bluuebunny/crossref_metadata_2025_split huggingface dataset:
Understanding the Correlation Between DSA, Complement Activation, and Antibody-Mediated Rejection in Heart Transplant Recipients
Authors: Zhang Qiuheng , Hickey Michelle , Drogalis-Kim Diana , Zheng Ying , Gjertson David , Cadeiras Martin , Khuu Tam , Baas Arnold S. , Depasquale Eugene C. , Halnon Nancy J. , Perens Gregory , Alejos Juan , Cruz Daniel , Ali Nsair , Shemin Richard , Kwon Murray , Fishbein Michael C. , Ardehali Abbas , Deng Mario , Reed Elaine F. 
Published: June 2018

Background
Donor-specific HLA antibodies (DSA) are associated with increased rates of rejection and of graft failure in cardiac transplantation. The goal of this study was to determine the association of preformed and posttransplant development of newly detected DSA (ndDSA) with antibody-mediated rejection (AMR) and characterize the clinical relevance of complement-activating DSA in heart allograft recipients.

Methods
The study included 128 adult and 48 pediatric heart transplant patients transplanted between 2010 and 2013. Routine posttransplant HLA antibody testing was performed by IgG single-antigen bead test. The C3d single-antigen bead assay was used to identify complement-activating antibodies. Rejection was diagnosed using International Society for Heart and Lung Transplantation criteria.

Results
In this study, 22 patients were transplanted with preexisting DSA, and 43 patients developed ndDSA posttransplant. Pretransplant (P < 0.05) and posttransplant (P < 0.001) ndDSA were associated with higher incidence of AMR. Patients with C3d + DSA had significantly higher incidence of AMR compared with patients with no DSA (P < 0.001) or patients with C3d-DSA (P = 0.02). Nine (36%) of 25 patients with AMR developed transplant coronary artery disease compared with 17 (15.9%) of 107 patients without AMR (P < 0.05). Among the 47 patients who received ventricular assistant device (VAD), 7 of 9 VAD+ patients with preformed DSA experienced AMR compared with 7 of 38 VAD+ patients without preformed DSA, indicating presensitization to donor HLA significantly increased the risk of AMR (P < 0.01).

Conclusions
Preformed and posttransplant ndDSA were associated with AMR. C3d + DSA correlates with complement deposition on the graft and higher risk of AMR which may permit the application of personalized immunotherapy targeting the complement pathway.
Aberrant DEGS1 sphingolipid metabolism impairs central and peripheral nervous system function in humans
Authors: Karsai Gergely , Kraft Florian , Haag Natja , Korenke G Christoph , Hänisch Benjamin , Suriyanarayanan Saranya , Steiner Regula , Knopp Cordula , Mull Michael , Bergmann Markus , Schröder J Michael , Weis Joachim , Elbracht Miriam , Begemann Matthias , Hornemann Thorsten , Kurth Ingo 
Published: June 2018

Sphingolipids including ceramides are important components of cellular membranes and functionally associated with fundamental processes such as cell differentiation, neuronal signaling and myelin sheath formation. Defects in the synthesis or degradation of sphingolipids are associated with various neurological pathologies, however, the entire spectrum of disorders affecting sphingolipid metabolism remains elusive. By whole-exome sequencing in a patient with a multisystem neurological disorder of both the central and peripheral nervous system, we identified a homozygous variant p.(Ala280Val) inDEGS1,encoding an enzyme of the ceramide synthesis pathway. The blood sphingolipid profile and patient-derived fibroblasts both showed a significant shift from the unsaturated to the dihydro-forms of sphingolipids. Moreover, an atypical and potentially toxic sphingolipid metabolite is formed as consequence of the altered synthesis pathway. The changes in the sphingolipid profile were recapitulated in a CRISPR/Cas-basedDEGS1knockout HAP1-cell model and by chemical inhibition of DEGS1, suggesting a loss of DEGS1 function in the disease. DEGS1 insufficiency is thus a novel cause for a multisystem neurological disorder. A sphingolipid-rich diet may correct the metabolic profile and improve the clinical outcome of affected individuals and suggests that this heritable condition might be treatable.AbbreviationsSLSphingolipidsSPTserine-palmitoyltransferaseCerCeramidesdhCerdihydroceramideS1Psphingosine-1-phosphateSOsphingosineHSANhereditary sensory and autonomic neuropathy
Towards reconstructing intelligible speech from the human auditory cortex
Authors: Akbari Hassan , Khalighinejad Bahar , Herrero Jose L. , Mehta Ashesh D. , Mesgarani Nima 
Published: June 2018

