bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sedimentation and vegetation history of a buried Meuse terrace during the Holocene in relation to the human occupation history (Limburg, the Netherlands)
Authors: Zuidhoff Frieda S. , Bos Johanna A.A. 
Published: December 2016

AbstractDuring several archaeological excavations on a river terrace of the river Meuse near the village of Lomm (southeast Netherlands) information was gathered for a reconstruction of the sedimentation and vegetation history during the Holocene. Various geoarchaeological methods – geomorphological, micromorphological and botanical analyses – were applied, while accelerator mass spectrometry (AMS)14C and optically stimulated luminescence (OSL) dating provided an accurate chronology for the sediments.During the Early Holocene, many former braided river channels were deepened due to climate amelioration. Later, river flow concentrated in one main river channel to the west, at the location of the modern Meuse. The other channels were only active during floods, and infilling continued until the Bronze Age. Because of the higher setting of the Lomm terrace, it was only occasionally flooded and therefore formed an excellent location for habitation. Humans adapted to the changing landscape, as most remains were found on the higher river terraces or their slopes, a short distance from the Maas river. The Lomm terrace was more or less continuously inhabited from the Mesolithic onwards.During the Early Holocene, river terraces were initially densely forested with birch and pine. From the Boreal (Mesolithic) onwards, dense mixed forests with deciduous shrubs and trees such as hazel, oak, elm and lime developed. During the Atlantic (Meso/Neolithic), the deciduous forests became dominated by oak. Due to human activities from the Late Subboreal (Late Bronze Age) onwards, forests slowly became more open, yet remained relatively dense in comparison to other Dutch areas. The botanical data, however, show that within the Lomm study area there was a large difference in the composition, distribution and openness of the vegetation. The spatial variation in openness came into existence during the Late Bronze Age, as soon as the higher areas started to be used for human activities (i.e. habitation, agriculture and livestock herding). Due to human activities, the northern part of the study area became very open during the Early Roman period. In the lower-situated areas of the southern part, however, forests remained present much longer, until the Early Middle Ages. Due to large-scale deforestation in the Lomm area and hinterland during the Roman period and Middle Ages, the sediment load of the river increased, large floods occurred and overbank sediments were deposited, burying the archaeological remains. The largest increase in sedimentation occurred after the Middle Ages.
A universal model for growth of user population of products and services
Authors: ZHAN CHOUJUN , TSE CHI K. 
Published: December 2016

AbstractWe consider a network of interacting individuals, whose actions or transitions are determined by the states (behavior) of their neighbors as well as their own personal decisions. Specifically, we develop a model according to two simple decision-making rules that can describe the growth of the user population of a newly launched product or service. We analyze 22 sets of real-world historical growth data of a variety of products and services, and show that they all follow the growth equation. The numerical procedure for finding the model parameters allows the market size, and the relative effectiveness of customer service and promotional efforts to be estimated from the available historical growth data. We study the growth profiles of products and find that for a product or service to reach a mature stage within a reasonably short time in its user growth profile, the user growth rate corresponding to influenced transitions must exceed a certain threshold. Furthermore, results show that individuals in the group of celebrities having numerous friends become users of a new product or service at a much faster rate than those connected to ordinary individuals having fewer friends.
WHAT IS CIRCUMSTANTIAL ABOUT JUSTICE?
Authors: Estlund David 
Published: December 2016

Abstract:Does social justice lose all application in the (imaginary, of course) condition in which people are morally flawless? The answer, I will argue, is that it does not — justice might still have application. This is one lesson of my broader thesis in this paper, that there is a variety of conditions we would all regard as highly idealistic and unrealistic which are, nevertheless, not beyond justice. The idea of “circumstances of justice” developed especially by Hume and Rawls may seem to point in a more realistic direction, but we can see that this is not so once we distinguish between conditions of need for norms of justice, conditions of their emergence, and conditions of applicability of the standard of justice. Justice, I argue, can have application even in conditions where no mechanism of justice is present or needed, such as the case of internalized motives of justice.
WHAT IS A POLITICAL VALUE? POLITICAL PHILOSOPHY AND FIDELITY TO REALITY
Authors: Sleat Matt 
Published: December 2016

