bluuebunny/crossref_metadata_2025_split huggingface dataset:
Tracking the Actions and Possessions of Agents
Authors: Gelman Susan A. , Noles Nicholaus S. , Stilwell Sarah 
Published: August 2014

AbstractWe propose that there is a powerful human disposition to track the actions and possessions of agents. In two experiments, 3‐year‐olds and adults viewed sets of objects, learned a new fact about one of the objects in each set (either that it belonged to the participant, or that it possessed a particular label), and were queried about either the taught fact or an unrelated dimension (preference) immediately after a spatiotemporal transformation, and after a delay. Adults uniformly tracked object identity under all conditions, whereas children tracked identity more when taught ownership versus labeling information, and only regarding the taught fact (not the unrelated dimension). These findings suggest that the special attention that children and adults pay to agents readily extends to include inanimate objects. That young children track an object's history, despite their reliance on surface features on many cognitive tasks, suggests that unobservable historical features are foundational in human cognition.
Small RNA and degradome profiling reveals a role for miRNAs and their targets in the developing fibers of Gossypium barbadense
Authors: Liu Nian , Tu Lili , Tang Wenxin , Gao Wenhui , Lindsey Keith , Zhang Xianlong 
Published: August 2014

SummarymicroRNAs (miRNAs) are 20–24 nucleotide non‐coding small RNAs that play important roles in plant development. The stages of cotton fiber development include initiation, elongation, secondary wall thickening (SWT) and maturation. We constructed seven fiber RNA libraries representing the initiation, elongation and SWT stages. In total, 47 conserved miRNA families and seven candidate miRNAs were profiled using small RNA sequencing. Northern blotting and real‐time polymerase chain reaction (PCR) analyses revealed the dynamic expression of miRNAs during fiber development. In addition, 140 targets of 30 conserved miRNAs and 38 targets of five candidate miRNAs were identified through degradome sequencing. Analysis of correlated expression between miRNAs and their targets demonstrated that specific miRNAs suppressed the expression of transcription factors, SBP and MYB, a leucine‐rich receptor‐like protein kinase, a pectate lyase, α‐tubulin, a UDP‐glucuronic acid decarboxylase and cytochrome C oxidase subunit 1 to affect fiber development. Histochemical analyses detected the biological activity of miRNA156/157 in ovule and fiber development. Suppressing miRNA156/157 function resulted in the reduction of mature fiber length, illustrating that miRNA156/157 plays an essential role in fiber elongation.
Identification of drug‐resistant subpopulations in canine hemangiosarcoma
Authors: Khammanivong A. , Gorden B. H. , Frantz A. M. , Graef A. J. , Dickerson E. B. 
Published: August 2014

AbstractCanine hemangiosarcoma is a rapidly progressive disease that is poorly responsive to conventional chemotherapy. Despite numerous attempts to advance treatment options and improve outcomes, drug resistance remains a hurdle to successful therapy. To address this problem, we used recently characterized progenitor cell populations derived from canine hemangiosarcoma cell lines and grown as non‐adherent spheres to identify potential drug resistance mechanisms as well as drug‐resistant cell populations. Cells from sphere‐forming cultures displayed enhanced resistance to chemotherapy drugs, expansion of dye‐excluding side populations and altered ATP‐binding cassette (ABC) transporter expression. Invasion studies demonstrated variability between cell lines as well as between sphere and monolayer cell populations. Collectively, our results suggest that sphere cell populations contain distinct subpopulations of drug‐resistant cells that utilize multiple mechanisms to evade cytotoxic drugs. Our approach represents a new tool for the study of drug resistance in hemangiosarcoma, which could alter approaches for treating this disease.
Histological and dermatoscopic description of sphynx cat skin
Authors: Genovese David W. , Johnson Tammy L. , Lamb Ken E. , Gram Wallace D. 
Published: August 2014

