bluuebunny/crossref_metadata_2025_split huggingface dataset:
Fraser Island (K'gari) and initiation of the Great Barrier Reef linked by Middle Pleistocene sea-level change
Authors: Ellerton D. , Rittenour T. M. , Shulmeister J. , Roberts A. P. , Miot da Silva G. , Gontz A. , Hesp P. A. , Moss P. , Patton N. , Santini T. , Welsh K. , Zhao X. 
Published: November 2022

AbstractThe eastern Australia coastline is characterized by impressive coastal landforms and an extensive northward-moving longshore drift system that have been influenced by a stable, long-term tectonic history over the Quaternary period. However, the timing and drivers of the formation of two conspicuous landscape features—Fraser Island (K’gari) and the Great Barrier Reef—remain poorly understood. Here we use optically stimulated luminescence and palaeomagnetic dating to constrain the formation of the extensive dunes that make up Fraser Island, the world’s largest sand island, and adjacent Cooloola Sand Mass in southeastern Queensland. We find that both formed between 1.2 Ma and 0.7 Ma, during a global climate reconfiguration across the Middle Pleistocene transition. They formed as a direct result of increased amplitude of sea-level fluctuations associated with increasing global ice volume that redistributed previously stored sediment across the continental shelf. The development of Fraser Island dramatically reduced sediment supply to the continental shelf north of the island. This facilitated widespread coral reef formation in the southern and central Great Barrier Reef and was a necessary precondition for its development. This major reorganization of the coastal sedimentary system is probably not unique to eastern Australia and should be investigated in other passive-margin coastlines.
Identification of novel interferon responsive protein partners of human leukocyte antigen A (HLA-A) using cross-linking mass spectrometry (CLMS) approach
Authors: Singh Ashita , Padariya Monikaben , Faktor Jakub , Kote Sachin , Mikac Sara , Dziadosz Alicja , Lam Tak W. , Brydon Jack , Wear Martin A. , Ball Kathryn L. , Hupp Ted , Sznarkowska Alicja , Vojtesek Borek , Kalathiya Umesh 
Published: November 2022

AbstractThe interferon signalling system elicits a robust cytokine response against a wide range of environmental pathogenic and internal pathological signals, leading to induction of a subset of interferon-induced proteins. We applied DSS (disuccinimidyl suberate) mediated cross-linking mass spectrometry (CLMS) to capture novel protein–protein interactions within the realm of interferon induced proteins. In addition to the expected interferon-induced proteins, we identified novel inter- and intra-molecular cross-linked adducts for the canonical interferon induced proteins, such as MX1, USP18, OAS3, and STAT1. We focused on orthogonal validation of a cohort of novel interferon-induced protein networks formed by the HLA-A protein (H2BFS-HLA-A-HMGA1) using co-immunoprecipitation assay, and further investigated them by molecular dynamics simulation. Conformational dynamics of the simulated protein complexes revealed several interaction sites that mirrored the interactions identified in the CLMS findings. Together, we showcase a proof-of-principle CLMS study to identify novel interferon-induced signaling complexes and anticipate broader use of CLMS to identify novel protein interaction dynamics within the tumour microenvironment.
Specific tractography differences in autism compared to developmental coordination disorder
Authors: Kilroy Emily , Gerbella Marzio , Cao Lei , Molfese Peter , Butera Christiana , Harrison Laura , Jayashankar Aditya , Rizzolatti Giacomo , Aziz-Zadeh Lisa 
Published: November 2022

AbstractAbout 85% of children with autism spectrum disorder (ASD) experience comorbid motor impairments, making it unclear whether white matter abnormalities previously found in ASD are related to social communication deficits, the hallmark of ASD, or instead related to comorbid motor impairment. Here we aim to understand specific white matter signatures of ASD beyond those related to comorbid motor impairment by comparing youth (aged 8–18) with ASD (n = 22), developmental coordination disorder (DCD; n = 16), and typically developing youth (TD; n = 22). Diffusion weighted imaging was collected and quantitative anisotropy, radial diffusivity, mean diffusivity, and axial diffusivity were compared between the three groups and correlated with social and motor measures. Compared to DCD and TD groups, diffusivity differences were found in the ASD group in the mid-cingulum longitudinal and u-fibers, the corpus callosum forceps minor/anterior commissure, and the left middle cerebellar peduncle. Compared to the TD group, the ASD group had diffusivity differences in the right inferior frontal occipital/extreme capsule and genu of the corpus callosum. These diffusion differences correlated with emotional deficits and/or autism severity. By contrast, children with DCD showed unique abnormality in the left cortico-spinal and cortico-pontine tracts.Trial Registration All data are available on the National Institute of Mental Health Data Archive: https://nda.nih.gov/edit_collection.html?id=2254.
Prediction of severe pancreatitis in a population with low atmospheric oxygen pressure
Authors: Londoño-Ruiz Germán , Ramírez-Giraldo Camilo , Vesga-Rosas Andrés , Vargas-Barato Felipe 
Published: November 2022

