bluuebunny/crossref_metadata_2025_split huggingface dataset:
Marketing as an Interaction System
Authors: Varey Richard J. 
Published: June 2010

Marketing thinkers identify concepts of relationship, interaction, and network as useful. Edgar Crane (1972) saw interaction as essential to buyer-seller decision-making. David Ford, Kristian Möller, and Håkan Håkansson followed with explanations of how marketing operates. Christian Grönroos expanded the horizon with ‘interactive marketing’. Evert Gummesson saw interaction as “active contact” and all marketing as relationships and interaction in networks. The Relationship Marketing field flourished – at least for a time. Whilst many proponents of “interactive communication” and “social interaction” do not see the interaction concept as problematic, they focus attention on practices. I choose to re-examine both ‘interaction’ and ‘communication’, and to relate these concepts to the concepts of society and the social process we call “marketing”. The discussion proceeds from the general perspective of humans living among others, to the specific situation of marketing in society. I examine the concept of ‘interaction’, and consider social interaction as exchange –a dialogical view of human communication. The patterning of social interaction in markets as distinct from bureaucracies, solidarity groupings, and co-operative collectives is examined. An alternative sociological analysis of the social is compared with that of the social psychology tradition. Communication is discussed as a mode of interaction, to reveal monologic (technical) and dialogic (humanitarian) conceptions of communication prevalent in the marketing field. Within the context of an ‘Interaction Society’, marketing is explained as a complex dynamic adaptive interaction system, revealing a conversational nature. It is proposed that interaction directs and co-ordinates, but also co-creates – ‘interactional work’ has innovative capacity.
PRESENTATION FOR RENNER MONOIDS
Authors: GODELLE EDDY 
Published: June 2010

AbstractWe extend the result obtained in E. Godelle [‘The braid rook monoid’, Internat. J. Algebra Comput.18 (2008), 779–802] to every Renner monoid: we provide a monoid presentation for Renner monoids, and we introduce a length function which extends the Coxeter length function and which behaves nicely.
ON THE DIOPHANTINE EQUATIONz2=f(x)2±f(y)2, II
Authors: HE BO , TOGBÉ ALAIN , ULAS MACIEJ 
Published: June 2010

AbstractLetf∈ℚ[X] and let us consider a Diophantine equationz2=f(x)2±f(y)2. In this paper, we continue the study of the existence of integer solutions of the equation, when the degree offis 2 and iff(x) is a triangular number or a tetrahedral number.
Presence or absence of carbohydrates and the proportion of fat in a high-protein diet affect appetite suppression but not energy expenditure in normal-weight human subjects fed in energy balance
Authors: Veldhorst Margriet A. B. , Westerterp Klaas R. , van Vught Anneke J. A. H. , Westerterp-Plantenga Margriet S. 
Published: June 2010

Two types of relatively high-protein diets, with a normal or low proportion of carbohydrates, have been shown effective for weight loss. The objective was to assess the significance of the presence or absence of carbohydrates and the proportion of fat in high-protein diets for affecting appetite suppression, energy expenditure, and fat oxidation in normal-weight subjects in energy balance. Subjects (aged 23 (sd3) years and BMI 22·0 (sd1·9) kg/m2) were stratified in two groups. Each was offered two diets in a randomised cross-over design: group 1 (n22) – normal protein (NP; 10, 60 and 30 % energy (En%) from protein, carbohydrate and fat), high protein (HP; 30, 40 and 30 En%); group 2 (n23) – normal protein (NP-g; 10, 60 and 30 En%), high protein, carbohydrate-free (HP-0C; 30, 0 and 70 En%) for 2 d; NP-g and HP-0C were preceded by glycogen-lowering exercise (day 1). Appetite was measured throughout day 2 using visual analogue scales (VAS). Energy expenditure (EE) and substrate oxidation (respiratory quotient; RQ) were measured in a respiration chamber (08.00 hours on day 2 until 07.30 hours on day 3). Fasting plasma β-hydroxybutyrate (BHB) concentration was measured (day 3). NP-g and NP did not differ in hunger, EE, RQ and BHB. HP-0C and HPv.NP-g and NP, respectively, were lower in hunger (P < 0·05;P < 0·001) and RQ (P < 0·01;P < 0·001) and higher in EE (P < 0·05;P = 0·07) and BHB (P < 0·05;P < 0·001). Hunger and RQ were lower with HP-0C than HP (693 (sd208)v.905 (sd209) mm VAS × 24 h,P < 0·01; 0·76 (sd0·01)v. 0·81 (sd0·02),P < 0·01); BHB was higher (1349 (sd653)v.332 (sd102) μmol/l;P < 0·001). ΔHunger, ΔRQ, and ΔBHB were larger between HP-0C–NP-g than between HP–NP ( − 346 (sd84)v.− 107 (sd52) mm VAS × 24 h,P < 0·01; − 0·09 (sd0·00)v.− 0·05 (sd0·00),P < 0·001; 1115 (sd627)v.104 (sd42) μmol/l,P < 0·001). In conclusion, appetite suppression and fat oxidation were higher on a high-protein diet without than with carbohydrates exchanged for fat. Energy expenditure was not affected by the carbohydrate content of a high-protein diet.
Nice sets and invariant densities in complex dynamics
Authors: DOBBS NEIL 
Published: June 2010

