bluuebunny/crossref_metadata_2025_split huggingface dataset:
Dynamic Computer-Aided Orchestration in Practice with Orchidea
Authors: Cella Carmine-Emanuele , Ghisi Daniele , Maresz Yan , Petrolati Alessandro , Teiller Alexandre , Esling Philippe 
Published: February 2023

Abstract
The problem of target-based computer-aided orchestration is a recurring topic in the contemporary music community. Because of its complexity, computer-aided orchestration remains a partially unsolved problem and several systems have been developed in the last twenty years. This article presents a practical overview of the recently introduced Orchidea framework for dynamic computer-aided target-based orchestration. Orchidea continues the line of tools dedicated to the subject (the so-called Orchid* family) originally developed at the Institut de Recherche et Coordination Acoustique/Musique in Paris. Unlike its predecessors, Orchidea uses a combination of optimization techniques that include stochastic matching pursuit, long short-term memory neural networks, and monoobjective evolutionary optimization, with a specifically designed cost function. Symbolic constraints can be integrated in the cost function, and temporally evolving sounds are handled by segmenting them into a set of static targets optimized jointly and then connected. Orchidea is deployed in three different ways: a standalone application, designed to streamline a simplified compositional workflow; a Max package, targeted at composers willing to connect target-based orchestration to the more general area of computer-aided composition; and a set of command-line tools, mostly intended for research purposes and batch processing. The main aim of this article is to present an overview of such software systems and show several instances of the Orchidea framework's application in recent musical productions, tracing the path for future research on the subject.
Global Climate Impacts of Greenland and Antarctic Meltwater: A Comparative Study
Authors: Li Qian , Marshall John , Rye Craig D. , Romanou Anastasia , Rind David , Kelley Maxwell 
Published: February 2023

Abstract
Both the Greenland and Antarctic ice sheets have been melting at an accelerating rate over recent decades. Meltwater from Greenland might be expected to initiate a climate response that is distinct, and perhaps different from, that associated with Antarctic meltwater. Which one might elicit a greater climate response, and what mechanisms are involved? To explore these questions, we apply climate response functions (CRFs) to guide a series of meltwater-perturbation experiments using a fully coupled climate model. In both hemispheres, meltwater drives atmospheric cooling, sea ice expansion, and strengthened Hadley and Ferrel cells. Greenland meltwater induces a slowdown of the Atlantic meridional overturning circulation (AMOC) and a cooling of the subsurface ocean in the northern high latitudes. Antarctic meltwater, instead, induces a slowdown of the Antarctic Bottom Water formation and a warming of the subsurface ocean around Antarctica. For melt rates up to 2000 Gt yr−1, the climate response is rather linear. However, as melt rates increase to 5000 Gt yr−1, the climate response becomes nonlinear. Due to a collapsed AMOC, the climate response is superlinear at high Greenland melt rates. Instead, the climate response is sublinear at high Antarctic melt rates, due to the halting of the northward expansion of Antarctic sea ice by warm surface waters. Finally, in the linear limit, we use CRFs and linear convolution theory to make projections of important climate parameters in response to meltwater scenarios, which suggest that Antarctic meltwater will become a major driver of climate change, dominating that of Greenland meltwater, as the current century proceeds.

Significance Statement
Melting of the Greenland and Antarctic ice sheets is one of the most uncertain potential contributors to future climate change. In this study, we address the comparative role of Greenland and Antarctic meltwater in the climate system and explore the differing mechanisms at work in each hemisphere. We find that the climate response is linear for low melt rates but becomes nonlinear for high melt rates. As the century proceeds, we speculate that Antarctic meltwater will increasingly dominate that of Greenland meltwater, leading to atmospheric cooling, Antarctic sea ice expansion, and contraction and warming of the Antarctic Bottom Water. Greenland meltwater will, instead, affect smaller changes in the Northern Hemisphere.
Impact of Mixed-Phase Cloud Parameterization on Warm Conveyor Belts and Upper-Tropospheric Dynamics
Authors: Mazoyer Marie , Ricard Didier , Rivière Gwendal , Delanoë Julien , Riette Sébastien , Augros Clotilde , Borderies Mary , Vié Benoit 
Published: February 2023