AbstractTo establish the severity of pancreatitis, there are many scoring systems, the most used are the Marshall and APACHE II systems, each one has advantages and disadvantages; but with good relation regarding mortality and prediction of complications. In populations with low barometric pressures produced by a decrease in atmospheric pressure, there is a decrease in partial pressure of oxygen, in these cases scores which take arterial oxygen partial pressure as one of their variables, may be overestimated. A diagnostic trial study was designed to evaluate the performance of APACHE II, Marshall and BISAP in a city 2640 m above sea level. A ROC analysis was performed to estimate the AUC of each of the scores, to evaluate the performance in predicting unfavorable outcomes (defined as the need for percutaneous drainage, surgery, or mortality) and a non-parametric comparison was made between the AUC of each of the scores with the DeLong test. From January 2018 to December 2019, data from 424 patients living in Bogota, with a diagnosis of gallstone pancreatitis was collected consecutively in a hospital in Bogota, Colombia. The ROC analysis showed AUC for predicting adverse outcomes for APACHE II in 0.738 (95% CI 0.647–0.829), Marshall in 0.650 (95% CI 0.554–0.746), and BISAP in 0.744 (95% CI 0.654–0.835). The non-parametric comparison to assess whether there were differences between the different AUC of the different scores showed that there is a statistically significant difference between Marshall and BISAP AUC to predict unfavorable outcomes (p=0.032). The mortality in the group of patients studied was 5.8%. We suggest the use of BISAP to predict clinical outcomes in patients with a diagnosis of biliary pancreatitis in populations with decreased atmospheric pressure because it is an easy-to-use tool and does not require arterial oxygen partial pressure for its calculation.
Meta-analysis of the functional neuroimaging literature with probabilistic logic programming
Authors: Abdallah Majd , Iovene Valentin , Zanitti Gaston , Wassermann Demian 
Published: November 2022

AbstractInferring reliable brain-behavior associations requires synthesizing evidence from thousands of functional neuroimaging studies through meta-analysis. However, existing meta-analysis tools are limited to investigating simple neuroscience concepts and expressing a restricted range of questions. Here, we expand the scope of neuroimaging meta-analysis by designing NeuroLang: a domain-specific language to express and test hypotheses using probabilistic first-order logic programming. By leveraging formalisms found at the crossroads of artificial intelligence and knowledge representation, NeuroLang provides the expressivity to address a larger repertoire of hypotheses in a meta-analysis, while seamlessly modeling the uncertainty inherent to neuroimaging data. We demonstrate the language’s capabilities in conducting comprehensive neuroimaging meta-analysis through use-case examples that address questions of structure-function associations. Specifically, we infer the specific functional roles of three canonical brain networks, support the role of the visual word-form area in visuospatial attention, and investigate the heterogeneous organization of the frontoparietal control network.
A flexible adhesive surface electrode array capable of cervical electroneurography during a sequential autonomic stress challenge
Authors: Bu Yifeng , Kurniawan Jonas F. , Prince Jacob , Nguyen Andrew K. L. , Ho Brandon , Sit Nathan L. J. , Pham Timothy , Wu Vincent M. , Tjhia Boris , Shin Andrew J. , Wu Tsung-Chin , Tu Xin M. , Rao Ramesh , Coleman Todd P. , Lerman Imanuel 
Published: November 2022