AbstractIn complex dynamics, we construct a so-called nice set (one for which the first return map is Markov) around any point which is in the Julia set but not in the post-singular set, adapting a construction of Rivera–Letelier. This simplifies the study of absolutely continuous invariant measures. We prove a converse to a recent theorem of Kotus and Świątek, so for a certain class of meromorphic maps the absolutely continuous invariant measure is finite if and only if an integrability condition is satisfied.
Understanding recent increases in chronic disease treatment rates: more disease or more detection?
Authors: Howard David H. , Thorpe Kenneth E. , Busch Susan H. 
Published: June 2010

AbstractThe proportion of the population treated for major medical conditions, including diabetes, cancer and mental illness, increased rapidly during the 1990s. We document the magnitude of these increases and use a model of prevalence to identify three potential causes: increased clinical incidence of disease, longer survival times among persons with chronic illnesses and increased detection. We present a series of analyses to evaluate the contribution of each factor. We find that increases in obesity explain a large proportion of the increase in treatment rates for conditions closely linked to obesity (e.g. diabetes). We provide some evidence that increases in treated prevalence unexplained by changes in the underlying clinical incidence of disease are driven by increased detection and treatment of patients with ‘subclinical’ illness.
Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology
Authors: Otto Thomas D. , Sanders Mandy , Berriman Matthew , Newbold Chris 
Published: June 2010

Abstract
Motivation: The accuracy of reference genomes is important for downstream analysis but a low error rate requires expensive manual interrogation of the sequence. Here, we describe a novel algorithm (Iterative Correction of Reference Nucleotides) that iteratively aligns deep coverage of short sequencing reads to correct errors in reference genome sequences and evaluate their accuracy.
Results: Using Plasmodium falciparum (81% A + T content) as an extreme example, we show that the algorithm is highly accurate and corrects over 2000 errors in the reference sequence. We give examples of its application to numerous other eukaryotic and prokaryotic genomes and suggest additional applications.
Availability: The software is available at http://icorn.sourceforge.net
Contact: tdo@sanger.ac.uk; cnewbold@hammer.imm.ox.ac.uk
Supplementary information: Supplementary data are available at Bioinformatics online.
MISS: a non-linear methodology based on mutual information for genetic association studies in both population and sib-pairs analysis
Authors: Brunel Helena , Gallardo-Chacón Joan-Josep , Buil Alfonso , Vallverdú Montserrat , Soria José Manuel , Caminal Pere , Perera Alexandre 
Published: June 2010

AbstractMotivation: Finding association between genetic variants and phenotypes related to disease has become an important vehicle for the study of complex disorders. In this context, multi-loci genetic association might unravel additional information when compared with single loci search. The main goal of this work is to propose a non-linear methodology based on information theory for finding combinatorial association between multi-SNPs and a given phenotype.Results: The proposed methodology, called MISS (mutual information statistical significance), has been integrated jointly with a feature selection algorithm and has been tested on a synthetic dataset with a controlled phenotype and in the particular case of the F7 gene. The MISS methodology has been contrasted with a multiple linear regression (MLR) method used for genetic association in both, a population-based study and a sib-pairs analysis and with the maximum entropy conditional probability modelling (MECPM) method, which searches for predictive multi-locus interactions. Several sets of SNPs within the F7 gene region have been found to show a significant correlation with the FVII levels in blood. The proposed multi-site approach unveils combinations of SNPs that explain more significant information of the phenotype than their individual polymorphisms. MISS is able to find more correlations between SNPs and the phenotype than MLR and MECPM. Most of the marked SNPs appear in the literature as functional variants with real effect on the protein FVII levels in blood.Availability: The code is available at http://sisbio.recerca.upc.edu/R/MISS_0.2.tar.gzContact: helena.brunel@upc.eduSupplementary information: Supplementary data are available at Bioinformatics online.
Manipulation of FASTQ data with Galaxy
Authors: Blankenberg Daniel , Gordon Assaf , Von Kuster Gregory , Coraor Nathan , Taylor James , Nekrutenko Anton ,   the Galaxy Team
Published: June 2010