Abstract
This study investigates mixed-phase cloud (MPC) processes along the warm conveyor belts (WCBs) of two extratropical cyclones observed during the North Atlantic Waveguide and Downstream Impact Experiment (NAWDEX). The aim is to investigate the effect of two radically distinct parameterizations for MPCs on the WCB and the ridge building downstream: the first one (REF) drastically limits the formation of liquid clouds, while the second one (T40) forces the liquid clouds to exist. REF exhibits a stronger heating below 6-km height and a more important cooling above 6-km height than T40. The stronger heating at lower levels is due to more important water vapor depositional processes while the larger cooling at upper levels is due to differences in radiative cooling. The consequence is a more efficient potential vorticity destruction in the WCB outflow region and a more rapid ridge building in REF than T40. A comparison with airborne remote sensing measurements is performed. REF does not form any MPCs whereas T40 does, in particular in regions detected by the radar–lidar platform like below the dry intrusion. Comparison of both ice water content and reflectivity shows there may be too much pristine ice and not enough snow in REF and not enough cold hydrometeors in general in T40. The lower ice-to-snow ratio in T40 likely explains its better distribution of hydrometeors with respect to height compared to REF. These results underline the influence of MPC processes on the upper-tropospheric circulation and the need for more MPC observations in midlatitudes.

Significance Statement
The diabatic processes occurring in the warm conveyor belt (WCB) of extratropical cyclones impact the jet stream structure at midlatitudes. This study highlights some sensitivity of upper-level dynamics to mixed-phase-cloud-related processes. Comparisons of two different microphysical schemes for mixed-phase clouds shows that the ratio of liquid to solid clouds along the WCB ascents impacts the latent heat release and the radiation. Data from the NAWDEX campaign helps to determine room for improvement for both schemes and point out the need of a better understanding of these processes for an improved prediction of upper-level dynamics.
GACNNMDA: a computational model for predicting potential human microbe-drug associations based on graph attention network and CNN-based classifier
Authors: Ma Qing , Tan Yaqin , Wang Lei 
Published: February 2023

AbstractAs new drug targets, human microbes are proven to be closely related to human health. Effective computational methods for inferring potential microbe-drug associations can provide a useful complement to conventional experimental methods and will facilitate drug research and development. However, it is still a challenging work to predict potential interactions for new microbes or new drugs, since the number of known microbe-drug associations is very limited at present. In this manuscript, we first constructed two heterogeneous microbe-drug networks based on multiple measures of similarity of microbes and drugs, and known microbe-drug associations or known microbe-disease-drug associations, respectively. And then, we established two feature matrices for microbes and drugs through concatenating various attributes of microbes and drugs. Thereafter, after taking these two feature matrices and two heterogeneous microbe-drug networks as inputs of a two-layer graph attention network, we obtained low dimensional feature representations for microbes and drugs separately. Finally, through integrating low dimensional feature representations with two feature matrices to form the inputs of a convolutional neural network respectively, a novel computational model named GACNNMDA was designed to predict possible scores of microbe-drug pairs. Experimental results show that the predictive performance of GACNNMDA is superior to existing advanced methods. Furthermore, case studies on well-known microbes and drugs demonstrate the effectiveness of GACNNMDA as well. Source codes and supplementary materials are available at:https://github.com/tyqGitHub/TYQ/tree/master/GACNNMDA
Hyperoxia exposure upregulates Dvl-1 and activates Wnt/β-catenin signaling pathway in newborn rat lung
Authors: Zhu Yuting , Li Yawen , Jin Weilai , Li Zhengying , Zhang Le , Fang Yuanyuan , Zhang Yanyu 
Published: February 2023

Abstract
Background
Bronchopulmonary dysplasia is a serious and lifelong pulmonary disease in premature neonates that influences around one-quarter of premature newborns. The wingless-related integration site /β-catenin signaling pathway, which is abnormally activated in the lungs with pulmonary fibrosis, affects cell differentiation and lung development.

Methods
Newborn rats were subjected to hyperoxia exposure. Histopathological changes to the lungs were evaluated through immunohistochemistry, and the activation of disheveled and Wnt /β-catenin signaling pathway components was assessed by Western blotting and real-time PCR. The abilities of proliferation, apoptosis and migration were detected by Cell Counting Kit-8, flow cytometry and scratch wound assay, respectively.

