is mitigated by the superposition of the growing perturbations. In this paper, we realize the superposition of the perturbation by the wobbling HIBs’ illumination onto a DT fuel target in heavy-ion inertial fusion (HIF). Our numerical fluid implosion simulations present that the implosion non-uniformity is mitigated successfully by the wobbling HIBs illumination in HIF.
Energy spectrum analysis for intense pulsed electron beam
Authors: Shen J. , An H.H. , Liu H.Y. , Remnev G.E. , Nashilevskiy A.V. , Li D.Y. , Zhang J. , Zhong H.W. , Cui X.J. , Liang G.Y. , Qu M. , Yan S. , Zhang X.F. , Zhang G.L. , Yu X. , Le X.Y.
Published: November 2016

As the energy spread of intense pulsed electron beams (IPEB) strongly influences the irradiation effects, it has been of great importance to characterize the IPEB energy spectrum. With the combination of Child–Langmuir law and Monte Carlo simulation, the IPEB energy spectrum has been obtained in this work by transformation from the accelerating voltage applied to the diode. To verify the accuracy of this simple algorithm, a magnetic spectrometer with an imaging plate was designed to test the IPEB energy spectrum. The measurement was completed with IPEB generated by explosive emission electron diode, the pulse duration, maximum electron energy, total beam current being 80 ns, 450 keV, and 1 kA, respectively. The results verified the reliability of the above analysis method for energy spectrum, which can avoid intercepting the beam, and at the same time significantly improved the energy resolution. Some calculation and experimental details are discussed in this paper.
Generation of runaway electrons and X rays in an inhomogeneous electric field at high gas pressures
Authors: Tarasenko V.F. , Baksht E.Kh. , Beloplotov D.V. , Burachenko A.G. , Lomaev M.I. , Sorokin D.A.
Published: November 2016

Results of experimental studies of the amplitude–temporal characteristics of a runaway electron (RE) beam, as well as breakdown voltage and discharge current with a picosecond time resolution are presented. The maximum pressure, at which a RE beam is detectable, decreases with increasing the voltage rise time. The waveforms of the discharge and RE beam currents are synchronized with those of the voltage pulses. It is shown that the amplitude–temporal characteristics of the RE beam depend on the designs of the gas-filled diode and cathode, as well as the gap length. The mechanism for the generation of REs in atmospheric-pressure gases is analyzed on the basis of the obtained experimental data.
MYOPIC POLICIES FOR NON-PREEMPTIVE SCHEDULING OF JOBS WITH DECAYING VALUE
Authors: Master Neal , Chan Carri W. , Bambos Nicholas
Published: November 2016

In many scheduling applications, minimizing delays is of high importance. One adverse effect of such delays is that the reward for completion of a job may decay over time. Indeed in healthcare settings, delays in access to care can result in worse outcomes, such as an increase in mortality risk. Motivated by managing hospital operations in disaster scenarios, as well as other applications in perishable inventory control and information services, we consider non-preemptive scheduling of jobs whose internal value decays over time. Because solving for the optimal scheduling policy is computationally intractable, we focus our attention on the performance of three intuitive heuristics: (1) a policy which maximizes the expected immediate reward, (2) a policy which maximizes the expected immediate reward rate, and (3) a policy which prioritizes jobs with imminent deadlines. We provide performance guarantees for all three policies and show that many of these performance bounds are tight. In addition, we provide numerical experiments and simulations to compare how the policies perform in a variety of scenarios. Our theoretical and numerical results allow us to establish rules-of-thumb for applying these heuristics in a variety of situations, including patient scheduling scenarios.
IL-8/IL-17 gene variations and the susceptibility to severe viral bronchiolitis
Authors: PINTO L. A. , DE AZEREDO LEITÃO L. A. , MOCELLIN M. , ACOSTA P. , CABALLERO M. T. , LIBSTER R. , VARGAS J. E. , POLACK F. , COMARU T. , STEIN R. T. , DE SOUZA A. P.
Published: November 2016

