bluuebunny/crossref_metadata_2025_split huggingface dataset:
Psychophysiological Interactions in a Visual Checkerboard Task: Reproducibility, Reliability, and the Effects of Deconvolution
Authors: Di Xin , Biswal Bharat B. 
Published: June 2017

AbstractPsychophysiological interaction (PPI) is a regression based method to study task modulated brain connectivity. Despite its popularity in functional MRI (fMRI) studies, its reliability and reproducibility have not been evaluated. We investigated reproducibility and reliability of PPI effects during a simple visual task, and examined the effect of deconvolution on the PPI results. A large open-access dataset was analyzed (n = 138), where a visual task was scanned twice with repetition times (TRs) of 645 ms and 1400 ms, respectively. We first replicated our previous results by using the left and right middle occipital gyrus as seeds. Then ROI-wise (regions of interest) analysis was performed among twenty visual-related thalamic and cortical regions, and negative PPI effects were found between many ROIs with the posterior fusiform gyrus as a hub region. Both the seed-based and ROI-wise results were similar between the two runs and between the two PPI methods with and without deconvolution. The non-deconvolution method and the short TR run in general had larger effect sizes and greater extents. However, the deconvolution method performed worse in the 645 ms TR run than the 1400 ms TR run in the voxel-wise analysis. Given the general similar results between the two methods and the uncertainty of deconvolution, we suggest that deconvolution may be not necessary for PPI analysis on block-designed data. Lastly, intraclass correlations between the two runs were much lower for the PPI effects than the activation main effects, which raise cautions on performing inter-subject correlations and group comparisons on PPI effects.
PureCLIP: capturing target-specific protein-RNA interaction footprints from single-nucleotide CLIP-seq data
Authors: Krakau Sabrina , Richard Hugues , Marsico Annalisa 
Published: June 2017

AbstractiCLIP and eCLIP techniques facilitate the detection of protein-RNA interaction sites at high resolution, based on diagnostic events at crosslink sites. However, previous methods do not explicitly model the specifics of iCLIP and eCLIP truncation patterns and possible biases. We developed PureCLIP, a hidden Markov model based approach, which simultaneously performs peak calling and individual crosslink site detection. It explicitly incorporates RNA abundances and, for the first time, non-specific sequence biases. On both simulated and real data, PureCLIP is more accurate in calling crosslink sites than other state-of-the-art methods and has a higher agreement across replicates. Link:https://github.com/skrakau/PureCLIP.
Resetting the yeast epigenome with human nucleosomes
Authors: Truong David M. , Boeke Jef D. 
Published: June 2017

SummaryHumans and yeast are separated by a billion years of evolution, yet their conserved core histones retain central roles in gene regulation. Here, we “reset” yeast to use core human nucleosomes in lieu of their own, an exceedingly rare event which initially took twenty days. The cells adapt, however, by acquiring suppressor mutations in cell-division genes, or by acquiring certain aneuploidy states. Robust growth was also restored by converting five histone residues back to their yeast counterparts. We reveal that humanized nucleosomes in yeast are positioned according to endogenous yeast DNA sequence and chromatin-remodeling network, as judged by a yeast-like nucleosome repeat length. However, human nucleosomes have higher DNA occupancy and reduce RNA content. Adaptation to new biological conditions presented a special challenge for these cells due to slower chromatin remodeling. This humanized yeast poses many fundamental new questions about the nature of chromatin and how it is linked to many cell processes, and provides a platform to study histone variants via yeast epigenome reprogramming.Highlights- Only 1 in 107yeast survive with fully human nucleosomes, but they rapidly evolve- Nucleosome positioning and nucleosome repeat length is not influenced by histone type- Human nucleosomes remodel slowly and delay yeast environmental adaptation- Human core nucleosomes are more repressive and globally reduce transcription in yeast
Linking knowledge sharing, competency development, and affective commitment: evidence from Indian Gen Y employees
Authors: Naim Mohammad Faraz , Lenka Usha 
Published: June 2017