Abstract:This essay seeks to defend the claim that political philosophy ought to be appropriately guided by the phenomenon of politics that it seeks to both offer a theory of and, especially in its normative guise, offer a theory for. It does this primarily through the question of political values. It begins by arguing that for any value to qualify as a value for the political domain, it must be intelligible in relation to the constitutive features of politics as a human activity. It then examines the extent to which the preconditions for the realization of values in practice ought to figure in our considerations as to whether they are values that fit or belong to our social world. We can understand these parts of the essay as responding to two related questions, respectively: (i) Is this a political value at all? — which is to ask, is it a value that is appropriate for the political realm?; and then (ii) Is this a political value for us? The final section responds to the often-made complaint that political philosophy ought not to make any concessions to the actual world of politics as it really is, arguing that attending to the realities of politics, and in particular the constitutive conditions of political activity, gives meaning to the enterprise as the theorization of politics (and not something else). Furthermore those same conditions provide the limits of intelligibility beyond which ideals and values can no longer be, in any meaningful sense, ideals and values for the political sphere.
JUSTICE WITHIN THE LIMITS OF HUMAN NATURE ALONE
Authors: Badhwar Neera K. 
Published: December 2016

Abstract:Contra John Rawls, G. A. Cohen argues that the fundamental principles of justice are not constrained by the limits of our nature or the nature of society, even at its historical best. Justice is what it is, even if it will never be realized, fully or at all. Likewise, David Estlund argues that since our innate motivations can be justice-tainting, they cannot be a constraint on the right conception of justice. Cohen and Estlund agree that if the attempt to implement a certain conception of justice is likely to result in widespread harm or injustice, then it should not be implemented, but that this does not entail that the conception itself is false. I argue that (i) there is no way to judge the soundness of a principle of justice independently of all psychological facts, and the effects that the principle is likely to have if it is implemented; (ii) a principle of justice that, if implemented, makes it hard or impossible for individuals committed to justice to lead happy and worthwhile lives, even if the circumstances are favorable to living justly, cannot be sound; (iii) without the constraints noted in (i) and (ii), there can be no reason to reject racist, sexist, or other wrongheaded principles of justice that have been advanced as sound over the years, principles that even Cohen and Estlund would reject. In short, justice is justice only if kept within the limits of human nature.
IN WHAT SENSE MUST POLITICAL PHILOSOPHY BE POLITICAL?
Authors: Miller David 
Published: December 2016

Abstract:Political philosophy appears to have recovered from its alleged death in the
middle of the last century, but now faces the realist charge that in the work of
John Rawls and those influenced by him it fails to be political in the right
way; it is merely “applied moral philosophy.” I dismiss
the hyper-realist position of authors such as Raymond Geuss for taking an
implausibly narrow view of politics. There is more merit in Bernard
Williams’s claim that legitimacy, not justice, is the central problem
of political philosophy. Yet we cannot understand the significance of
legitimation without referring to the moral values that are realized when it
succeeds. Thus, Williams fails to show that political normativity can be
detached entirely from ethics. Moreover the legitimacy requirements of a liberal
state, according to Williams, are substantively close to the requirements of
justice according to Rawls. In light of the latter’s turn to
“political liberalism,” they appear also to hold
convergent views about the status of the theories they are advancing. I conclude
by suggesting that the “applied moral philosophy” charge
would apply only to philosophers who believe that general moral principles, like
utility or rights, can do all the work of political evaluation. Politics does
indeed have special features that impose distinctive justificatory requirements
on its procedures and the outcomes they produce.
ON THE VERY IDEA OF IDEAL THEORY IN POLITICAL PHILOSOPHY
Authors: Rosenberg Alexander 
Published: December 2016