AbstractThis study introduces a flexible, adhesive-integrated electrode array that was developed to enable non-invasive monitoring of cervical nerve activity. The device uses silver-silver chloride as the electrode material of choice and combines it with an electrode array consisting of a customized biopotential data acquisition unit and integrated graphical user interface (GUI) for visualization of real-time monitoring. Preliminary testing demonstrated this electrode design can achieve a high signal to noise ratio during cervical neural recordings. To demonstrate the capability of the surface electrodes to detect changes in cervical neuronal activity, the cold-pressor test (CPT) and a timed respiratory challenge were employed as stressors to the autonomic nervous system. This sensor system recording, a new technique, was termed Cervical Electroneurography (CEN). By applying a custom spike sorting algorithm to the electrode measurements, neural activity was classified in two ways: (1) pre-to-post CPT, and (2) during a timed respiratory challenge. Unique to this work: (1) rostral to caudal channel position-specific (cephalad to caudal) firing patterns and (2) cross challenge biotype-specific change in average CEN firing, were observed with both CPT and the timed respiratory challenge. Future work is planned to develop an ambulatory CEN recording device that could provide immediate notification of autonomic nervous system activity changes that might indicate autonomic dysregulation in healthy subjects and clinical disease states.
E-cigarettes and smoking cessation among adolescent smokers
Authors: Lin Li-Yin , Chien Yu-Ning , Chen Yi-Hua , Shean Russell , Wu Chi-Yi , Huang Shih-Chang , Chiou Hung-Yi 
Published: November 2022

AbstractSmokers of any age can reap substantial health benefits from quitting or reducing their smoking. E-cigarettes have been promoted as a potentially promising product for tobacco harm reduction because e-cigarettes deliver nicotine vapor without many of the hazardous chemical combustion byproducts produced by combustible cigarette smoking. However, there remains an ongoing debate on whether the use of e-cigarettes is effective in combustible cigarette smoking cessation or reduction in both adolescents and adults. Our study uses data from the 2015 (baseline) and from the 2017 (follow-up) waves of the Taiwan Adolescent to Adult Longitudinal Study (TAALS), which is a large nationwide representative cohort study of health behaviors among adolescents in Taiwan. We analyzed the data using logistic regression and multivariate regression with a post-stratification weighting procedure. Among the 474 adolescent combustible cigarette users at baseline, the use of e-cigarettes had no association with smoking cessation (aRR = 0.99, 95% CI = 0.66, 1.50). Furthermore, the use of e-cigarettes was also not associated with change in combustible cigarette consumption among all adolescent combustible cigarette users at follow-up (Coef. = 0.62, 95% CI =  − 36.85, 38.09). In summary, our findings suggest that e-cigarettes may not aid tobacco control among adolescent smokers. Policy makers should be cautious of the potential harms that e-cigarette may bring to young people when they are developing e-cigarette regulations.
Lipid-A-dependent and cholesterol-dependent dynamics properties of liposomes from gram-negative bacteria in ESKAPE
Authors: Franco-Gonzalez Juan Felipe , Matamoros-Recio Alejandra , Torres-Mozas Angel , Rodrigo-Lacave Blanca , Martin-Santamaria Sonsoles 
Published: November 2022

AbstractAntiMicrobial Resistance (AMR) is a worldwide health emergency. ESKAPE pathogens include the most relevant AMR bacterial families. In particular, Gram-negative bacteria stand out due to their cell envelope complexity which exhibits strong resistance to antimicrobials. A key element for AMR is the chemical structure of lipid A, modulating the physico-chemical properties of the membrane and permeability to antibiotics. Liposomes are used as models of bacterial membrane infective vesicles. In this work, coarse-grained molecular dynamics simulations were used to model liposomes from ESKAPE Gram-negative bacteria (Escherichia coli, Klebsiella pneumoniae, Acinetobacter baumannii, and Pseudomonas aeruginosa). We captured the role of lipid A, cardiolipin and cholesterol on liposome morphology and physico-chemical properties. Additionally, the reported antimicrobial peptides Cecropin B1, JB95, and PTCDA1-kf, were used to unveil their implications on membrane disruption. This study opens a promising starting point to understand molecular keys of bacterial membranes and to promote the discovery of new antimicrobials to overcome AMR.
Simultaneous transcranial electrical and magnetic stimulation boost gamma oscillations in the dorsolateral prefrontal cortex
Authors: Maiella Michele , Casula Elias Paolo , Borghi Ilaria , Assogna Martina , D’Acunto Alessia , Pezzopane Valentina , Mencarelli Lucia , Rocchi Lorenzo , Pellicciari Maria Concetta , Koch Giacomo 
Published: November 2022