PurposeThe present study aims to explore knowledge sharing to evoke affective commitment of Gen Y employees through competency development.Design/methodology/approachThe research uses cross-sectional survey to collect primary data. A questionnaire is developed based on extensive review of literature. A sample was obtained from Gen Y employees (born between 1980 and 2000) working in software organizations in India. In total, 582 completely filled, usable questionnaires were obtained.FindingsResults indicate that knowledge sharing has a positive effect on competency development of Gen Y employees, which in turn, positively predicts affective commitment. Furthermore, this would result in the enhancement of employee competencies and eventually, the generation of affective commitment.Research limitations/implicationsThis study was limited to the software development professionals working in Indian organizations Therefore, researchers should test the research model further in other industries preferably in a different country.Practical implicationsThe more knowledge assets are shared in the organization, the higher the enhancement of employee competencies will become. To evoke emotional attachment of Gen Y employees, an organization must implement learning and development interventionsOriginality/valueThis study contributes to knowledge management literature, particularly knowledge sharing by exploring its possible linkage with employee attitudinal outcomes through empirical data. This also happens to be an empirical study to investigate Gen Y employees’ commitment in Indian context.
Interview support on perceptions of organizational attractiveness
Authors: Nadler Joel , Gann-Bociek Maya , Skaggs Brian 
Published: June 2017

PurposeThe purpose of this study was to examine how interview support materials provided on a company’s website would impact potential employees’ perceptions of organizational attractiveness (OA). This study examined the effects of interviewer, interview support and employee variables on employees’ perceptions of OA.Design/methodology/approachThis study obtained data from 276 working adults. The participants were asked to visualize that they were selected for an interview, then were given one of four manipulations (with interview support, without interview support; informed participant interview would be with a potential peer, or interview would be with a potential supervisor) and post-manipulation measures (OA perception, trait anxiety, demographics).FindingsThis study’s results indicated that interviewer characteristics (peer or supervisor) were not significant; however, women and individuals with a lower socio-economic (SES) status found organizations to be more attractive when provided with interview support. There was an opposite effect on men and those with a higher SES.Research limitations/implicationsThis study recognizes that the lack of demographic diversity and realism were limitations that must be considered; however, this study also recognizes that these findings have several practical implications (considering offering interview support, potential ideas to increase OA) and social implications (increasing demographic diversity in the workplace by also aiding historically disadvantaged groups).Practical implicationsKnowledge of who would be conducting the selection interview potential future peer versus a future supervisor did not affect organizational attraction OA ratings. Interview support offered on a company website had a positive impact on perceptions of OA for women and individuals with lower SES; however, the same support had a negative impact on perceptions of OA for men and individuals with higher SES.Originality/ValueIn addition to the social and practical implications this study holds, the authors of this study are not aware of any additional studies that examine gender and SES on organizational attraction.
Impact of non-perfect reference plane on multi-gigabit transmission
Authors: Yee Chang Fei , Bahari Jambek Asral , Abdullah Al-Hadi Azremi 
Published: June 2017

Purpose
This paper aims to analyze the impact of non-perfect reference plane on the integrity of microstrip differential signals at multi-gigabit transmission on a printed circuit board (PCB). The effects of non-perfect reference contributed by signal crossing over split plane such as impedance discontinuity and crosstalk are investigated by performing analysis in two phases.

Design/methodology/approach
The first phase involves three-dimensional electromagnetic modeling extraction using Keysight EMPro software. Meanwhile, the second phase involves the import of model extracted from EMPro into simulation using Keysight Advanced Design System that covers insertion loss, return loss, crosstalk, time domain reflectometry and eye diagram.

Findings
A non-perfect reference plane has a negative impact on signal reflection, attenuation and crosstalk. The analysis results are presented and discussed in detail in the later section of this paper.

Originality/value
The work that studied the impact of the width and the amount of gaps due to crossing of split planes being experienced on the signal integrity was performed by other researchers. Meanwhile, this paper focused on the impact of length and depth of the gap on signal integrity. These research papers serve as a reference guide for high-speed PCB layout design.
Study on the measurement of paste flow based on the optical fiber system
Authors: Pan Weiwei , Wang Dongsheng 
Published: June 2017

Purpose
Flow measurement plays an important role in modern industrial production. Flow measurement methods based on optical fiber systems have become a main research focus.