Results
Contrasting with normoxic lungs, hyperoxia-exposed lungs demonstrated larger alveoli, fewer alveoli and thicker alveolar septa. Superoxide dismutase activity was significantly decreased (7th day: P < 0.05; 14th day: P < 0.01) and malondialdehyde significantly increased (7th day: P < 0.05; 14th day: P < 0.01) after hyperoxia exposure. Protein and mRNA expression levels of β-catenin, Dvl-1, CTNNBL1 and cyclin D1 were significantly upregulated by hyperoxia exposure on 7th day (P < 0.01) and 14th day (P < 0.01). In hyperoxic conditions, Dvl-l downregulation and Dvl-l downregulation + MSAB treatment significantly increased the proliferation rates, decreased the apoptosis rates and improved the ability of cell migration. In hyperoxic conditions, Dvl-l downregulation could decrease the mRNA expression levels of GSK3β, β-catenin, CTNNBL1 and cyclin D1 and decrease the protein relative expression levels of GSK3β, p-GSK3β, β-catenin, CTNNBL1 and cyclin D1.

Conclusions
We confirmed the positive role of Dvl-1 and the Wnt/β-catenin signaling pathway in promoting BPD in hyperoxia conditions and provided a promising therapeutic target.
The mediating roles of the oral microbiome in saliva and subgingival sites between e-cigarette smoking and gingival inflammation
Authors: Park Bongsoo , Koh Hyunwook , Patatanian Michael , Reyes-Caballero Hermes , Zhao Ni , Meinert Jill , Holbrook Janet T. , Leinbach Leah I. , Biswal Shyam 
Published: February 2023

AbstractBackgroundElectronic cigarettes (ECs) have been widely used by young individuals in the U.S. while being considered less harmful than conventional tobacco cigarettes. However, ECs have increasingly been regarded as a health risk, producing detrimental chemicals that may cause, combined with poor oral hygiene, substantial inflammation in gingival and subgingival sites. In this paper, we first report that EC smoking significantly increases the odds of gingival inflammation. Then, through mediation analysis, we seek to identify and explain the mechanism that underlies the relationship between EC smoking and gingival inflammation via the oral microbiome.MethodsWe collected saliva and subgingival samples from 75 EC users and 75 non-users between 18 and 34 years in age and profiled their microbial compositions via 16S rRNA amplicon sequencing. We conducted raw sequence data processing, denoising and taxonomic annotations using QIIME2 based on the expanded human oral microbiome database (eHOMD). We then created functional annotations (i.e., KEGG pathways) using PICRUSt2.ResultsWe found significant increases in α-diversity for EC users and disparities in β-diversity between EC users and non-users. We also found significant disparities between EC users and non-users in the relative abundance of 36 microbial taxa in the saliva site and 71 microbial taxa in the subgingival site. Finally, we found that 1 microbial taxon in the saliva site and 18 microbial taxa in the subgingival site significantly mediated the effects of EC smoking on gingival inflammation. The mediators on the genus level, for example, includeActinomyces,Rothia, Neisseria,andEnterococcusin the subgingival site. In addition, we report significant disparities between EC users and non-users in the relative abundance of 71 KEGG pathways in the subgingival site.ConclusionsThese findings reveal that continued EC use can further increase microbial dysbiosis that may lead to periodontal disease. Our findings also suggest that continued surveillance for the effect of ECs on the oral microbiome and its transmission to oral diseases is needed.
Contemporary in-hospital and long-term prognosis of patients with acute ST-elevation myocardial infarction depending on renal function: a retrospective analysis
Authors: Engelbertz Christiane , Feld Jannik , Makowski Lena , Kühnemund Leonie , Fischer Alicia Jeanette , Lange Stefan A. , Günster Christian , Dröge Patrik , Ruhnke Thomas , Gerß Joachim , Freisinger Eva , Reinecke Holger , Köppe Jeanette 
Published: February 2023

