bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cavity-enhanced field-resolved spectroscopy
Authors: Sulzer Philipp , Högner Maximilian , Raab Ann-Kathrin , Fürst Lukas , Fill Ernst , Gerz Daniel , Hofer Christina , Voronina Liudmila , Pupeza Ioachim 
Published: August 2022

AbstractFemtosecond enhancement cavities1 are key to applications including high-sensitivity linear2–4 and nonlinear5,6 gas spectroscopy, as well as efficient nonlinear optical frequency conversion7–10. Yet, to date, the broadest simultaneously enhanced bandwidths amount to <20% of the central optical frequency8,9,11–15. Here, we present an ultrabroadband femtosecond enhancement cavity comprising gold-coated mirrors and a wedged-diamond-plate input coupler, with an average finesse of 55 for optical frequencies below 40 THz and exceeding 40 in the 120–300 THz range. Resonant enhancement of a 50-MHz-repetition-rate offset-free frequency comb spanning 22–40 THz results in a waveform-stable ultrashort circulating pulse with a spectrum supporting a Fourier limit of 1.6 cycles, enabling time-domain electric-field-resolved spectroscopy of molecular samples with temporally separated excitation and molecular response16. The contrast between the two is improved by taking advantage of destructive interference at the input coupler. At an effective interaction length with a gas of up to 81 m, this concept promises parts-per-trillion-level ultrabroadband electric-field-resolved linear and nonlinear spectroscopy of impulsively excited molecular vibrations.
Gene–environment correlations across geographic regions affect genome-wide association studies
Authors: Abdellaoui Abdel , Dolan Conor V. , Verweij Karin J. H. , Nivard Michel G. 
Published: August 2022

AbstractGene–environment correlations affect associations between genetic variants and complex traits in genome-wide association studies (GWASs). Here we showed in up to 43,516 British siblings that educational attainment polygenic scores capture gene–environment correlations, and that migration extends these gene–environment correlations beyond the family to broader geographic regions. We then ran GWASs on 56 complex traits in up to 254,387 British individuals. Controlling for geographic regions significantly decreased the heritability for socioeconomic status (SES)-related traits, most strongly for educational attainment and income. For most traits, controlling for regions significantly reduced genetic correlations with educational attainment and income, most significantly for body mass index/body fat, sedentary behavior and substance use, consistent with gene–environment correlations related to regional socio-economic differences. The effects of controlling for birthplace and current address suggest both passive and active sources of gene–environment correlations. Our results show that the geographic clustering of DNA and SES introduces gene–environment correlations that affect GWAS results.
Artificial intelligence-enabled detection and assessment of Parkinson’s disease using nocturnal breathing signals
Authors: Yang Yuzhe , Yuan Yuan , Zhang Guo , Wang Hao , Chen Ying-Cong , Liu Yingcheng , Tarolli Christopher G. , Crepeau Daniel , Bukartyk Jan , Junna Mithri R. , Videnovic Aleksandar , Ellis Terry D. , Lipford Melissa C. , Dorsey Ray , Katabi Dina 
Published: August 2022

AbstractThere are currently no effective biomarkers for diagnosing Parkinson’s disease (PD) or tracking its progression. Here, we developed an artificial intelligence (AI) model to detect PD and track its progression from nocturnal breathing signals. The model was evaluated on a large dataset comprising 7,671 individuals, using data from several hospitals in the United States, as well as multiple public datasets. The AI model can detect PD with an area-under-the-curve of 0.90 and 0.85 on held-out and external test sets, respectively. The AI model can also estimate PD severity and progression in accordance with the Movement Disorder Society Unified Parkinson’s Disease Rating Scale (R = 0.94,P = 3.6 × 10–25). The AI model uses an attention layer that allows for interpreting its predictions with respect to sleep and electroencephalogram. Moreover, the model can assess PD in the home setting in a touchless manner, by extracting breathing from radio waves that bounce off a person’s body during sleep. Our study demonstrates the feasibility of objective, noninvasive, at-home assessment of PD, and also provides initial evidence that this AI model may be useful for risk assessment before clinical diagnosis.
Atezolizumab versus chemotherapy in advanced or metastatic NSCLC with high blood-based tumor mutational burden: primary analysis of BFAST cohort C randomized phase 3 trial
Authors: Peters Solange , Dziadziuszko Rafal , Morabito Alessandro , Felip Enriqueta , Gadgeel Shirish M. , Cheema Parneet , Cobo Manuel , Andric Zoran , Barrios Carlos H. , Yamaguchi Masafumi , Dansin Eric , Danchaivijitr Pongwut , Johnson Melissa , Novello Silvia , Mathisen Michael S. , Shagan Sarah M. , Schleifman Erica , Wang Jin , Yan Mark , Mocci Simonetta , Voong David , Fabrizio David A. , Shames David S. , Riehl Todd , Gandara David R. , Mok Tony 
Published: August 2022