Design/methodology/approach
Applying flow measurement theory and the structural characteristics of optical fiber, flow measurement of paste can be achieved through a combined laser Doppler and optical fiber sensing system based on the principle of optical fiber grating sensors and flow sensors. The system is developed to include light selection, photoelectric detection, a voltage amplifier circuit and a signal filtering circuit.

Findings
The system is shown, through a comparative experiment, to be of higher accuracy than the traditional ultrasonic method.

Originality/value
A new method for measuring the paste flow is presented, which is based on the principle of optical fiber Doppler. The method has the advantages of convenient installation, high accuracy and low cost. Experiments show that the method is feasible.
Development of a path follower in real-time environment
Authors: Deepak B.B.V.L. , Bahubalendruni M.V.A. Raju 
Published: June 2017

Purpose
The purpose of this paper is to study the path-planning problem of an unmanned ground vehicle (UGV) in a predefined, structured environment.

Design/methodology/approach
In this investigation, the environment chosen was the roadmap of the National Institute of Technology, Rourkela, obtained from Google maps as reference. An UGV is developed and programmed so as to move autonomously from an indicated source location to the defined destination in the given map following the most optimal path.

Findings
An algorithm based on linear search is implemented to the autonomous robot to generate shortest paths in the environment. The developed algorithm is verified with the simulations as well as in experimental environments.

Originality/value
Unlike the past methodologies, the current investigation deals with the global path-planning strategy as the line following mechanism. Moreover, the proposed technique has been implemented in a real-time environment.
Interleukin‐17‐induced expression of monocyte chemoattractant protein‐1 in cardiac myocytes requires nuclear factor κB through the phosphorylation of p65
Authors: Shen Yan , Xie Xin , Li Zhuolun , Huang Yan , Ma Li , Shen Xinhe , Liu Yanyue , Zhao Yuxia 
Published: June 2017

ABSTRACTIL‐17 plays a key role in a variety of autoimmune diseases. MCP‐1 is involved in the infiltration of mononuclear cells of myocardium in VMC. However, the relationship between IL‐17 and MCP‐1 in myocardial injury remains unclear. In this study, expression of MCP‐1 mRNA and protein in cardiac myocytes was detected with qRT‐PCR and ELISA, respectively. It was found that IL‐17A induced MCP‐1 expression in a dose‐ and time‐dependent manner in cardiac myocytes, which could be blocked by IL‐17A and IL‐17RA neutralizing antibodies. NF‐κB p65 and p‐p65 protein expression in cardiac myocytes was studied with western blotting. Rates of p‐p65 in whole lysates and in nuclear lysates all increased in the first 15 min. Meanwhile, the amount of NF‐κB p65 in whole lysates did not change, but the amount of NF‐κB p65 in nuclear lysates increased in the first 15 min. Then the optimal sequence and concentration of NF‐κB p65 siRNAs was selected. After transfection of 10 nM siRNA‐2 of NF‐κB p65 into cardiac myocytes before stimulation by IL‐17A, expression of MCP‐1 mRNA and protein obviously decreased. In conclusion, expression of MCP‐1 induced by IL‐17 requires NF‐κB through the phosphorylation of p65 in cardiac myocytes, which is meaningful to study the onset of chronic viral myocarditis and will provide a new target for the treatment of viral myocarditis.
Soil and vegetation carbon turnover times from tropical to boreal forests
Authors: Wang Jinsong , Sun Jian , Xia Jianyang , He Nianpeng , Li Meiling , Niu Shuli 
Published: June 2017

Abstract

Terrestrial ecosystems currently function as a net carbon (C) sink for atmospheric C dioxide (CO2), but whether this C sink can persist with global climate change is still uncertain. Such uncertainty largely comes from C turnover time in an ecosystem, which is a critical parameter for modelling C cycle and evaluating C sink potential. Our current understanding of how long C can be stored in soils and vegetation and what controls spatial variations in C turnover time on a large scale is still very limited.