AbstractBackgroundCardiovascular disease is often associated with chronic kidney disease (CKD), resulting in an increased risk for poor outcome. We sought to determine short-term mortality and overall survival in ST-elevation myocardial infarction (STEMI) patients with different stages of CKD.MethodsIn our retrospective cohort study with health insurance claims data of the Allgemeine Ortskrankenkasse (AOK), anonymized data of all STEMI patients hospitalized between 2010 and 2017 were analyzed regarding presence and severity of concomitant CKD.ResultsA total of 175,187 patients had an index-hospitalisation for STEMI (without CKD: 78.6% patients, CKD stage 1: 0.8%, CKD stage 2: 4.8%, CKD stage 3: 11.7%, CKD stage 4: 2.8%, CKD stage 5: 0.7%, CKD stage 5d: 0.6%). Patients with CKD were older and had more co-morbidities than patients without CKD. With increasing CKD severity, patients received less revascularization therapies (91.2%, 85.9%, 87.0%, 81.8%, 71.7%, 76.9% and 78.6% respectively,p < 0.001). After 1 year, guideline-recommended medications were prescribed less frequently in advanced CKD (83.4%, 79.3%, 81.5%, 74.7%, 65.0%, 59.4% and 53.7%, respectively,p < 0.001). CKD stages 4, 5 and 5d as well as chronic limb threatening ischemia (CLTI) were associated with decreased overall survival [CKD stage 4: hazard ratio (HR) 1.72; 95% CI 1.66–1.78; CKD stage 5: HR 2.55; 95% CI 2.37–2.73; CKD stage 5d: 5.64; 95% CI 5.42–5.86; CLTI: 2.06; 95% CI 1.98–2.13; allp < 0.001].ConclusionsCKD is a frequent co-morbidity in patients with STEMI and is associated with a worse prognosis especially in advanced stages. Guideline-recommended therapies in patients with STEMI and CKD are still underused.
ST-segment elevation predicts the occurrence of malignant ventricular arrhythmia events in patients with acute ST-segment elevation myocardial infarction
Authors: Wang Xianpei , Wei Lifang , Wu Ying , Yan Juanjuan , Zhao Linwei , Yue Xinjie , Gao Chuanyu 
Published: February 2023

Abstract
Background
ST-segment elevation (STE) represents a repolarization dispersion marker underlying arrhythmogenesis in ST-segment elevation myocardial infarction (STEMI); however, its value for predicting malignant ventricular arrhythmia events (MVAEs) remains uncertain.

Methods
In total, 285 patients with STEMI and those with or without MVAEs who presented within 6 h of symptom onset were enrolled. The relationships between STE and clinical characteristics of MVAEs (defined as ventricular tachycardia or ventricular fibrillation) were analyzed using t-test, chi-square test, binary multivariate logistic regression, and receiver operating characteristic curve analysis.

Results
Patients with STEMI and MVAEs had a shorter time from symptom onset to balloon time (p = 0.0285) and greater STE (p < 0.01) than those without MVAEs. The symptom-to-balloon time, age, and STE were associated with MVAEs after stepwise regression analysis in all cases. Only STE was significantly associated with the occurrence of MVAEs (all, p < 0.01). The area under the curve (AUC) of STE for predicting MVAEs was 0.905, and the cut-off value was 4.5 mV. When only infarct-related arteries were included in the analysis, the AUC of the left anterior descending artery was 0.925 with a cut-off value of 4.5 mV, that of the right coronary artery was 0.915 with a cut-off value of 4.5 mV, and that of the left circumflex artery was 0.929 with a cut-off value of 4.0 mV.

Conclusions
In patients with STEMI presenting within 6 h of symptom onset, age, symptom-to-balloon time, and STE were the main predictors for MVAEs. However, among these, STE was the strongest predictor for MVAEs and was an index for repolarization dispersion of cardiomyocytes in infarcted and non-infarcted areas.
Low detection rate of RT-PCR-confirmed COVID-19 using IgM/IgG rapid antibody tests in a large community sample in Lima, Peru
Authors: Law Stephanie , Tovar Marco A. , Franke Molly F. , Calderon Roger , Palomino Santiago , Valderrama Gissella , Llanos Fernando , Velásquez Gustavo E. , Mitnick Carole D. , Lecca Leonid 
Published: February 2023

Abstract
Background
Rapid IgM/IgG antibody tests were largely used in lieu of RT-PCR tests as part of COVID-19 public health response activities in Lima, Peru. To assess their utility, we explored the relationship between the time since onset of several COVID-19-related symptoms and the sensitivity of a rapid combined IgM/IgG antibody test.