AbstractTumor mutational burden (TMB) is being explored as a predictive biomarker for cancer immunotherapy outcomes in non-small cell lung cancer. BFAST (NCT03178552)—an open-label, global, multicohort trial—evaluated the safety and efficacy of first-line targeted therapies or immunotherapy in patients with unresectable Stage IIIB or IV advanced or metastatic non-small cell lung cancer who were selected for biomarker status using blood-based targeted next-generation sequencing. In the Phase 3 cohort C evaluating blood-based (b)TMB as a biomarker of atezolizumab efficacy, patients with bTMB of ≥10 (N = 471) were randomized 1:1 to receive atezolizumab or platinum-based chemotherapy per local standard of care. Cohort C did not meet its primary endpoint of investigator-assessed progression-free survival in the population with bTMB of ≥16 (hazard ratio, 0.77; 95% confidence interval: 0.59, 1.00; P = 0.053). Adverse events leading to treatment withdrawal occurred in 10% of patients in the atezolizumab arm and 20% in the chemotherapy arm. Adverse events of special interest occurred in 42% of patients in the atezolizumab arm and 26% in the chemotherapy arm. A prespecified exploratory analysis compared the bTMB clinical trial assay with the FoundationOne Liquid Companion Diagnostic assay and showed high concordance between assays. Additional exploration of bTMB to identify optimal cutoffs, confounding factors, assay improvements or cooperative biomarkers is warranted.
Neutralization titer biomarker for antibody-mediated prevention of HIV-1 acquisition
Authors: Gilbert Peter B. , Huang Yunda , deCamp Allan C. , Karuna Shelly , Zhang Yuanyuan , Magaret Craig A. , Giorgi Elena E. , Korber Bette , Edlefsen Paul T. , Rossenkhan Raabya , Juraska Michal , Rudnicki Erika , Kochar Nidhi , Huang Ying , Carpp Lindsay N. , Barouch Dan H. , Mkhize Nonhlanhla N. , Hermanus Tandile , Kgagudi Prudence , Bekker Valerie , Kaldine Haajira , Mapengo Rutendo E. , Eaton Amanda , Domin Elize , West Carley , Feng Wenhong , Tang Haili , Seaton Kelly E. , Heptinstall Jack , Brackett Caroline , Chiong Kelvin , Tomaras Georgia D. , Andrew Philip , Mayer Bryan T. , Reeves Daniel B. , Sobieszczyk Magdalena E. , Garrett Nigel , Sanchez Jorge , Gay Cynthia , Makhema Joseph , Williamson Carolyn , Mullins James I. , Hural John , Cohen Myron S. , Corey Lawrence , Montefiori David C. , Morris Lynn 
Published: August 2022

AbstractThe Antibody Mediated Prevention trials showed that the broadly neutralizing antibody (bnAb) VRC01 prevented acquisition of human immunodeficiency virus-1 (HIV-1) sensitive to VRC01. Using AMP trial data, here we show that the predicted serum neutralization 80% inhibitory dilution titer (PT80) biomarker—which quantifies the neutralization potency of antibodies in an individual’s serum against an HIV-1 isolate—can be used to predict HIV-1 prevention efficacy. Similar to the results of nonhuman primate studies, an average PT80 of 200 (meaning a bnAb concentration 200-fold higher than that required to reduce infection by 80% in vitro) against a population of probable exposing viruses was estimated to be required for 90% prevention efficacy against acquisition of these viruses. Based on this result, we suggest that the goal of sustained PT80 >200 against 90% of circulating viruses can be achieved by promising bnAb regimens engineered for long half-lives. We propose the PT80 biomarker as a surrogate endpoint for evaluation of bnAb regimens, and as a tool for benchmarking candidate bnAb-inducing vaccines.
The relationship between antithrombin administration and inflammation during veno-venous ECMO
Authors: Panigada Mauro , Spinelli Elena , De Falco Stefano , Consonni Dario , Novembrino Cristina , Boscolo Anzoletti Massimo , Panarello Giovanna , Occhipinti Giovanna , dos Santos Claudia C. , Pesenti Antonio , Arcadipane Antonio , Grasselli Giacomo 
Published: August 2022