Abstract:The essay agues that there is little scope for ideal theory in political
philosophy, even under Rawls’s conception of its aims. It begins by
identifying features of a standard example of ideal theory in physics
— the ideal gas law, PV=NRT and draws attention to the
lack of these features in Rawls’s derivation of the principles of
justice from the original position. A. John Simmons’s defense of
ideal theory against criticisms of Amartya Sen is examined, as are further
criticisms of both by David Schmidtz. The essay goes on to develop a conception
of the domain of social relations to be characterized by justice that suggests
that as a moving target it makes ideal theory otiose. Examination of
Rawls’s later views substantiate the conclusion that ideal theory as
propounded in A Theory of Justice is a mistaken starting point in the enterprise
of political philosophy. Differences between the domains of ideal theory in
mathematics, physics, and economics on the one hand, and political philosophy on
the other, reinforce this conclusion.
Missing data in FFQs: making assumptions about item non-response
Authors: Lamb Karen E , Olstad Dana Lee , Nguyen Cattram , Milte Catherine , McNaughton Sarah A 
Published: December 2016

AbstractObjectiveFFQs are a popular method of capturing dietary information in epidemiological studies and may be used to derive dietary exposures such as nutrient intake or overall dietary patterns and diet quality. As FFQs can involve large numbers of questions, participants may fail to respond to all questions, leaving researchers to decide how to deal with missing data when deriving intake measures. The aim of the present commentary is to discuss the current practice for dealing with item non-response in FFQs and to propose a research agenda for reporting and handling missing data in FFQs.ResultsSingle imputation techniques, such as zero imputation (assuming no consumption of the item) or mean imputation, are commonly used to deal with item non-response in FFQs. However, single imputation methods make strong assumptions about the missing data mechanism and do not reflect the uncertainty created by the missing data. This can lead to incorrect inference about associations between diet and health outcomes. Although the use of multiple imputation methods in epidemiology has increased, these have seldom been used in the field of nutritional epidemiology to address missing data in FFQs. We discuss methods for dealing with item non-response in FFQs, highlighting the assumptions made under each approach.ConclusionsResearchers analysing FFQs should ensure that missing data are handled appropriately and clearly report how missing data were treated in analyses. Simulation studies are required to enable systematic evaluation of the utility of various methods for handling item non-response in FFQs under different assumptions about the missing data mechanism.
The comparative landscape of duplications in Heliconius melpomene and Heliconius cydno
Authors: Pinharanda A , Martin S H , Barker S L , Davey J W , Jiggins C D 
Published: December 2016

AbstractGene duplications can facilitate adaptation and may lead to interpopulation divergence, causing reproductive isolation. We used whole-genome resequencing data from 34 butterflies to detect duplications in two Heliconius species, Heliconius cydno and Heliconius melpomene. Taking advantage of three distinctive signals of duplication in short-read sequencing data, we identified 744 duplicated loci in H. cydno and H. melpomene and evaluated the accuracy of our approach using single-molecule sequencing. We have found that duplications overlap genes significantly less than expected at random in H. melpomene, consistent with the action of background selection against duplicates in functional regions of the genome. Duplicate loci that are highly differentiated between H. melpomene and H. cydno map to four different chromosomes. Four duplications were identified with a strong signal of divergent selection, including an odorant binding protein and another in close proximity with a known wing colour pattern locus that differs between the two species.
Experience-dependent hippocampal pattern differentiation prevents interference during subsequent learning
Authors: Favila Serra E. , Chanales Avi J. H. , Kuhl Brice A. 
Published: December 2016