Clinical manifestations of acute bronchiolitis (AB) vary from minimal disease to severe respiratory failure. The response to respiratory viral infections is possibly influenced by genetic polymorphisms linked to the regulation of the inflammatory response. In the present study, we investigated whether interleukin-8 (IL-8) and interleukin-17 (IL-17) genetic variants are associated with the severity of AB. A group of Brazilian infants hospitalized with AB and a control group (infants with no or mild AB, without hospitalization) were genotyped for four IL-8/IL-17 variations. For replication, we studied an Argentinean population sample of infants with mild and severe AB. IL-8 polymorphism (rs 2227543) and IL-17 (rs2275913) variants showed significant associations with the severity of AB. The effect of the IL-8 variation could be replicated in the Argentinean sample. This finding suggests that IL-8 variations may influence the severity of AB in young infants. Further genetic association studies in low- or middle-income populations are necessary with the aim of expanding knowledge in this area.
A match made in heaven: Using parallel corpora and multinomial logistic regression to analyze the expression of possession in Old Spanish
Authors: Rosemeyer Malte , Enrique-Arias Andrés
Published: November 2016

This study applies multinomial regression analysis to a parallel corpus of Spanish medieval translations of the Bible in order to study the different factors that condition variation in the expression of possession in Old Spanish. Our methodology allows us to determine the degree to which less frequent possessive constructions (ART + POSS, as inla su casa‘the his house’; GEN, as inla casa de él‘the house of him’; and ART/BARE, as inla casa‘the house’) can be considered competitors to the dominant POSS construction (as insu casa‘his house’) as a function of usage context differences. In comparison to the POSS construction, the ART + POSS construction usually expresses pragmatic functions such as reverence, the GEN construction is typically used to disambiguate a reference, and the ART/BARE construction is bound to contexts in which the possessor is highly accessible. Crucially, the analysis also sheds light on historical changes in the balance between structural and contextual constraints on the use of these different variants. Whereas in the 13th century, structural and stylistic constraints are almost equally important, the importance of structural constraints diminishes in the 15th century. The study thus illustrates how in reductive processes of language change, variation due to structural constraints yields to stylistic variation.
AGENCY, ALTERITY, APPROPRIATION: POSTCLASSIC LOWLAND MAYA USES AND MODIFICATIONS OF THE “MIXTECA-PUEBLA” OR “INTERNATIONAL” STYLE
Authors: Jordan Keith
Published: November 2016

Maya participation in the Postclassic Mixteca-Puebla or International Style has long been recognized in murals and manuscript painting. Recent explanations for Maya adoptions/modifications of this central Mexican style have shifted from invasion or “influence” to emphasize the active and selective participation of the Maya. I examine two examples, the solar murals of Mayapan and Flores Stela 4, to elucidate how they reflect Maya uses of the Mexican Other in service of local political and religious power. I argue that these works represent a Late Postclassic continuation of a long Maya tradition of using central Mexican forms and iconography as exotic ideological “prestige goods” reinforcing the legitimacy of local elites. They cannot be understood apart from the previous history of interactions between the Maya and central Mexico, particularly in the Early Postclassic, and some of the “Mexican” elements in these examples may derive from Maya-Mexican interactions during this earlier time.

For Eloise Quiñones Keber, and in memory of H.B. Nicholson
SET IN STONE: HIATUSES AND DYNASTIC POLITICS AT TIKAL, GUATEMALA
Authors: Moholy-Nagy Hattula
Published: November 2016

Stone stelae and altars inscribed with dates and bearing a portrait of the ruler they commemorate define the Classic period in the Maya lowlands. They attest to the ruling elite's awareness of history and its uses to assert their authority and legitimacy. The power of Maya history remains evident when text decipherments override archaeological evidence. Privileging of texts is especially problematic in interpretations of gaps or hiatuses in the sequence of dates on carved monuments as indicators of site-wide decline. Archaeological evidence from the Lowland Maya city of Tikal contradicts the assumption of general decline during its longest hiatus, as well as a widely accepted historical explanation of its cause. Placing stone monuments and their texts in past cultural context indicates gaps were more likely due to a venerable Mesoamerican tradition of monument desecration carried out by rival elite factions than to specific historical events.
UNDERSTANDING THE WRAPPED BUNDLE BURIALS OF WEST MEXICO: A CONTEXTUAL ANALYSIS OF MIDDLE FORMATIVE MORTUARY PRACTICES
Authors: Rhodes Jill A. , Mountjoy Joseph B. , Cupul-Magaña Fabio G.
Published: November 2016