BackgroundHistological and hair coat abnormalities of the alopecic sphynx cat have not been described in detail. The hairless allele (hr) in sphynx cats represents a mutation in the gene for keratin 71, a protein expressed in the inner root sheath of humans and mice.Hypothesis/ObjectivesTo describe the histological and dermatoscopic abnormalities of sphynx cat skin.AnimalsSkin biopsies were collected from 14 sphynx cats and five cats with normal coats. Dermatoscopic examinations were performed on 11 sphynx cats and six additional control cats.MethodsVertical and horizontal sections of skin biopsy samples from sphynx and control cats were reviewed. Dermatoscopic images were compared between sphynx and control cats.ResultsSphynx cat hair follicles were often small, curved and kinked and demonstrated infundibular hyperkeratosis and dilatation. Changes in the inner root sheath of sphynx cats included a poorly defined Henle's layer in addition to vacuolar‐like changes and eosinophilic globules in Huxley's layer. Dermal papillae in sphynx cat anagen bulbs lacked the normal flame shape and were surrounded by epithelial cells arranged in a disorderly manner. The degree of follicular abnormalities varied between follicles. Follicular density was similar for both sphynx cats and control animals. Sphynx cat hair shafts were misshapen, smaller in diameter and rarely medullated. Dermatoscopy revealed similar hair coat density in sphynx and control cats.Conclusions and clinical importanceSphynx cats demonstrated hair follicle dysplasia, with abnormal shaft production but without a decrease in follicle quantity. Abnormalities in sphynx cat follicles are similar to those in murine KRT71 mutants and suggest abnormal hair shaft keratinization.
Flow Control Over a Circular Cylinder Using Pulsed Dielectric Barrier
Discharge Actuators
Authors: Schneck William C. , O'Brien Walter F. 
Published: August 2014

Abstract
Immersed bodies such as struts, vanes, and instrumentation probes in gas turbine flow systems will, except at the lowest of flow velocities, shed separated wakes. These wakes can have both upstream and downstream effects on the surrounding flow. In most applications, surrounding components are designed to be in the presence of a quasi-steady or at least nonvariant flow field. The presence of unsteady wakes has both aerodynamic and structural consequences. Active flow control of wake generation can therefore be very valuable. One means to implement active flow control is by the use of plasma actuation. Plasma actuation is the use of strong electric fields to generate ionized gas that can be actuated and controlled using the electric fields. The controlling device can be based on AC, DC, or pulsed-DC actuation. The present research was conducted using pulsed-DC from a capacitive discharge power supply. The study demonstrates the applicability of, specifically, pulsed-DC plasma flow control of the flow on a circular cylinder at high Reynolds numbers. The circular cylinder was selected because its flow characteristics are related to gas turbine flowpath phenomena, and are well characterized. Further, the associated pressure gradients are some of the most severe encountered in fluid applications. The development of effective plasma actuators at high Reynolds numbers under the influence of severe pressure gradients is a necessary step toward developing useful actuators for gas turbine applications beyond laboratory use. The reported experiments were run at Reynolds numbers varying from 50,000 to 97,000, and utilizing various pulse frequencies. Further the observed performance differences with varying electric field strengths are discussed for these Reynolds numbers. The results show that flow behaviors at high Reynolds numbers can be influenced by these types of actuators. The actuators were able to demonstrate a reduction in both wake width and momentum deficit.
Impact of the Tropopause Temperature on the Intensity of Tropical Cyclones: An Idealized Study Using a Mesoscale Model
Authors: Wang Shuguang , Camargo Suzana J. , Sobel Adam H. , Polvani Lorenzo M. 
Published: August 2014