AbstractVeno-venous Extracorporeal Membrane Oxygenation (ECMO) is used in the most severe cases of respiratory failure and further exacerbates the patients’ inflammatory status. Antithrombin is supplemented during ECMO for its anticoagulant effects, but it also deploys anti-inflammatory properties. In this pre-specified ancillary study of the GATRA trial [NCT03208270] we aimed to evaluate the relationship between antithrombin and inflammation during ECMO. Forty-six patients were included in the study, 23 were randomized to receive antithrombin to maintain a level of 80–120% (study group) and 23 were randomized not to be supplemented (control group). Anticoagulation was provided in both groups with heparin infusion. Six cytokines were measured at 5 timepoints from prior to ECMO start to 7 days after ECMO removal. Cytokines decreased during the study but overall were not very different in the two groups. Testing the interaction between the study group and timepoints suggests that the administration of antithrombin led to a more rapid decrease over time of IL-6, IL-1β, TNF-⍺ and Pro-ADM. Plasma levels of antithrombin (either endogenous or exogenous) were negatively associated with all cytokines. Inflammation decreases during ECMO but a causal effect of antithrombin administration on the reduction of inflammation (and its clinical relevance) must be confirmed by appropriately powered studies.
Time estimation and arousal responses in dopa-responsive dystonia
Authors: Becker Leonie F. , Tunc Sinem , Murphy Peter , Bäumer Tobias , Weissbach Anne , Pauly Martje G. , Al-Shorafat Duha M. , Saranza Gerard , Lang Anthony E. , Beste Christian , Donner Tobias H. , Verrel Julius , Münchau Alexander 
Published: August 2022

AbstractDopa-responsive dystonia (DRD) is caused by an impaired dopamine biosynthesis due to a GTP-cyclohydrolase-1 (GCH1) deficiency, resulting in a combination of dystonia and parkinsonism. However, the effect of GCH1 mutations and levodopa treatment on motor control beyond simple movements, such as timing, action preparation and feedback processing, have not been investigated so far. In an active time estimation task with trial-by-trial feedback, participants indicated a target interval (1200 ms) by a motor response. We compared 12 patients tested (in fixed order) under their current levodopa medication ("ON") and after levodopa withdrawal ("OFF") to matched healthy controls (HC), measured twice to control for repetition effects. We assessed time estimation accuracy, trial-to-trial adjustment, as well as task- and feedback-related pupil-linked arousal responses. Patients showed comparable time estimation accuracy ON medication as HC but reduced performance OFF medication. Task-related pupil responses showed the reverse pattern. Trial-to-trial adjustments of response times were reduced in DRD, particularly OFF medication. Our results indicate differential alterations of time estimation accuracy and task-related arousal dynamics in DRD patients as a function of dopaminergic medication state. A medication-independent alteration of task repetition effects in DRD cannot be ruled out with certainty but is discussed as less likely.
Co-application of proline or calcium and humic acid enhances productivity of salt stressed pomegranate by improving nutritional status and osmoregulation mechanisms
Authors: Rashedy Ahmed AbdelHady , Abd-ElNafea Medhat Hamid , Khedr Emad Hamdy 
Published: August 2022