This article reports on the discovery of an unusual type of secondary burial found at two Middle Formative sites in the Mascota valley of Jalisco, West Mexico. We examine these burials within a Middle and Late Formative period context as well as a broader temporal context of funerary customs and mortuary programs involving secondary-type burials. Tightly wrapped, elaborately processed bundled burials were recovered at the cemeteries of El Embocadero II and Los Tanques. We report on the human remains from both sites and examine burial context and biological identity to seek explanations. The individuals selected for this burial treatment are not associated with any markers of high status. These burials may represent a different ethnic, familial, community or ancestral identity, and we consider the broader secondary burial phenomenon as the possible expression of a ritual of seasonal interment associated with the use of a mortuary hut to curate and process the bodies.
THESE ARE OUR MOUNTAINS NOW: STATECRAFT AND THE FOUNDATION OF A LATE CLASSIC MAYA ROYAL COURT
Authors: Carter Nicholas P.
Published: November 2016

This article presents a synthesis of new epigraphic readings of hieroglyphic texts from the sites of Sacul and Ixkun, in the northwestern Maya Mountains of Guatemala, with archaeological data previously published by the Atlas Arqueológico de Guatemala. It proposes that a late eighth century king of Sacul broke with his former allies at Ucanal to establish himself as a local suzerain, sponsoring a new vassal kingdom at Ixkun in the process. Visible in both the hieroglyphic and stratigraphic records, these events recapitulated on a smaller scale the geopolitical practices of hegemonic Maya kingdoms like Calakmul and Tikal. The Sacul king’s strategic cultivation of a separate but dependent court sheds light on the possibilities of and limitations on Classic Maya kingship.
MAYA POLITICS AND RITUAL: AN IMPORTANT NEW HIEROGLYPHIC TEXT ON A CARVED JADE FROM BELIZE
Authors: Prager Christian M. , Braswell Geoffrey E.
Published: November 2016

We describe a remarkable artifact discovered during our 2015 excavations at the Maya site of Nim li Punit, Belize. It is a T-shaped jade pectoral worn on the chest by ancient Maya kings during rites in which they scattered copal incense (Figure 1). These rituals are described or depicted on six carved stone monuments (stelae) at the site. What is more, two stelae at the site depict rulers wearing the pectoral. The reverse side of the jade contains a long historical hieroglyphic text. Had the piece been recovered by illegal means and ended up in a private collection, much of the text would make little sense and it could not possibly be ascribed to Nim li Punit. The priceless worth of the Nim li Punit pectoral, therefore, lies not only in its hieroglyphic inscription but also in its known archaeological context and contemporary images of its use. We briefly describe that context and present a translation of the important text on the jade pectoral, which we interpret as a “wind jewel.”
Vitamin A deficiency and determinants of vitamin A status in Bangladeshi children and women: findings of a national survey
Authors: Rahman Sabuktagin , Rahman Ahmed Shafiqur , Alam Nurul , Ahmed AM Shamsir , Ireen Santhia , Chowdhury Ireen Akhter , Chowdhury Fatima Parveen , Rahman SM Mustafizur , Ahmed Tahmeed
Published: November 2016

Objective

Using data from the national micronutrients survey 2011–2012, the present study explored the status of subclinical vitamin A nutrition and the underlying determinants in the Bangladeshi population.

Design

A nationwide cross-sectional study.

Settings

The survey covered 150 clusters; fifty in each of rural, urban and slum strata.

Subjects

Three population groups: (i) pre-school age children (6–59 months; PSAC); (ii) school age children (6–14 years; SAC); and (iii) non-pregnant non-lactating women (15–49 years; NPNLW).