AbstractThe hippocampus is believed to reduce memory interference by disambiguating neural representations of similar events. However, there is limited empirical evidence linking representational overlap in the hippocampus to memory interference. Likewise, it is not fully understood how learning influences overlap among hippocampal representations. Using pattern-based fMRI analyses, we tested for a bidirectional relationship between memory overlap in the human hippocampus and learning. First, we show that learning drives hippocampal representations of similar events apart from one another. These changes are not explained by task demands to discriminate similar stimuli and are fully absent in visual cortical areas that feed into the hippocampus. Second, we show that lower representational overlap in the hippocampus benefits subsequent learning by preventing interference between similar memories. These findings reveal targeted experience-dependent changes in hippocampal representations of similar events and provide a critical link between memory overlap in the hippocampus and behavioural expressions of memory interference.
Tuning the role of charge-transfer states in intramolecular singlet exciton fission through side-group engineering
Authors: Lukman Steven , Chen Kai , Hodgkiss Justin M. , Turban David H. P. , Hine Nicholas D. M. , Dong Shaoqiang , Wu Jishan , Greenham Neil C. , Musser Andrew J. 
Published: December 2016

AbstractUnderstanding the mechanism of singlet exciton fission, in which a singlet exciton separates into a pair of triplet excitons, is crucial to the development of new chromophores for efficient fission-sensitized solar cells. The challenge of controlling molecular packing and energy levels in the solid state precludes clear determination of the singlet fission pathway. Here, we circumvent this difficulty by utilizing covalent dimers of pentacene with two types of side groups. We report rapid and efficient intramolecular singlet fission in both molecules, in one case via a virtual charge-transfer state and in the other via a distinct charge-transfer intermediate. The singlet fission pathway is governed by the energy gap between singlet and charge-transfer states, which change dynamically with molecular geometry but are primarily set by the side group. These results clearly establish the role of charge-transfer states in singlet fission and highlight the importance of solubilizing groups to optimize excited-state photophysics.
Constraints and spandrels of interareal connectomes
Authors: Rubinov Mikail 
Published: December 2016

AbstractInterareal connectomes are whole-brain wiring diagrams of white-matter pathways. Recent studies have identified modules, hubs, module hierarchies and rich clubs as structural hallmarks of these wiring diagrams. An influential current theory postulates that connectome modules are adequately explained by evolutionary pressures for wiring economy, but that the other hallmarks are not explained by such pressures and are therefore less trivial. Here, we use constraint network models to test these postulates in current gold-standard vertebrate and invertebrate interareal-connectome reconstructions. We show that empirical wiring-cost constraints inadequately explain connectome module organization, and that simultaneous module and hub constraints induce the structural byproducts of hierarchies and rich clubs. These byproducts, known as spandrels in evolutionary biology, include the structural substrate of the default-mode network. Our results imply that currently standard connectome characterizations are based on circular analyses or double dipping, and we emphasize an integrative approach to future connectome analyses for avoiding such pitfalls.
Spaceflight modulates gene expression in the whole blood of astronauts
Authors: Barrila Jennifer , Ott C Mark , LeBlanc Carly , Mehta Satish K , Crabbé Aurélie , Stafford Phillip , Pierson Duane L , Nickerson Cheryl A 
Published: December 2016

AbstractAstronauts are exposed to a unique combination of stressors during spaceflight, which leads to alterations in their physiology and potentially increases their susceptibility to disease, including infectious diseases. To evaluate the potential impact of the spaceflight environment on the regulation of molecular pathways mediating cellular stress responses, we performed a first-of-its-kind pilot study to assess spaceflight-related gene-expression changes in the whole blood of astronauts. Using an array comprised of 234 well-characterized stress-response genes, we profiled transcriptomic changes in six astronauts (four men and two women) from blood preserved before and immediately following the spaceflight. Differentially regulated transcripts included those important for DNA repair, oxidative stress, and protein folding/degradation, including HSP90AB1, HSP27, GPX1, XRCC1, BAG-1, HHR23A, FAP48, and C-FOS. No gender-specific differences or relationship to number of missions flown was observed. This study provides a first assessment of transcriptomic changes occurring in the whole blood of astronauts in response to spaceflight.
A Competitive Bio-Barcode Amplification Immunoassay for Small Molecules Based on Nanoparticles
Authors: Du Pengfei , Jin Maojun , Chen Ge , Zhang Chan , Jiang Zejun , Zhang Yanxin , Zou Pan , She Yongxin , Jin Fen , Shao Hua , Wang Shanshan , Zheng Lufei , Wang Jing 
Published: December 2016