AbstractNeural oscillations in the gamma frequency band have been identified as a fundament for synaptic plasticity dynamics and their alterations are central in various psychiatric and neurological conditions. Transcranial magnetic stimulation (TMS) and alternating electrical stimulation (tACS) may have a strong therapeutic potential by promoting gamma oscillations expression and plasticity. Here we applied intermittent theta-burst stimulation (iTBS), an established TMS protocol known to induce LTP-like cortical plasticity, simultaneously with transcranial alternating current stimulation (tACS) at either theta (θtACS) or gamma (γtACS) frequency on the dorsolateral prefrontal cortex (DLPFC). We used TMS in combination with electroencephalography (EEG) to evaluate changes in cortical activity on both left/right DLPFC and over the vertex. We found that simultaneous iTBS with γtACS but not with θtACS resulted in an enhancement of spectral gamma power, a trend in shift of individual peak frequency towards faster oscillations and an increase of local connectivity in the gamma band. Furthermore, the response to the neuromodulatory protocol, in terms of gamma oscillations and connectivity, were directly correlated with the initial level of cortical excitability. These results were specific to the DLPFC and confined locally to the site of stimulation, not being detectable in the contralateral DLPFC. We argue that the results described here could promote a new and effective method able to induce long-lasting changes in brain plasticity useful to be clinically applied to several psychiatric and neurological conditions.
Penetration study of p-methoxycinnamic acid (PMCA) in nanostructured lipid carrier, solid lipid nanoparticles, and simple cream into the rat skin
Authors: Rosita Noorma , Sultani Angguni Addini , Hariyadi Dewi Melani 
Published: November 2022

AbstractThis study compared the ability of Nanostructured Lipid Carrier (NLC), Solid Lipid Nanoparticles (SLN), and Cream systems in delivering para Methoxycinnamic Acid (PMCA) to the dermis layer of the skin. Wistar rats were used as research subjects. NLC and SLN were made by applying the high shear homogenization method. Nile red was used as a penetration indicator based on its fluorescence. The interaction between fluorescence labeled NLC, SLN, or Cream and rat skin was visualized by fluorescence microscopy. Observations were made after 2 and 4.5 h of smearing the test sample. From the observations, it was known that the system/lipid base could penetrate the stratum corneum for delivering drugs. Penetration speed differs among systems as does the number of PMCAs that can be delivered. In this study, it can be concluded that the NLC system is able to deliver PMCA more quickly and in greater quantities to the dermis than SLN and Cream.
Role of ambient temperature in modulation of behavior of vanadium dioxide volatile memristors and oscillators for neuromorphic applications
Authors: Carapezzi Stefania , Delacour Corentin , Plews Andrew , Nejim Ahmed , Karg Siegfried , Todri-Sanial Aida 
Published: November 2022

AbstractVolatile memristors are versatile devices whose operating mechanism is based on an abrupt and volatile change of resistivity. This switching between high and low resistance states is at the base of cutting edge technological implementations such as neural/synaptic devices or random number generators. A detailed understanding of this operating mechanisms is essential prerequisite to exploit the full potentiality of volatile memristors. In this respect, multi-physics device simulations provide a powerful tool to single out material properties and device features that are the keys to achieve desired behaviors. In this paper, we perform 3D electrothermal simulations of volatile memristors based on vanadium dioxide (VO$$_{2}$$

2

) to accurately investigate the interplay among Joule effect, heat dissipation and the external temperature $$T_{0}$$

T
0

over their resistive switching mechanism. In particular, we extract from our simulations a simplified model for the effect of $$T_{0}$$

T
0

over the negative differential resistance (NDR) region of such devices. The NDR of VO$$_{2}$$

2

devices is pivotal for building VO$$_{2}$$

2

oscillators, which have been recently shown to be essential elements of oscillatory neural networks (ONNs). ONNs are innovative neuromorphic circuits that harness oscillators’ phases to compute. Our simulations quantify the impact of $$T_{0}$$

T
0

over figures of merit of VO$$_{2}$$

2

oscillator, such as frequency, voltage amplitude and average power per cycle. Our findings shed light over the interlinked thermal and electrical behavior of VO$$_{2}$$

2

volatile memristors and oscillators, and provide a roadmap for the development of ONN technology.
Reproducible and sensitive micro-tissue RNA sequencing from formalin-fixed paraffin-embedded tissues for spatial gene expression analysis
Authors: Matsunaga Hiroko , Arikawa Koji , Yamazaki Miki , Wagatsuma Ryota , Ide Keigo , Samuel Ashok Zachariah , Takamochi Kazuya , Suzuki Kenji , Hayashi Takuo , Hosokawa Masahito , Kambara Hideki , Takeyama Haruko 
Published: November 2022