AbstractMaximizing food production through integrated management of vegetative and root growth is a major challenge to food security and sustainability in the face of population growth, salinity stress conditions and climatic changes specially in arid and semi-arid regions. This study was conducted to evaluate the effect of foliar application with proline (Pro) at 5 mM, calcium (Ca) at 1.5% or control supplemented with soil application of humic acid (Hc) at 0, 15 g/tree on the nutrition status, osmoregulatory mechanisms and productivity of ‘Wonderful’ pomegranate trees growing under salt stress conditions. Soil and foliar treatments were applied three times: at flowering stage (April), 2 months after fruit set (June) and at fruit maturity (August). Individual application of either Hc or Pro or Ca alleviated the adverse effects of salt stress. Moreover, supplemented soil application of Hc with Pro or Ca as foliar application increased significantly leaf Pro, total carbohydrates, N, P, Ca and K contents, as well as K/Na and Ca/Na ratio. While it significantly decreased leaf Na and Cl concentration. Furthermore, supplemented application of Hc resulted in the highest decrease in leaf Na and Cl concentrations by 94.59%, 44.79% when combined with Pro and by 51.35%, 31.28%, when combined with Ca. In addition, Hc treatment led to the highest mean fruit yield by 139.56% and 90.73%, respectively as mean of both seasons for Pro and Ca treatments, respectively. The results suggest that, exogenous Pro and Ca supplemented with Hc can mitigate salt stress in ‘Wonderful’ pomegranate through enhancing osmoprotectants accumulaton.
Improved correspondence of fMRI visual field localizer data after cortex-based macroanatomical alignment
Authors: Qubad Mishal , Barnes-Scheufler Catherine V. , Schaum Michael , Raspor Eva , Rösler Lara , Peters Benjamin , Schiweck Carmen , Goebel Rainer , Reif Andreas , Bittner Robert A. 
Published: August 2022

AbstractStudying the visual system with fMRI often requires using localizer paradigms to define regions of interest (ROIs). However, the considerable interindividual variability of the cerebral cortex represents a crucial confound for group-level analyses. Cortex-based alignment (CBA) techniques reliably reduce interindividual macroanatomical variability. Yet, their utility has not been assessed for visual field localizer paradigms, which map specific parts of the visual field within retinotopically organized visual areas. We evaluated CBA for an attention-enhanced visual field localizer, mapping homologous parts of each visual quadrant in 50 participants. We compared CBA with volume-based alignment and a surface-based analysis, which did not include macroanatomical alignment. CBA led to the strongest increase in the probability of activation overlap (up to 86%). At the group level, CBA led to the most consistent increase in ROI size while preserving vertical ROI symmetry. Overall, our results indicate that in addition to the increased signal-to-noise ratio of a surface-based analysis, macroanatomical alignment considerably improves statistical power. These findings confirm and extend the utility of CBA for the study of the visual system in the context of group analyses. CBA should be particularly relevant when studying neuropsychiatric disorders with abnormally increased interindividual macroanatomical variability.
Four-copy number alteration (CNA)-related lncRNA prognostic signature for liver cancer
Authors: Cheng Zhenyun , Guo Yan , Sun Jingjing , Zheng Lei 
Published: August 2022

AbstractThe objective of this study was to identify CNA-related lncRNAs that can better evaluate the prognosis of patients with liver cancer. Prognostic molecular subtypes were identified, followed by tumor mutation and differential expression analyses. Genomic copy number anomalies and their association with lncRNAs were also evaluated. A risk model was built based on lncRNAs, as well as a nomogram, and the differences in the tumor immune microenvironment and drug sensitivity between the High_ and Low_risk groups were compared. Weighted gene co-expression network analysis was used to identify modules with significant enrichment in prognostic-related lncRNAs. In total, two subtypes were identified,TP53andCTNNB1were common high-frequency mutated genes in the two subtypes. A total of 8,372 differentially expressed (DE) mRNAs and 798 DElncRNAs were identified between cluster1 and cluster2. In addition, a four-lncRNA signature was constructed, and statistically significant differences between the Low_ and High_risk groups were found in terms of CD8 T cells, resting memory CD4 T cells, etc. Enrichment analysis showed that prognostic-related lncRNAs were involved in the cell cycle, p53 signaling pathway, non-alcoholic fatty liver disease, etc. A prognostic prediction signature, based on four-CNA-related lncRNAs, could contribute to a more accurate prognosis of patients with liver cancer.
Solubility of gaseous hydrocarbons in ionic liquids using equations of state and machine learning approaches
Authors: Nakhaei-Kohani Reza , Atashrouz Saeid , Hadavimoghaddam Fahimeh , Bostani Ali , Hemmati-Sarapardeh Abdolhossein , Mohaddespour Ahmad 
Published: August 2022