AbstractAuditory stimulus reconstruction is a technique that finds the best approximation of the acoustic stimulus from the population of evoked neural activity. Reconstructing speech from the human auditory cortex creates the possibility of a speech neuroprosthetic to establish a direct communication with the brain and has been shown to be possible in both overt and covert conditions. However, the low quality of the reconstructed speech has severely limited the utility of this method for brain-computer interface (BCI) applications. To advance the state-of-the-art in speech neuroprosthesis, we combined the recent advances in deep learning with the latest innovations in speech synthesis technologies to reconstruct closed-set intelligible speech from the human auditory cortex. We investigated the dependence of reconstruction accuracy on linear and nonlinear (deep neural network) regression methods and the acoustic representation that is used as the target of reconstruction, including auditory spectrogram and speech synthesis parameters. In addition, we compared the reconstruction accuracy from low and high neural frequency ranges. Our results show that a deep neural network model that directly estimates the parameters of a speech synthesizer from all neural frequencies achieves the highest subjective and objective scores on a digit recognition task, improving the intelligibility by 65% over the baseline method which used linear regression to reconstruct the auditory spectrogram. These results demonstrate the efficacy of deep learning and speech synthesis algorithms for designing the next generation of speech BCI systems, which not only can restore communications for paralyzed patients but also have the potential to transform human-computer interaction technologies.
EECoG-Comp: An Open Source Platform for Concurrent EEG/ECoG Comparisons: applications to connectivity stuides
Authors: Wang Qing , Valdés-Hernández Pedro Antonio , Paz-Linares Deirel , Bosch-Bayard Jorge , Oosugi Naoya , Komatsu Misako , Fujii Naotaka , Valdés-Sosa Pedro Antonio 
Published: June 2018

AbstractElectrophysiological Source Imaging (ESI) methods are hampered by the lack of “gold standards” for model comparison. Concurrent electroencephalography (EEG) and electrocorticography (ECoG) recordings (namely EECoG) are considered gold standard to validating EEG generative models with primate models have the unique advantages of both flexibility and translational value in human research. However the severe EEG artifacts during such invasive experiments, the complexity of providing sufficiently detailed biophysical models, as well as lacking sound statistical connectivity comparison methods have hampered the availability and analysis of such datasets. In this paper, 1) we provide EECoG-Comp: an open source platform (https://github.com/Vincent-wq/EECoG-Comp) which encompasses the preprocessing, forward modeling, simulation and comparison module; 2) we take the simultaneous EECoG dataset from www.neurotycho.org as an example to illustrate the use of this platform and compare the source connectivity estimation performance of 4 popular ESI methods named MNE, LCMV, eLORETA and SSBL. The conclusion shows the limits of performance of these ESI connectivity estimators using both simulations and real data analysis. In fact, the use of this platform also suggests the need for both improved simultaneous EEG and ECoG experiments and ESI connectivity estimators.
Transcription initiation defines kinetoplast RNA boundaries
Authors: Sement François M. , Suematsu Takuma , Zhang Liye , Yu Tian , Huang Lan , Aphasizheva Inna , Aphasizhev Ruslan 
Published: June 2018