Results

National prevalence of subclinical vitamin A deficiency was 20·5, 20·8 and 5·3 % in PSAC, SAC and NPNLW, respectively. Slum populations had higher prevalence compared with urban (PSAC: 38·1 v. 21·2 %, P<0·001; SAC: 27·1 v. 22·1 %, P=0·004; NPNLW: 6·8 v. 4·7 %, P=0·01). Dietary vitamin A met up to 27·1–46·0 % of daily needs; plant-source vitamin A constituted 73–87 % of the intakes. Multivariable regression analyses showed that higher consumption of animal foods was associated with higher retinol status in PSAC (β=0·27; P<0·001); and living in urban area was related to higher retinol status in NPNLW (β=0·08, P=0·004) and PSAC (β=0·11, P=0·04). Increased intake of leafy vegetables was associated with lower retinol status in SAC (β=−0·08, P=0·02). Vitamin A supplementation in PSAC did not significantly influence serum retinol within one year post-supplementation (P>0·05 for differences in β between <3 months v. 3–6 months, 6–9 months and 9–12 months).

Conclusions

Prevalence of subclinical vitamin A deficiency was high in children in Bangladesh. Intakes of animal-source foods and leafy vegetables were associated with higher and lower retinol status, respectively. Increased food diversity through animal-source foods is required.
Estimation of the risk of secondary malignancies following intraoral electron radiotherapy for tongue cancer patients
Authors: Jeong Seonghoon , Yoon Myonggeun , Chung Weon Kuu , Chung Mijoo , Kim Dong Wook
Published: November 2016

Purpose

To measure dosimetric characteristics for linear accelerator-based electron beams, which are applied through locally manufactured acrylic tubes for intraoral radiotherapy and to calculate the secondary cancer risk for organs at risk.

Materials and methods

Six different acrylic tubes were exposed to a 6-MeV electron beam; they had tips with three angles (0°, 15° and 30°) and two diameters (2·5 and 3·0 cm). Gafchromic EBT2 film was horizontally and vertically inserted in a solid water phantom to measure the dose profiles and percentage depth doses (PDDs). The measured data from radio-photoluminescence glass dosimeters placed on the neck and both eyes were used to estimate the lifetime attributable risk of secondary cancer resulting from intraoral radiotherapy for tongue cancer.

Results

A total of 12 dose profiles were obtained from six different acrylic applicators at 0·5 and 1·28 cm depths. Circular shapes were obtained from 0° applicators, and oval shapes were obtained from 15° and 30° applicators. Absorbed doses at a 0·5 cm depth were higher than those at a 1·28 cm depth. PDD shapes for the six acrylic applicators were similar to those of a normal 6 MeV electron beam. Larger-diameter applicators showed higher PDD than smaller-diameter applicators with the same tip angle. According to our secondary cancer risk estimation, if 100,000 patients received intraoral radiotherapy at 30 years and lived until 80 years, 122 female and 22 male patients would develop secondary thyroid cancer, while 13 female and 18 male patients would develop secondary ocular melanoma or retinoblastoma.

Conclusions

Dosimetric characteristics for linear accelerator-based intraoperative radiotherapy treatment beam were confirmed. In addition, we found that 0·1% of tongue cancer patients would get secondary malignancies for both eyes and thyroid from this treatment.
End-of-life experiences and deathbed phenomena as reported by Brazilian healthcare professionals in different healthcare settings
Authors: Santos Claudia Soares Dos , Paiva Bianca Sakamoto Ribeiro , Lucchetti Alessandra Lamas Granero , Paiva Carlos Eduardo , Fenwick Peter , Lucchetti Giancarlo
Published: November 2016

Objective:

The objectives of the present study were to describe and compare the characteristics and reports of end-of-life experiences (ELEs) by healthcare professionals at different institutions and to investigate the influence of religious beliefs on these reports.

Method:

A multicenter study was carried out in Brazil that included six nursing homes (NHs), a cancer hospital (ONC), and a palliative care (PC) unit. Sociodemographic data, ELE reports (Fenwick's questionnaire), religiosity (the Duke Religion Index), spirituality (the Spirituality Self-Rating Scale), and mental health (the DASS-21 questionnaire) were assessed. The analysis was performed using ANOVA and chi-square tests in order to compare ELE perceptions in these different settings.