AbstractIonic liquids (ILs) have emerged as suitable options for gas storage applications over the past decade. Consequently, accurate prediction of gas solubility in ILs is crucial for their application in the industry. In this study, four intelligent techniques including Extreme Learning Machine (ELM), Deep Belief Network (DBN), Multivariate Adaptive Regression Splines (MARS), and Boosting-Support Vector Regression (Boost-SVR) have been proposed to estimate the solubility of some gaseous hydrocarbons in ILs based on two distinct methods. In the first method, the thermodynamic properties of hydrocarbons and ILs were used as input parameters, while in the second method, the chemical structure of ILs and hydrocarbons along with temperature and pressure were used. The results show that in the first method, the DBN model with root mean square error (RMSE) and coefficient of determination (R2) values of 0.0054 and 0.9961, respectively, and in the second method, the DBN model with RMSE and R2 values of 0.0065 and 0.9943, respectively, have the most accurate predictions. To evaluate the performance of intelligent models, the obtained results were compared with previous studies and equations of the state including Peng–Robinson (PR), Soave–Redlich–Kwong (SRK), Redlich–Kwong (RK), and Zudkevitch–Joffe (ZJ). Findings show that intelligent models have high accuracy compared to equations of state. Finally, the investigation of the effect of different factors such as alkyl chain length, type of anion and cation, pressure, temperature, and type of hydrocarbon on the solubility of gaseous hydrocarbons in ILs shows that pressure and temperature have a direct and inverse effect on increasing the solubility of gaseous hydrocarbons in ILs, respectively. Also, the evaluation of the effect of hydrocarbon type shows that increasing the molecular weight of hydrocarbons increases the solubility of gaseous hydrocarbons in ILs.
Dynamic stability of salt stable cowpea chlorotic mottle virus capsid protein dimers and pentamers of dimers
Authors: Szoverfi Janos , Fejer Szilard N. 
Published: August 2022

AbstractIntermediates of the self-assembly process of the salt stable cowpea chlorotic mottle virus (ss-CCMV) capsid can be modelled atomistically on realistic computational timescales either by studying oligomers in equilibrium or by focusing on their dissociation instead of their association. Our previous studies showed that among the three possible dimer interfaces in the icosahedral capsid, two are thermodynamically relevant for capsid formation. The aim of the current study is to evaluate the relative structural stabilities of the three different ss-CCMV dimers and to find and understand the conditions that lead to their dissociation. Long timescale molecular dynamics simulations at 300 K of the various dimers and of the pentamer of dimers underscore the importance of large contact surfaces on stabilizing the capsid subunits within an oligomer. Simulations in implicit solvent show that at higher temperature (350 K), the N-terminal tails of the protein units act as tethers, delaying dissociation for all but the most stable interface. The pentamer of dimers is also found to be stable on long timescales at 300 K, with an inherent flexibility of the outer protein chains.
Recognition memory, primacy vs. recency effects, and time perception in the online version of the fear of scream paradigm
Authors: Zlomuzica Armin , Kullmann Fine , Hesse Julia , Plank Laurin , Dere Ekrem 
Published: August 2022

AbstractAnxiety disorders are characterized by cognitive dysfunctions which contribute to the patient’s profound disabilities. The threat of shock paradigm represents a validated psychopathological model of anxiety to measure the impact of anxiety on cognitive processes. We have developed an online version of the threat of scream paradigm (ToSP) to investigate the impact of experimental anxiety on recognition memory. Two animated passive walkthrough videos (either under threat of scream or safety conditions) were shown to healthy participants. Recognition memory, primacy vs. recency effects, and subjective estimations of the length of encoding sessions were assessed. Subjective anxiety, stress, and emotional arousal ratings indicated that experimental anxiety could successfully be induced (Safe-Threat) or reversed (Threat-Safe) between the two passive walkthrough sessions. Participants exposed to distress screams showed impaired retrieval of complex information that has been presented in an animated environment. In the threat condition, participants failed to recognize details related to the persons encountered, their spatial locations, as well as information about the temporal order and sequence of encounters. Participant groups, which received a threat announcement prior to the first walkthrough session (Threat-Threat vs. Safety-Safety and Threat-Safety vs. Safety-Threat) showed poorer recognition memory as compared to the groups that received a safety announcement (P = 0.0468 and P = 0.0426, respectively; Mann–Whitney U test, Cohen’s d = 0.5071; effect size r = 0.2458). In conclusion, experimental anxiety induced by the online version of the ToSP leads to compromised recognition memory for complex multi-dimensional information. Our results indicate that cognitive functions of vulnerable populations (with limited mobility) can be evaluated online by means of the ToSP.