Abstract
Summary: Here, we describe a tool suite that functions on all of the commonly known FASTQ format variants and provides a pipeline for manipulating next generation sequencing data taken from a sequencing machine all the way through the quality filtering steps.
Availability and Implementation: This open-source toolset was implemented in Python and has been integrated into the online data analysis platform Galaxy (public web access: http://usegalaxy.org; download: http://getgalaxy.org). Two short movies that highlight the functionality of tools described in this manuscript as well as results from testing components of this tool suite against a set of previously published files are available at http://usegalaxy.org/u/dan/p/fastq
Contact: james.taylor@emory.edu; anton@bx.psu.edu
Supplementary information: Supplementary data are available at Bioinformatics online.
An alignment algorithm for bisulfite sequencing using the Applied Biosystems SOLiD System
Authors: Ondov Brian D. , Cochran Charles , Landers Mark , Meredith Gavin D. , Dudas Miroslav , Bergman Nicholas H. 
Published: June 2010

Abstract
Summary: Bisulfite sequencing allows cytosine methylation, an important epigenetic marker, to be detected via nucleotide substitutions. Since the Applied Biosystems SOLiD System uses a unique di-base encoding that increases confidence in the detection of nucleotide substitutions, it is a potentially advantageous platform for this application. However, the di-base encoding also makes reads with many nucleotide substitutions difficult to align to a reference sequence with existing tools, preventing the platform's potential utility for bisulfite sequencing from being realized. Here, we present SOCS-B, a reference-based, un-gapped alignment algorithm for the SOLiD System that is tolerant of both bisulfite-induced nucleotide substitutions and a parametric number of sequencing errors, facilitating bisulfite sequencing on this platform. An implementation of the algorithm has been integrated with the previously reported SOCS alignment tool, and was used to align CpG methylation-enriched Arabidopsis thaliana bisulfite sequence data, exhibiting a 2-fold increase in sensitivity compared to existing methods for aligning SOLiD bisulfite data.
Availability: Executables, source code, and sample data are available at http://solidsoftwaretools.com/gf/project/socs/
Contact: bergmann@nbacc.net
Supplementary information: Supplementary data are available at Bioinformatics online.
Morphometric ratios of six commercially landed species of skate from the Portuguese continental shelf, and their utility for identification
Authors: Serra-Pereira Bárbara , Farias Inês , Moura Teresa , Gordo Leonel Serrano , Santos Miguel , Figueiredo Ivone 
Published: June 2010

Abstract
Serra-Pereira, B., Farias, I., Moura, T., Gordo, L. S., Santos, M., and Figueiredo, I. 2010. Morphometric ratios of six commercially landed species of skate from the Portuguese continental shelf, and their utility for identification. – ICES Journal of Marine Science, 67: 1596–1603. European skate landings have traditionally been reported under a generic landing category, because of problems with species identification. To address this data deficiency, the ICES Working Group on Elasmobranch Fishes compiled conversion factors, including the relationships between different body measurements, for the main elasmobranch species. Size conversion factors for six common NE Atlantic skate species, Leucoraja naevus, Raja brachyura, R. clavata, R. miraletus, R. montagui, and R. undulata are compiled, and the capability of morphometric data to assist species discrimination is evaluated, highlighting the case of similar species such as R. brachyura and R. montagui. The estimated size conversion factors displayed some variability between areas and sexes for most species, the allometric relationship between weight and total length did not differ significantly between sexes, and some morphometric ratios proved adequate in discriminating between rajid species (misclassification error 0.12). Leucoraja naevus was fully discriminated from the remaining species. Species with a similar dorsal colour, e.g. R. brachyura and R. montagui, showed good discrimination based on their morphometry, with just 6–11% misclassification between the two.
Biological parameters of immature, ripening, and non-reproductive, mature northeast Arctic cod in 1984–2006
Authors: Yaragina Natalia A. 
Published: June 2010