AbstractSpatial transcriptome analysis of formalin-fixed paraffin-embedded (FFPE) tissues using RNA-sequencing (RNA-seq) provides interactive information on morphology and gene expression, which is useful for clinical applications. However, despite the advantages of long-term storage at room temperature, FFPE tissues may be severely damaged by methylene crosslinking and provide less gene information than fresh-frozen tissues. In this study, we proposed a sensitive FFPE micro-tissue RNA-seq method that combines the punching of tissue sections (diameter: 100 μm) and the direct construction of RNA-seq libraries. We evaluated a method using mouse liver tissues at two years after fixation and embedding and detected approximately 7000 genes in micro-punched tissue-spots (thickness: 10 μm), similar to that detected with purified total RNA (2.5 ng) equivalent to the several dozen cells in the spot. We applied this method to clinical FFPE specimens of lung cancer that had been fixed and embedded 6 years prior, and found that it was possible to determine characteristic gene expression in the microenvironment containing tumor and non-tumor cells of different morphologies. This result indicates that spatial gene expression analysis of the tumor microenvironment is feasible using FFPE tissue sections stored for extensive periods in medical facilities.
Deep learning-based detection algorithm for brain metastases on black blood imaging
Authors: Oh Jang-Hoon , Lee Kyung Mi , Kim Hyug-Gi , Yoon Jeong Taek , Kim Eui Jong 
Published: November 2022

AbstractBrain metastases (BM) are the most common intracranial tumors, and their prevalence is increasing. High-resolution black-blood (BB) imaging was used to complement the conventional contrast-enhanced 3D gradient-echo imaging to detect BM. In this study, we propose an efficient deep learning algorithm (DLA) for BM detection in BB imaging with contrast enhancement scans, and assess the efficacy of an automatic detection algorithm for BM. A total of 113 BM participants with 585 metastases were included in the training cohort for five-fold cross-validation. The You Only Look Once (YOLO) V2 network was trained with 3D BB sampling perfection with application-optimized contrasts using different flip angle evolution (SPACE) images to investigate the BM detection. For the observer performance, two board-certified radiologists and two second-year radiology residents detected the BM and recorded the reading time. For the training cohort, the overall performance of the five-fold cross-validation was 87.95%, 24.82%, 19.35%, 14.48, and 18.40 for sensitivity, precision, F1-Score, the false positive average for the BM dataset, and the false positive average for the normal individual dataset, respectively. For the comparison of reading time with and without DLA, the average reading time was reduced by 20.86% in the range of 15.22–25.77%. The proposed method has the potential to detect BM with a high sensitivity and has a limited number of false positives using BB imaging.
Cortisol response to psychosocial stress, mental distress, fatigue and quality of life in coronary artery disease patients
Authors: Gecaite-Stonciene Julija , Hughes Brian M. , Kazukauskiene Nijole , Bunevicius Adomas , Burkauskas Julius , Neverauskas Julius , Bellani Marcella , Mickuviene Narseta 
Published: November 2022

AbstractWe aimed to explore the relationship between cortisol response to psychosocial stress, mental distress, fatigue and health related quality of life (HRQoL) in individuals with coronary artery disease (CAD) after recent acute coronary syndrome (ACS). A cross-sectional study initially included 113 subjects (88% men, 53 ± 7 years) 1–3 weeks after ACS. Cortisol response was assessed by measuring salivary cortisol during Trier Social Stress Test. Mental distress was measured with Hospital Anxiety and Depression Scale, State-Trait Anxiety Inventory, and Type D Scale-14. Fatigue symptoms were evaluated using Multidimensional Fatigue Inventory 20-items, while HRQoL was assessed with 36-Item Short Form Medical Outcome Questionnaire. After conducting multivariable linear regression analyses, diminished cortisol response sampled after Public speech (T3–T1, + 15 min) was significantly associated with higher anxiety symptoms (β = −0.224; p = 0.035), while diminished cortisol response sampled after preparation time (T2–T1, + 10 min) was significantly linked with the presence of Type D personality (β = −0.290; p = 0.006; β = −0.282; p = 0.008 respectively), even after controlling for confounders (i.e., sex, age, education, New York Heart Association functional class, beta-blockers and baseline levels of cortisol measures). We found that mental distress, but not fatigue and HRQoL, was linked with blunted cortisol response during anticipation time of psychosocial stress, independently of potential covariates.