Abstract
This study investigates the impact of the tropopause temperature on the intensity of idealized tropical cyclones (TCs) superimposed on background states of radiative–convective equilibrium (RCE) in a three-dimensional (3D) mesoscale model. Simulations are performed with constant sea surface temperature and an isothermal stratosphere with constant tropopause temperature. The potential intensity (PI) computed from the thermodynamic profiles of the RCE state (before the TCs are superimposed on it) increases by 0.4–1 m s−1 for each 1 K of tropopause temperature reduction. The 3D TC experiments yield intense tropical cyclones whose intensities exceed the PI value substantially. It is further shown that the discrepancy may be largely explained by the supergradient wind in the 3D simulations. The intensities of these 3D TCs increase by ~0.4 m s−1 per 1 K of cooling in the tropopause temperature in RCE, on the low end of the PI dependence on the tropopause temperature. Sensitivity experiments with a larger horizontal grid spacing of 8 km produce less intense TCs, as expected, but similar dependence (~−0.5 m s−1 K−1) on tropopause temperature. Equilibrium TC solutions are further obtained in 200-day experiments with different values of constant stratospheric temperature. Similar relationships between TC intensity and tropopause temperature are also found in these equilibrium TC solutions.
A Numerical Study of Methods for Moist Atmospheric Flows: Compressible Equations
Authors: Duarte Max , Almgren Ann S. , Balakrishnan Kaushik , Bell John B. , Romps David M. 
Published: August 2014

Abstract
Two common numerical techniques for integrating reversible moist processes in atmospheric flows are investigated in the context of solving the fully compressible Euler equations. The first is a one-step, coupled technique based on using appropriate invariant variables such that terms resulting from phase change are eliminated in the governing equations. In the second approach, which is a two-step scheme, separate transport equations for liquid water and water vapor are used, and no conversion between water vapor and liquid water is allowed in the first step, while in the second step a saturation adjustment procedure is performed that correctly allocates the water into its two phases based on the Clausius–Clapeyron formula. The numerical techniques described are first validated by comparing to a well-established benchmark problem. Particular attention is then paid to the effect of changing the time scale at which the moist variables are adjusted to the saturation requirements in two different variations of the two-step scheme. This study is motivated by the fact that when acoustic modes are integrated separately in time (neglecting phase change related phenomena), or when soundproof equations are integrated, the time scale for imposing saturation adjustment is typically much larger than the numerical one related to the acoustics.
Evaluation of five different suture materials in the skin of the earthworm (Lumbricus terrestris)
Authors: Salgado Melissa A , Lewbart Gregory A , Christian Larry S , Griffith Emily H , Law Jerry McHugh 
Published: August 2014

Abstract
The purpose of this study was to determine which suture material is the most appropriate for dermal closure of terrestrial annelids. This paper describes the tissue reactions of the earthworm, Lumbricus terrestris, to five different types of suture materials in order to determine which suture material is the most appropriate for dermal closure. Silk, monofilament nylon, polydiaxonone, polyglactin 910, and chromic gut were studied. There was mild to moderate tissue reaction to all five suture materials. In all of the biopsies wound-healing reaction consisted of aggregates of blastemal cells which appeared in various stages of dedifferentiation from the body wall. Inflammatory cells infiltrated the wound sites, reminiscent of the typical foreign body reaction in vertebrates. The results indicate polyglactin 910 would be the best suture material with regards to tissue security and reaction scores. Chromic gut occupies the next position but there were problems with suture security over time. This appears to be the first suture material performance study on a terrestrial invertebrate. The earthworm, Lumbricus terrestris, was chosen for its wide availability, size, and the extensive species knowledge base. The earthworm may prove to be a good surgical/suture model for economically important invertebrates such as mollusks, tunicates, and insect larval stages.
A comparative study of mesenchymal stem cell transplantation with its paracrine effect on control of hyperglycemia in type 1 diabetic rats
Authors: Aali Ehsan , Mirzamohammadi Solmaz , Ghaznavi Habib , Madjd Zahra , Larijani Bagher , Rayegan Samira , Sharifi Ali M 
Published: August 2014

Abstract
Background
Many studies suggested mesenchymal stem cells (MSCs) transplantation as a new approach to control hyperglycemia in type 1 diabetes mellitus through differentiation mechanism. In contrary others believed that therapeutic properties of MSCs is depends on paracrine mechanisms even if they were not engrafted. This study aimed to compare these two approaches in control of hyperglycemia in STZ-induced diabetic rats.