AbstractMitochondrial genomes are often transcribed into polycistronic primary RNAs punctuated by tRNAs whose excision defines mature RNA boundaries. Although kinetoplast DNA lacks tRNA genes, it is commonly held that monophosphorylated 5′-ends of functional molecules typify precursor partitioning by an unknown endonuclease. To the contrary, we demonstrate that inTrypanosoma bruceiindividual mRNAs and rRNAs are independently synthesized as 3′ extended precursors. The transcription-defined 5′ terminus is converted into monophosphorylated state by the 5′ pyrophosphohydrolase complex, termed PPsome, which is activated by RNA editing substrate binding complex (RESC). Most guide RNAs lack PPsome recognition sites and, therefore, remain triphosphorylated. We provide evidence that both 5′ pyrophosphate removal and 3′ adenylation are essential for mRNA stabilization. Furthermore, we uncover a mechanism by which antisense RNA-controlled 3′-5′ exonucleolytic trimming defines mRNA 3′-end. We conclude that mitochondrial mRNAs and rRNAs are transcribed and processed as insulated units irrespective of their genomic location.SignificanceIt is commonly held that in trypanosomes both mitochondrial DNA strands are transcribed into polycistronic precursors. These primary RNAs are presumably partitioned into individual pre-mRNAs by a “cryptic” endonuclease. We challenged the polycistronic transcription/ endonuclease model after revealing precursor processing by 3′-5′ degradation. This work demonstrates individual transcription of each gene and mRNA 5′-end definition by the first incorporated nucleotide triphosphate. We have uncovered the stabilizing role of 5′ triphosphate to monophosphate conversion and identified a protein complex responsible for this reaction. We have discovered antisense noncoding RNA originating near mRNA 3′ end and showed that a duplex formation modulates exonuclease activity to delimit the mature 3′ end. Collectively, our findings reveal mechanisms by which transcription defines both mRNA termini.
Gut microbiome recovery after antibiotic usage is mediated by specific bacterial species
Authors: Nandi Tannistha , Lee Ivor Russel , Ghosh Tarini , Qi Ng Amanda Hui , Chng Kern Rei , Li Chenhao , Tan Yi Han , Lye David , Barkham Timothy , Chen Swaine , Gan Yunn-Hwen , Young Barnaby , Nagarajan Niranjan 
Published: June 2018

AbstractDysbiosis in the gut microbiome due to antibiotic usage can persist for extended periods of time, impacting host health and increasing the risk for pathogen colonization. The specific factors associated with variability in gut microbiome recovery remain unknown. Using data from 4 different cohorts in 3 continents comprising >500 microbiome profiles from 117 subjects, we identified 20 bacterial species exhibiting robust association with gut microbiome recovery post antibiotic therapy. Functional and growth analysis showed that microbiome recovery is supported by enrichment in carbohydrate degradation and energy production capabilities. Association rule mining on 782 microbiome profiles from the MEDUSA database enabled reconstruction of the gut microbial ‘food-web’, identifying many recovery-associated bacteria (RABs) as primary colonizing species, with the ability to use both host and diet-derived energy sources, and to break down complex carbohydrates to support the growth of other bacteria. Experiments in a mouse model recapitulated the ability of RABs (Bacteroides thetaiotamicron and Bifidobacterium adolescentis) to promote microbiome recovery with synergistic effects, providing a two orders of magnitude boost to microbial abundance in early time-points and faster maturation of microbial diversity. The identification of specific microbial factors promoting microbiome recovery opens up opportunities for rationally fine-tuning pre- and probiotic formulations that prevent pathogen colonization and promote gut health.
Title: Mechanisms of Host Cell Binding and Neurotropism of Zika Virus
Authors: Rieder C.A. , Rieder J. , Sannajust S. , Goode D. , Geguchadze R. , Relich R.F. , Molliver D.C. , King T.E. , Vaughn J. , May M. 
Published: June 2018