We used data on C stocks and C influx from 2,753 plots in vegetation and 1,087 plots in soils and investigated the spatial patterns as well controlling factors of C turnover times across forest ecosystems in eastern China.

Our results showed a clear latitudinal pattern of C turnover times, with the shortest turnover times in the low‐latitude zones and the longest turnover times in the high‐latitude zones. Mean annual temperature and mean annual precipitation were the most important controlling factors on soil C turnover times, while forest age accounted for the majority of variations in the vegetation C turnover times. Forest origin (planted or natural forest) was also responsible for the variations in vegetation C turnover times, while forest type and soil properties were not the dominant controlling factors.

Our study highlights the different dominant controlling factors in soil and vegetation C turnover times and different mechanisms underlying above‐ and below‐ground C turnover. These findings are essential to better understand (and reduce uncertainty) in predictive models of coupled C–climate system.

A plain language summary is available for this article.
The impact of even‐aged and uneven‐aged forest management on regional biodiversity of multiple taxa in European beech forests
Authors: Schall Peter , Gossner Martin M. , Heinrichs Steffi , Fischer Markus , Boch Steffen , Prati Daniel , Jung Kirsten , Baumgartner Vanessa , Blaser Stefan , Böhm Stefan , Buscot François , Daniel Rolf , Goldmann Kezia , Kaiser Kristin , Kahl Tiemo , Lange Markus , Müller Jörg , Overmann Jörg , Renner Swen C. , Schulze Ernst‐Detlef , Sikorski Johannes , Tschapka Marco , Türke Manfred , Weisser Wolfgang W. , Wemheuer Bernd , Wubet Tesfaye , Ammer Christian 
Published: June 2017

Abstract

For managed temperate forests, conservationists and policymakers favour fine‐grained uneven‐aged (UEA) management over more traditional coarse‐grained even‐aged (EA) management, based on the assumption that within‐stand habitat heterogeneity enhances biodiversity. There is, however, little empirical evidence to support this assumption. We investigated for the first time how differently grained forest management systems affect the biodiversity of multiple above‐ and below‐ground taxa across spatial scales.

We sampled 15 taxa of animals, plants, fungi and bacteria within the largest contiguous beech forest landscape of Germany and classified them into functional groups. Selected forest stands have been managed for more than a century at different spatial grains. The EA (coarse‐grained management) and UEA (fine‐grained) forests are comparable in spatial arrangement, climate and soil conditions. These were compared to forests of a nearby national park that have been unmanaged for at least 20 years. We used diversity accumulation curves to compare γ‐diversity for Hill numbers 0D (species richness), 1D (Shannon diversity) and 2D (Simpson diversity) between the management systems. Beta diversity was quantified as multiple‐site dissimilarity.

Gamma diversity was higher in EA than in UEA forests for at least one of the three Hill numbers for six taxa (up to 77%), while eight showed no difference. Only bacteria showed the opposite pattern. Higher γ‐diversity in EA forests was also found for forest specialists and saproxylic beetles.

Between‐stand β‐diversity was higher in EA than in UEA forests for one‐third (all species) and half (forest specialists) of all taxa, driven by environmental heterogeneity between age‐classes, while α‐diversity showed no directional response across taxa or for forest specialists.

Synthesis and applications. Comparing EA and uneven‐aged forest management in Central European beech forests, our results show that a mosaic of different age‐classes is more important for regional biodiversity than high within‐stand heterogeneity. We suggest reconsidering the current trend of replacing even‐aged management in temperate forests. Instead, the variability of stages and stand structures should be increased to promote landscape‐scale biodiversity.
Prepartum Psychosis and Neonaticide: Rare Case Study and Forensic‐Psychiatric Synthesis of Literature
Authors: Karakasi Maria‐Valeria , Markopoulou Maria , Tentes Ioannis K. , Tsikouras Panagiotis N. , Vasilikos Epameinondas , Pavlidis Pavlos 
Published: June 2017