Abstract
Yaragina, N. A. 2010. Biological parameters of immature, ripening, and non-reproductive, mature northeast Arctic cod in 1984–2006. – ICES Journal of Marine Science, 67: 2033–2041. Russian samples of cod caught in the Barents Sea during November–February, the period of migration to the overwintering and spawning grounds, were re-analysed by grouping the maturity stages recorded in three classes: immature, ripening, and apparently mature fish, with gonads of uncertain status. When treated by age class and gender, these three classes were characterized by significant differences in size (length and weight) and condition (somatic and a liver index). Within an age group, the group with uncertain status was on average consistently larger than the ripening fish and the latter group was on average larger than the immature component. However, in terms of condition, fish of uncertain status resembled the immature fish. Males and females displayed very similar patterns, although the levels were consistently lower for the former. The patterns are consistent with the interpretation that the gonads of uncertain status represent non-reproductive, mature fish. At the population level, the percentage of mature fish that presumably skip spawning varied annually between 4 and 21%, but this has little effect on the perception of the overall development in spawning-stock biomass. No correlation was found between the non-reproductive fraction and environmental factors examined.
Isozoanthus primnoidus, a new species of zoanthid (Cnidaria: Zoantharia) associated with the gorgonian Callogorgia verticillata (Cnidaria: Alcyonacea)
Authors: Carreiro-Silva M. , Braga-Henriques A. , Sampaio I. , de Matos V. , Porteiro F. M. , Ocaña O. 
Published: June 2010

AbstractCarreiro-Silva, M., Braga-Henriques, A., Sampaio, I., de Matos, V., Porteiro, F. M., and Ocaña, O. 2011. Isozoanthus primnoidus, a new species of zoanthid (Cnidaria: Zoantharia) associated with the gorgonian Callogorgia verticillata (Cnidaria: Alcyonacea). – ICES Journal of Marine Science, 68: 408–415. In the Azores, Northeast Atlantic, an undescribed epizoan zoanthid is often found in association with the cold-water gorgonian Callogorgia verticillata at 110–800 m depth. This zoanthid was identified as a new species, Isozoanthus primnoidus sp. nov., based on morphological and anatomical characters of the polyps and type of cnidae. The distinguishing features of I. primnoidus are coenenchyme, column, and oral disc light brown, with short, translucent tentacles. Contracted polyps have column diameter up to 3 mm and height up to 2 mm. Ectoderm and outer mesogloea are densely encrusted with mineral particles and gorgonian sclerites. Capitulum bears a maximum of 14 distinctive ridges. Isozoanthus primnoidus was associated with 17% of C. verticillata colonies studied, and covered 14 ± 5% of the gorgonian colony. There was strong evidence of a parasitic relationship whereby I. primoidus progressively eliminates gorgonian tissue and uses the gorgonian axis for structure and support, and sclerites for protection.
The effect of temporal changes in life-history traits on reproductive potential in an exploited population of Pacific cod, Gadus macrocephalus
Authors: Narimatsu Yoji , Ueda Yuji , Okuda Takehiro , Hattori Tsutomu , Fujiwara Kunihiro , Ito Masaki 
Published: June 2010