AbstractZika virus (ZIKV) recently emerged in the Western Hemisphere with previously unrecognized or unreported clinical presentations. Here, we identify two distinct binding mechanisms of ancestral and emergent ZIKV strains featuring the envelope (E) protein residue ASN154 and viral phosphatidylserine (PS). Short (20-mer) peptides representing the region containing ASN154 from strains PRVABC59 (Puerto Rico 2015) and MR_766 (Uganda 1947) were exposed to neuronal cells and fibroblasts, expecting interactions to be representative of ZIKV E protein/cell interactions, and bound MDCK or Vero cells and primary neurons significantly above a scrambled PRVABC59 control peptide. Peptides also significantly inhibited Vero cell adsorption by ZIKV strains MR_766 and PRVABC59, indicating that we have identified a binding mechanism of ancestral African ZIKV strains and emergent Western Hemisphere strains.Pretreatment of ZIKV MR_766 and PRVABC59 with the PS-binding protein annexin V significantly inhibited replication of PRVABC59, but not MR_766, suggesting that Western hemisphere strains are additionally utilizing PS-mediated entry to infect host cells. Taken together, these data indicate that we have identified an ancestral binding mechanism of ZIKV, and a secondary binding mechanism utilized by Western Hemisphere strains.
Performance monitoring and analysis of various parameters for a small UAV turbojet engine
Authors: Kiyak Emre , Unal Gulay , Ozer Nilgun Fazilet 
Published: June 2018

Purpose
This paper aims to discuss engine health monitoring for unmanned aerial vehicles. It is intended to make consistent predictions about the future status of the engine performance parameters by using their current states.

Design/methodology/approach
The aim is to minimize risks before they turn into problems. In accordance with these objectives, temporal and financial savings are planned to be achieved by contributing processes such as extending the engine life, preventing early disassembly-reassembly and mechanical wears and reducing the maintenance costs. Based on this point of view, a data-based software is developed in MATLAB (Matrix Laboratory) program for the so-called process.

Findings
The software is operated for the performance parameters of the turbojet engine that is used in a small unmanned aerial vehicle of Tusas Engine Industry. The obtained results are compared with the real data of the engine. As a result of this comparison, a fault that may occur in the engine can be detected before being determined.

Originality/value
It is clearly demonstrated that the engine operation in adverse conditions can be prevented. This situation means that the software developed operates successfully.
Korea’s Government reform in public policy and management
Authors: Park Jin 
Published: June 2018

Purpose
The purpose of this paper is to explore the historical path and the future direction of the government reform initiative in Korea regarding the public policy and management reform.

Design/methodology/approach
Analysis of National Agenda published by the Presidential Transition Committees of each president for the past 20 years.

Findings
Public policy reform has been rather slow or even has gone backwards for some periods of time in Korea. The market intervention by the government needs to be reduced whereas its role in the social welfare or people’s quality of life should be expanded. President needs to create a reform-driving agency to design a new paradigm of government role.

Originality/value
There has been no research that has investigated Korea’s Government reform with the framework of public management and public policy reform.
IT ambidexterity for business processes: the importance of balance
Authors: Heckmann Carl Simon , Maedche Alexander 
Published: June 2018

Purpose
In highly dynamic industries, business processes require exploitation, i.e. activities that are associated with an increase in productivity through automation, standardization, integrated architectures, and the usage of existing IT resources. As a complementary capability, exploration is needed, i.e. the ability to flexibly implement new and innovative IT resources (Lee et al., 2015). The purpose of this paper is to use the concept of ambidexterity, which is researched intensively outside the domain of business processes (e.g. Gibson and Birkinshaw, 2004; Tang and Rai, 2014), to address this paradoxical trade-off within business processes.

Design/methodology/approach
The paper follows a qualitative approach. A multiple case study comprising 11 interviews and additional document analysis in six organizations is conducted in the German energy sector to examine the proposed framework.

Findings
This paper shows the importance of balancing exploitative and explorative business process IT (BPIT) capabilities. The process-theoretical outcome of this study is the BPIT Capability Framework that provides explanation for the interaction between exploitation and exploration.

Research limitations/implications
This study contributes to the understanding of how to build ambidextrous BPIT capabilities by explaining the underlying mechanisms for feedback loops that occur in cases of imbalance. The scope of the conducted study presents a limitation and thus future research is encouraged to further validate the findings of this paper.

Originality/value
By drilling down to the process level, this paper addresses the gaps that limited empirical studies have in business process management research (Recker and Mendling, 2015) and the focus on business processes that is lacking from the literature on organizational IT management (Gregory et al., 2015).
Quality of life after vaginal and cesarean deliveries: a systematic review and meta-analysis
Authors: Rezaei Satar , Salimi Yahya , Zahirian Moghadam Telma , Mirzarahimi Tiba , Mehrtak Mohammad , Zandian Hamed 
Published: June 2018

Purpose
There are so many studies which evaluated the maternal quality of life based on their delivery type with different results. The purpose of this paper is to evaluate the effect of type of delivery on the maternal QOL systematically.