Results:

A total of 133 healthcare professionals (46 ONC, 36 PC, and 51 NH) were interviewed, 70% of whom recounted at least one ELE report in the previous five years. The most common ELEs were “visions of dead relatives collecting the dying person” (88.2%), “a desire to mend family rifts” (84.9%), and “visions of dead relatives near the bed providing emotional comfort” (80.6%). Most healthcare professionals (70–80%) believed that these experiences had a spiritual significance and were not due to biological effects. Comparison among settings revealed that those working in the PC unit had more reports, a greater openness about the issue, and more interest in training. Individual religious beliefs had no influence on perception of ELEs.

Significance of Results:

Our study revealed that ELE reports are not uncommon in clinical practice and seem to be little influenced by religious or spiritual beliefs. Although strongly reported in all settings, palliative care professionals tend to be more open to this issue and have a stronger perception of ELEs.
Exotic ancient plant introductions: part of Indian ‘Ayurveda’ medicinal system
Authors: Singh Anurudh K.
Published: November 2016

India is home to some of the oldest civilizations, during which period the local communities domesticated indigenous plant species for food and agriculture and medicinal uses. In this process, they also bio-prospected and/or absorbed potentially valuable exotic plant species, making them integral part of Indian culture, including the traditional medicinal system, theAyurveda. The present paper discusses the absorption of 26 plant species of exotic origin, before 8th century, as evidenced by archaeological sculptural or botanical remains and documentation of such plants in Sanskrit, theVediclanguage. Occurrence and/or introduction of such plants at such distant places in ancient times is visualized as a result of geographical continental fragmentation followed by drift, natural or man-made transoceanic movement, and cultural and trade exchange of plant material over time and space.
Potential of marine algae (sea weeds) as source of medicinally important compounds
Authors: Anand N. , Rachel D. , Thangaraju N. , Anantharaman P.
Published: November 2016

Scientific research has always been concerned with aspects of human health. There are several systems of medicines besides the globally accepted allopathy, which are based on compounds originating from natural products. Recent research has been centred around validation of the traditional knowledge on medicinal products. The traditional systems in India, China and forklore medicines in other parts of the world have indicated the potential of natural products consist of various chemical compounds that could be used as drugs. The search for drugs against five major dreadful diseases namely, cancer, AIDS, heart disease, diabetes and pulmonary disorders that attack the present day human from natural products has been in progress for some time. Microbes, plants and animals are the sources of natural products. In the past five decades, the research on bioactive chemicals from marine algae has been incited and several compounds with biological activity were isolated from algae. Generally, these are secondary metabolites produced for chemical defence against the biotic pressure of predators, consumers and epibionts. These potential drugs are now attracting considerable attention from the pharmaceutical industries due to the necessity of identifying substances that could be utilized for novel therapeutic purposes. Several compounds such as alginate, carrageenans, sulphated and halogenated polysachcharise and other derivatives have been shown to provide drugs that could be antiviral, anticancer and antimicrobial. The present account is on the potential of marine macro-algae for medicinally important products.
Performance parameters prediction of slotted microstrip antennas with modified ground plane using support vector machine
Authors: Roy Chandan , Khan Taimoor , Kanaujia Binod Kumar
Published: November 2016

Artificial neural networks (ANNs) have acquired enormous importance in computing of the performance parameters of microstrip antennas due to their generalized and adaptive features. However, recently the concept of support vector machines (SVMs) has become very much popular in performance parameters computation due to several attractive features over ANNs. Specifically, SVMs outreach ANNs noticeably in terms of execution time. Likewise, ANNs are having multiple local minima problem, whereas a global and unique solution is provided by SVMs. In this paper, several performance parameters like: resonant frequency, gain, directivity, and radiation efficiency of slotted microstrip antennas with modified ground plane are computed with the help of SVM formulation. Comparisons of different parameters of simulated and computed values are illustrated. The achieved radiation patterns at particular resonant frequency in different planes are included as well. A prototype of the optimized antenna is also fabricated and characterized. A good agreement is attained among the computed, simulated, and measured results.