AbstractPeripartum psychosis is a rare but serious psychiatric disorder characterized by the presence of a mood episode with psychotic features. Although controversy surrounds the nosological status of peripartum mental disorders, these conditions continue to be of exceptional interest to the medical and forensic mental health communities. The aim of this study was to report a rare case of prepartum psychosis which escalated to the endpoint of neonaticide and summarize literature on peripartum mental disorders and infanticide. A 30‐year‐old mother murdered her newborn with the spike of her serum delivery system and planned to commit suicide while in hospital after hallucinating due to an acute puerperal psychotic disorder with a prepartum onset and postpartum deterioration. Her disorder was not managed until neonaticide. Throughout this paper, the significance of a multidisciplinary approach for the optimal management of these incidents is highlighted and diagnostic as well as therapeutic issues are addressed.
Improving postprandial hyperglycemia in patients with type 2 diabetes already on basal insulin therapy: Review of current strategies
Authors: Umpierrez Guillermo E. , Bailey Timothy S. , Carcia Danielle , Shaefer Charles , Shubrook Jay H. , Skolnik Neil 
Published: June 2017

AbstractA large number of patients with type 2 diabetes (T2D) on basal insulin do not reach their HbA1c goals and require additional therapy to address postprandial hyperglycemia. Guidelines from expert bodies have outlined several approaches to accomplish postprandial glucose (PPG) control, and recent literature suggests several more. This article provides strategies for primary care physicians caring for patients with T2D who do not achieve glycemic control with basal insulin alone. Current treatment guidelines and strategies for improving PPG control are reviewed, including the efficacy, safety, and cost‐effectiveness of rapid‐acting insulin (RAI) analogs, premixed insulin, glucagon‐like peptide‐1 (GLP‐1) receptor agonists (RAs), dipeptidyl peptidase 4 inhibitors, sodium–glucose cotransporter 2 inhibitors, and α‐glucosidase inhibitors. Other approaches, such as combinations of newer basal insulin plus RAI and a fixed‐ratio combination of basal insulin and a GLP‐1 RA, are also described.
Application of the Acoustic Propagation Model to a deep‐water cross‐shelf curtain
Authors: Huveneers Charlie , Stehfest Kilian M. , Simpfendorfer Colin A. , Semmens Jayson , Hobday Alistair J. , Pederson Hugh , Stieglitz Thomas , Vallee Richard , Webber Dale , Heupel Michelle R. , Harcourt Robert 
Published: June 2017

Summary

A good understanding of acoustic coverage and temporal variation relative to environmental conditions is crucial for accurate interpretation of results from acoustic tracking studies and ensuing appropriate management recommendations.

In their recent paper, Gjelland & Hedger (Methods in Ecology and Evolution, 2017) suggest that the general detection probability model proposed by Gjelland & Hedger (Methods in Ecology and Evolution, 2013, 4, 665–674) was not appropriately used in Huveneers et al. (Methods in Ecology and Evolution, 2016, 7, 825–835). The intent of the comparison in Huveneers et al. (2016) was to evaluate the Acoustic Propagation Model (APM) in a situation when parameterisation is not logistically feasible. This can be the case when reference tags have not been deployed, or when the distance between tagged animals and receivers cannot be accurately estimated or cannot be obtained under sufficiently varied weather conditions. Even when parameterisation is possible, there will be situations where the APM does not account for all factors affecting detection probability, e.g. deep‐water receivers where density gradients can affect sound propagation.

Re‐parameterisation of the APM based on clarification in Gjelland & Hedger (2017) and application to a deep‐water cross‐shelf receiver array showed similar detection range to a logistic model until about ˜750 m distance, after which the APM resulted in unrealistically high detection probability estimates. The need for large amounts of data to parameterise the APM and achieve good statistical fit negates the value of the theoretical propagation model. Detection range can also be affected by a broad range of factors, many of which are not included within the APM. The complexity of the way different environmental factors can influence acoustic detections and the variability of environments in which acoustic tracking studies are undertaken make it challenging to develop a general model applicable across environments.

We support further improvement of the APM and recommend the use of reference tags to collect necessary data to parameterise the APM and assess factors influencing detection probability.