Design/methodology/approach
In this systematic review, which was conducted for 15 years (2000-2016), the international databases including PubMed, Scopes and ISI and the Persian databases were searched using the following words: quality of life or health-related quality of life, vaginal delivery, cesarean delivery or cesarean section. PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-Analyses) was adopted for this study. The quality of articles was assessed by a checklist that has been used in previous studies. All of the data analysis was performed using STATA ver.12.

Findings
In total, 13 articles were included in the present systematic review and meta-analysis. The overall sample included 8,136 women (3,990 cesareans vs 4,146 vaginal). The results of the random effect model for eight QOL dimensions based on SF-36 questionnaire showed that there was no significant difference between two groups in terms of QOL. But this model for four QOL dimensions of WHOQOL showed that the maternal in two groups had a significant difference in two dimensions of QOL (mental health and total health) and insignificant difference in other dimensions.

Research limitations/implications
The results of the study may have been affected by the selection of few databases. Therefore, researchers are encouraged to test the proposed propositions in further databases.

Practical implications
The study results could be helpful to design appropriate policies for maternal based on their type of delivery.

Originality/value
This systematic review showed that despite the insignificant difference between women with vaginal delivery vs women with cesarean delivery in some aspects of QOL, it can be concluded that health status of women with vaginal delivery is better than women with cesarean delivery, so it should be considered in the setting of appropriate policies and implementation framework to encourage women for choosing the appropriate delivery type.
Last-mile distribution planning for fruit-and-vegetable cold chains
Authors: Hsiao Yu-Hsiang , Chen Mu-Chen , Lu Kuan-Yu , Chin Cheng-Lin 
Published: June 2018

Purpose
The purpose of this paper is to formulate and solve a last-mile distribution plan problem with concern for the quality of fruits and vegetables in cold chains.

Design/methodology/approach
The vehicle routing problem with time windows (VRPTW) is extended based on the characteristics of fruit-and-vegetable cold chains. The properties of multiple perishable foods, continuing decline in quality, various requirements for quality levels and optimal temperature settings during vehicle transportation are considered in the VRPTW. The product quality level is defined by the estimation of residual shelf life, which changes with temperature, and is characterized by a stepped decrease during the transportation process as time goes on. A genetic algorithm (GA) is adapted to solve the problem because of its convincing ability to solve VRPTW-related problems. For this purpose, solution encoding, a fitness function and evolution operators are designed to deal with the complicated problem herein.

Findings
A distribution plan including required fleet size, vehicle routing sequence and what quality level should be shipped out to account for the quality degradation during vehicle transportation is generated. The results indicate that the fulfillment of various requirements of different customers for various fruits and vegetables and quality levels can be ensured with cost considerations.

Originality/value
This study presents a problem for last-mile delivery of fresh fruits and vegetables which considers multiple practical scenarios not studied previously. A solution algorithm based on a GA is developed to address this problem. The proposed model is easily applied to other types of perishable products.
Tribological properties of brake friction materials containing fly ash
Authors: Sugözü Banu 
Published: June 2018

Purpose
The purpose of this study is to investigate the potential of fly ash in automotive brake lining materials.

Design/methodology/approach
Three brake linings containing fly ash (36, 41 and 46 Wt.%) were designed and produced by dry-mixing, pre-forming and hot pressing. The surface hardness of all brake lining samples was measured by using Brinell hardness tester. The density of the specimens was determined based on Archimedean principle in water. The friction and wear characteristics of the brake lining samples were determined using a real brake disc-type tester. Detailed examinations on the worn surface were analyzed using a scanning electron microscopy.

Findings
Fly ash can be good alternative as space filler to reduce the cost for brake lining.

Originality/value
The present study has successfully demonstrated that there is a high potential for commercial applications of brake linings including fly ash as a filler.