Methods
Animals were divided into five groups: normal; diabetic control; diabetic received MSCs; diabetic received supernatant of MSCs; diabetic received co-administration of MSCs with supernatant. Blood glucose, insulin levels and body weight of animals were monitored during experiment. Immunohistochemical and immunofluorescence analysis were performed to monitor functionality and migration of labeled-MSCs to pancreas.

Results
First administration of MSCs within the first 3 weeks could not reduce blood glucose, but second administration significantly reduced blood glucose after week four compared to diabetic controls. Daily injection of supernatant could not reduce blood glucose as efficient as MSCs. Interestingly; Co-administration of MSCs with supernatant significantly reduced blood glucose more than other treated groups. Insulin levels and body weight were significantly increased in MSCs + supernatant-treated animals compared to other groups. Immunohistological analysis showed an increase in number and size of islets per section respectively in supernatant, MSCs and MSCs + supernatant-treated groups.

Conclusion
Present study exhibited that repeated-injection of MSCs reduced blood glucose and increased serum insulin levels in recipient rats. Injection of supernatant could not reverse hyperglycemia as efficient as MSCs. Interestingly; co-administration of MSCs with supernatant could reverse hyperglycemia more than either group alone.
A document classifier for medicinal chemistry publications trained on the ChEMBL corpus
Authors: Papadatos George , van Westen Gerard JP , Croset Samuel , Santos Rita , Trubian Simone , Overington John P 
Published: August 2014

Abstract

Background
The large increase in the number of scientific publications has fuelled a need for semi- and fully automated text mining approaches in order to assist in the triage process, both for individual scientists and also for larger-scale data extraction and curation into public databases. Here, we introduce a document classifier, which is able to successfully distinguish between publications that are `ChEMBL-like’ (i.e. related to small molecule drug discovery and likely to contain quantitative bioactivity data) and those that are not. The unprecedented size of the medicinal chemistry literature collection, coupled with the advantage of manual curation and mapping to chemistry and biology make the ChEMBL corpus a unique resource for text mining.

Results
The method has been implemented as a data protocol/workflow for both Pipeline Pilot (version 8.5) and KNIME (version 2.9) respectively. Both workflows and models are freely available at: ftp://ftp.ebi.ac.uk/pub/databases/chembl/text-mining. These can be readily modified to include additional keyword constraints to further focus searches.

Conclusions
Large-scale machine learning document classification was shown to be very robust and flexible for this particular application, as illustrated in four distinct text-mining-based use cases. The models are readily available on two data workflow platforms, which we believe will allow the majority of the scientific community to apply them to their own data.

Abstract
The ACCE method: an approach for obtaining quantitative or qualitative estimates of residual confounding
Authors: Smith Eric G. 
Published: August 2014

Background: Nonrandomized studies typically cannot account for confounding from unmeasured factors. Method: A method is presented that exploits the recently-identified phenomenon of “confounding amplification” to produce, in principle, a quantitative estimate of total residual confounding resulting from both measured and unmeasured factors. Two nested propensity score models are constructed that differ only in the deliberate introduction of an additional variable(s) that substantially predicts treatment exposure. Residual confounding is then estimated by dividing the change in treatment effect estimate between models by the degree of confounding amplification estimated to occur, adjusting for any association between the additional variable(s) and outcome.Results: A hypothetical example is provided to illustrate how the method produces a quantitative estimate of residual confounding if the method’s requirements and assumptions are met. Previously published data is used to illustrate that, whether or not the method routinely provides precise quantitative estimates of residual confounding, the method appears to produce a valuable qualitative estimate of the likely direction and general size of residual confounding.Limitations: Uncertainties exist, including identifying the best approaches for: 1) predicting the amount of confounding amplification, 2) minimizing changes between the nested models unrelated to confounding amplification, 3) assessing the association of the introduced variable(s) with outcome, and 4) deriving confidence intervals for the method’s estimates (although bootstrapping is one plausible approach).Conclusions: To this author’s knowledge, it has not been previously suggested that the phenomenon of confounding amplification, if such amplification is as predictable as suggested by a recent simulation, provides a logical basis for estimating total residual confounding. The method's basic approach is straightforward. The method's routine usefulness, however, has not yet been established, nor has the method been fully validated. Rapid further investigation of this novel method is clearly indicated, given the potential value of its quantitative or qualitative output.
What's post racial discourse got to do with it? Obama and implications for multiculturalism in college classrooms
Authors: Springer Jennifer Thorington 
Published: August 2014