Methods
We collected data from a community sample of individuals (n = 492) who received concurrent RT-PCR and rapid IgM/IgG antibody testing between May 2020 and March 2021. We estimated the sensitivity of the antibody test, against the RT-PCR test, by weeks since symptom onset via segmented regression analysis.

Results
The overall sensitivity of the rapid IgM/IgG antibody test was 46.7% (95% CI, 42.4–51.2%). Among 372 (75.6%) participants who reported COVID-19-related symptoms, sensitivity increased from 30.4% (95% CI, 24.7–36.6%) in week 1 after symptom onset to 83.3% (95% CI, 41.6–98.4%) in week 4. The test sensitivity increased by 31.9% (95% CI, 24.8–39.0%) per week until week 2 to 3, then decreased by − 6.0% (95% CI, − 25.7–13.7%) per week thereafter.

Conclusion
Rapid antibody tests are a poor substitute for RT-PCR testing, regardless of presenting symptoms. This highlights the need for future pandemic planning to include timely and equitable access to gold-standard diagnostics, treatment, and vaccination.
Automated assessment of the smoothness of retinal layers in optical coherence tomography images using a machine learning algorithm
Authors: Saeidian Jamshid , Mahmoudi Tahereh , Riazi-Esfahani Hamid , Montazeriani Zahra , Khodabande Alireza , Zarei Mohammad , Ebrahimiadib Nazanin , Jafari Behzad , Afzal Aghaei Alireza , Azimi Hossein , Khalili Pour Elias 
Published: February 2023

AbstractQuantifying the smoothness of different layers of the retina can potentially be an important and practical biomarker in various pathologic conditions like diabetic retinopathy. The purpose of this study is to develop an automated machine learning algorithm which uses support vector regression method with wavelet kernel and automatically segments two hyperreflective retinal layers (inner plexiform layer (IPL) and outer plexiform layer (OPL)) in 50 optical coherence tomography (OCT) slabs and calculates the smoothness index (SI). The Bland–Altman plots, mean absolute error, root mean square error and signed error calculations revealed a modest discrepancy between the manual approach, used as the ground truth, and the corresponding automated segmentation of IPL/ OPL, as well as SI measurements in OCT slabs. It was concluded that the constructed algorithm may be employed as a reliable, rapid and convenient approach for segmenting IPL/OPL and calculating SI in the appropriate layers.
Serum and plasma levels of Ba, but not those of soluble C5b-9, might be affected by renal function in chronic kidney disease patients
Authors: Yamane Ryoko , Yasuda Yoshinari , Oshima Aki , Suzuki Yasuhiro , Kojima Hiroshi , Kim Hangsoo , Fukui Sosuke , Maruyama Shoichi , Ito Yasuhiko , Mizuno Masashi 
Published: February 2023

Abstract
Background
During the last few decades, pathogenic mechanisms associated with uncontrolled activation of the complement (C) system and development of anti-C agents have been closely investigated in the field of nephrology. The usefulness of some C products such as C5a and sC5b-9 for diagnostic and prognostic purposes remains controversial. On the other hand, decreased renal function is being observed in many patients with or without nephritis as a background factor in progressively aging societies. We therefore investigated whether renal function influenced the evaluation of various complement components and activation products.

Methods
To investigate the influence of renal function on evaluations of C3, C4, CH50, Ba, C5a and sC5b-9, 40 patients were retrospectively chosen from among 844 patients without active glomerulonephritis from 2009 to 2016. We measured plasma and serum levels of C3, C4, CH50, Ba, C5a and sC5b-9 using enzyme-linked immunosorbent assays and compared the findings with inulin clearance (Cin) as a marker of preserved renal function.

Results
Both plasma and serum levels of Ba correlated significantly with Cin, but other values did not. Compared with patients with Cin ≥ 60 or ≥ 30 mL/min/1.73 m2, plasma and serum levels of Ba were increased in patients with Cin decreased to < 60 or < 30 mL/min/1.73 m2, but levels of C5a and sC5b-9 were not.

Conclusion
The influence of renal function might need to be considered when evaluating Ba, but not C5a and sC5b-9, in plasma and serum samples from chronic kidney disease patients.