AbstractNarimatsu, Y., Ueda, Y., Okuda, T., Hattori, T., Fujiwara, K., and Ito, M. 2010. The effect of temporal changes in life-history traits on reproductive potential in an exploited population of Pacific cod, Gadus macrocephalus. – ICES Journal of Marine Science, 67: 1659–1666. The population size of Pacific cod (Gadus macrocephalus) in the northeastern Pacific has fluctuated at high levels during the past 10 years, despite heavy exploitation from the juvenile stage. Annual changes in growth, age, and standard length (SL) at maturity, potential fecundity (PF), and total egg production are evaluated in relation to the population fluctuations. Most 4-year-old females were mature, and the SL at which 50% of 3-year-old females matured fluctuated very little over the years. However, the proportion of mature 3-year-old females varied significantly among years. The values of PF-at-age also varied among years and were explained by a model containing SL, condition factor, and oocyte diameter. The population size was negatively correlated with the proportion of mature females and the PF of females 3 years old, so the range of total egg production was smaller than that of spawning-stock biomasses. Eggs were produced mainly by young adults (3 and 4 years of age). The age of adult females did not affect recruitment success. It is suggested that plasticity of life-history traits allowed for compensation of total egg production and that the compensation contributed to maintaining the abundance of a population consisting mainly of young fish.
Enhancement of Plant Metabolite Fingerprinting by Machine Learning
Authors: Scott Ian M. , Vermeer Cornelia P. , Liakata Maria , Corol Delia I. , Ward Jane L. , Lin Wanchang , Johnson Helen E. , Whitehead Lynne , Kular Baldeep , Baker John M. , Walsh Sean , Dave Anuja , Larson Tony R. , Graham Ian A. , Wang Trevor L. , King Ross D. , Draper John , Beale Michael H. 
Published: June 2010

Abstract
Metabolite fingerprinting of Arabidopsis (Arabidopsis thaliana) mutants with known or predicted metabolic lesions was performed by 1H-nuclear magnetic resonance, Fourier transform infrared, and flow injection electrospray-mass spectrometry. Fingerprinting enabled processing of five times more plants than conventional chromatographic profiling and was competitive for discriminating mutants, other than those affected in only low-abundance metabolites. Despite their rapidity and complexity, fingerprints yielded metabolomic insights (e.g. that effects of single lesions were usually not confined to individual pathways). Among fingerprint techniques, 1H-nuclear magnetic resonance discriminated the most mutant phenotypes from the wild type and Fourier transform infrared discriminated the fewest. To maximize information from fingerprints, data analysis was crucial. One-third of distinctive phenotypes might have been overlooked had data models been confined to principal component analysis score plots. Among several methods tested, machine learning (ML) algorithms, namely support vector machine or random forest (RF) classifiers, were unsurpassed for phenotype discrimination. Support vector machines were often the best performing classifiers, but RFs yielded some particularly informative measures. First, RFs estimated margins between mutant phenotypes, whose relations could then be visualized by Sammon mapping or hierarchical clustering. Second, RFs provided importance scores for the features within fingerprints that discriminated mutants. These scores correlated with analysis of variance F values (as did Kruskal-Wallis tests, true- and false-positive measures, mutual information, and the Relief feature selection algorithm). ML classifiers, as models trained on one data set to predict another, were ideal for focused metabolomic queries, such as the distinctiveness and consistency of mutant phenotypes. Accessible software for use of ML in plant physiology is highlighted.
DTH8 Suppresses Flowering in Rice, Influencing Plant Height and Yield Potential Simultaneously
Authors: Wei Xiangjin , Xu Junfeng , Guo Hongnian , Jiang Ling , Chen Saihua , Yu Chuanyuan , Zhou Zhenling , Hu Peisong , Zhai Huqu , Wan Jianmin 
Published: June 2010

Abstract
The three most important agronomic traits of rice (Oryza sativa), yield, plant height, and flowering time, are controlled by many quantitative trait loci (QTLs). In this study, a newly identified QTL, DTH8 (QTL for days to heading on chromosome 8), was found to regulate these three traits in rice. Map-based cloning reveals that DTH8 encodes a putative HAP3 subunit of the CCAAT-box-binding transcription factor and the complementary experiment increased significantly days to heading, plant height, and number of grains per panicle in CSSL61 (a chromosome segment substitution line that carries the nonfunctional DTH8 allele) with the Asominori functional DTH8 allele under long-day conditions. DTH8 is expressed in most tissues and its protein is localized to the nucleus exclusively. The quantitative real-time PCR assay revealed that DTH8 could down-regulate the transcriptions of Ehd1 (for Early heading date1) and Hd3a (for Heading date3a; a rice ortholog of FLOWERING LOCUS T) under long-day conditions. Ehd1 and Hd3a can also be down-regulated by the photoperiodic flowering genes Ghd7 and Hd1 (a rice ortholog of CONSTANS). Meanwhile, the transcription of DTH8 has been proved to be independent of Ghd7 and Hd1, and the natural mutation of this gene caused weak photoperiod sensitivity and shorter plant height. Taken together, these data indicate that DTH8 probably plays an important role in the signal network of photoperiodic flowering as a novel suppressor as well as in the regulation of plant height and yield potential.