With the election and re-election of Barack Obama as the first Black President of the United States came the vexing yet perhaps expected conclusion that issues of race and ethnicity were no longer grave concerns. Somehow Obama’s presence suggests the transcendence of race. While a nod to the political progress made in terms of social race relations may be in order, Obama’s election does not translate into a “color-blind,” “post race” American nation. This essay explores how current and ongoing conversations about a post race nation shape student perceptions of race and how they directly affect the teaching instruction of professors, like myself, who are invested in multicultural and inclusive pedagogy. As an instructor invested in inclusive learning, my former struggle of getting students to understand the importance of acknowledging the validity of cultural differences has resurfaced as students who buy into the rhetoric of a “post race” nation no longer think it necessary to examine closely racially charged inequities. Rather than adhere to the problematic ideology of Obama as the embodiment of a “post race” nation, I propose an exploration of his identity and politics as those that encourage fluidity and cultural plurality without denying rightful acknowledgement of race as a viable political reality.
Principles and mechanisms of CD95 activation
Authors: Wajant Harald 
Published: August 2014

Abstract
CD95 (Apo1/Fas) has been originally identified as the target of cell death-inducing antibodies. The recognition of CD95 as an apoptosis-triggering receptor represents one of the early milestones in the apoptosis field. Moreover, the research on CD95-induced cell death fostered various other discoveries of broad and general relevance in cell biology, for example, the identification of caspase 8 as the initiator caspase of the extrinsic apoptosis pathway. Activation of CD95-associated intracellular signaling pathways is not a simple consequence of ligand binding but is the fine-tuned result of a complex interplay of various molecular mechanisms that eventually determine the strength and quality of the CD95 response. There is growing evidence that different forms of CD95 stimulation trigger the assembly of CD95 signaling complexes of distinct composition. Moreover, the formation of signaling competent CD95 complexes is a multistep process and the subject of regulation by various cellular cues. This review addresses the relevance of the molecular nature of the CD95-stimulating agonist for the quality of the CD95 response and discusses the importance of modification, clustering, internalization, and lipid raft and actin association of CD95 for CD95 activity.
Outlier Detection for the Nonlinear Gauss Helmert Model With Variance Components by the Expectation Maximization Algorithm
Authors: Koch Karl-Rudolf 
Published: August 2014

AbstractBest invariant quadratic unbiased estimates (BIQUE) of the variance and covariance components for a nonlinear Gauss Helmert (GH) model are derived. To detect outliers, the expectation maximization (EM) algorithm based on the variance-inflation model and the mean-shift model is applied, which results in an iterative reweighting least squares. Each step of the iterations for the EM algorithm therefore includes first the iterations for linearizing the GH model and then the iterations for estimating the variance components. The method is applied to fit a surface in three-dimensional space to the three coordinates of points measured, for instance, by a laser scanner. The surface is represented by a polynomial of second degree and the variance components of the three coordinates are estimated. Outliers are detected by the EM algorithm based on the variance-inflation model and identified by the EM algorithm for the mean-shift model.