AbstractA novel detection method of small molecules, competitive bio-barcode amplification immunoassay, was developed and described in this report. Through the gold nanoparticles (AuNPs) probe and magnetic nanoparticles (MNPs) probe we prepared, only one monoclonal antibody can be used to detect small molecules. The competitive bio-barcode amplification immunoassay overcomes the obstacle that the bio-barcode assay cannot be used in small molecular detection, as two antibodies are unable to combine to one small molecule due to its small molecular structure. The small molecular compounds, triazophos, were selected as targets for the competitive bio-barcode amplification immunoassay. The linear range of detection was from 0.04 ng mL−1 to 10 ng mL−1, and the limit of detection (LOD) was 0.02 ng mL−1, which was 10–20 folds lower than ELISA (Enzyme Linked Immunosorbent Assay). A practical application of the proposed immunoassay was evaluated by detecting triazophos in real samples. The recovery rate ranged from 72.5% to 110.5%, and the RSD was less than 20%. These results were validated by GC-MS, which indicated that this convenient and sensitive method has great potential for small molecular in real samples.
Gsy, a novel glucansucrase from Leuconostoc mesenteroides, mediates the formation of cell aggregates in response to oxidative stress
Authors: Yan Minghui , Han Jin , Xu Xiaofen , Liu Lianliang , Gao Caixia , Zheng Huajun , Chen Yunxia , Tao Yimin , Zhou Hu , Li Yunfei , Wu Zhengjun 
Published: December 2016

AbstractLeuconostoc mesenteroides is a member of lactic acid bacteria (LAB) with wide applications in the food and medical industries. Species in the genus Leuconostoc are catalase-negative and generally regarded as facultative anaerobic or aerotolerant organisms. Despite their extensive use in industry, certain issues concerning the aerobic life of L. mesenteroides, e.g., the mechanism involved in the tolerance to oxygen, remain to be addressed. In this manuscript, a survival strategy employed by L. mesenteroides BD3749 in response to oxidative stress was elucidated. BD3749 cells cultivated in medium with sucrose available synthesized large amounts of exopolysaccharides, mostly consisting of insoluble EPS. When BD3749 cells were challenged with oxidative stress, the amount of insoluble EPS was greatly enhanced. The synthesized EPSs reduced the accumulation of reactive oxygen species (ROS) in bacterial cells and improved their survival during chronic oxidative stress. Another study showed that Gsy, a novel glucansucrase in the GH70 family that is induced by sucrose and up-regulated following exposure to oxygen, was responsible for the synthesis of insoluble EPS. Gsy was subsequently demonstrated to play pivotal roles in the formation of aggregates to alleviate the detrimental effects on BD3749 cells exerted by oxygen.
Activation induced deaminase mutational signature overlaps with CpG methylation sites in follicular lymphoma and other cancers
Authors: Rogozin Igor B. , Lada Artem G. , Goncearenco Alexander , Green Michael R. , De Subhajyoti , Nudelman German , Panchenko Anna R. , Koonin Eugene V. , Pavlov Youri I. 
Published: December 2016

AbstractFollicular lymphoma (FL) is an uncurable cancer characterized by progressive severity of relapses. We analyzed sequence context specificity of mutations in the B cells from a large cohort of FL patients. We revealed substantial excess of mutations within a novel hybrid nucleotide motif: the signature of somatic hypermutation (SHM) enzyme, Activation Induced Deaminase (AID), which overlaps the CpG methylation site. This finding implies that in FL the SHM machinery acts at genomic sites containing methylated cytosine. We identified the prevalence of this hybrid mutational signature in many other types of human cancer, suggesting that AID-mediated, CpG-methylation dependent mutagenesis is a common feature of tumorigenesis.