bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cerebral amyloid angiopathy interacts with neuritic amyloid plaques to promote tau and cognitive decline
Authors: Rabin Jennifer S , Nichols Emma , La Joie Renaud , Casaletto Kaitlin B , Palta Priya , Dams-O’Connor Kristen , Kumar Raj G , George Kristen M , Satizabal Claudia L , Schneider Julie A , Pa Judy , Brickman Adam M 
Published: June 2022

Abstract
Accumulating data suggest that cerebrovascular disease contributes to Alzheimer’s disease pathophysiology and progression toward dementia. Cerebral amyloid angiopathy is a form of cerebrovascular pathology that results from the build-up of β-amyloid in the vessel walls. Cerebral amyloid angiopathy commonly co-occurs with Alzheimer’s disease pathology in the ageing brain and increases the risk of Alzheimer’s disease dementia.
In the present study, we examined whether cerebral amyloid angiopathy influences tau deposition and cognitive decline independently or synergistically with parenchymal β-amyloid burden. Secondly, we examined whether tau burden mediates the association between cerebral amyloid angiopathy and cognitive decline. We included data from autopsied subjects recruited from one of three longitudinal clinical–pathological cohort studies: the Rush Memory and Aging Project, the Religious Orders Study and the Minority Aging Research Study. Participants completed annual clinical and cognitive evaluations and underwent brain autopsy. Cerebral amyloid angiopathy pathology was rated as none, mild, moderate or severe. Bielschowsky silver stain was used to visualize neuritic β-amyloid plaques and neurofibrillary tangles. We used linear regression and linear mixed models to test independent versus interactive associations of cerebral amyloid angiopathy and neuritic plaque burden with tau burden and longitudinal cognitive decline, respectively. We used causal mediation models to examine whether tau mediates the association between cerebral amyloid angiopathy and cognitive decline. The study sample included 1722 autopsied subjects (age at baseline = 80.2 ± 7.1 years; age at death = 89.5 ± 6.7 years; 68% females).
Cerebral amyloid angiopathy interacted with neuritic plaques to accelerate tau burden and cognitive decline. Specifically, those with more severe cerebral amyloid angiopathy pathology and higher levels of neuritic plaque burden had greater tau burden and faster cognitive decline. We also found that tau mediated the association between cerebral amyloid angiopathy and cognitive decline among participants with higher neuritic plaque burden. In summary, more severe levels of cerebral amyloid angiopathy and higher parenchymal β-amyloid burden interacted to promote cognitive decline indirectly via tau deposition. These results highlight the dynamic interplay between cerebral amyloid angiopathy and Alzheimer’s disease pathology in accelerating progression toward dementia. These findings have implications for Alzheimer’s disease clinical trials and therapeutic development.
Pregabalin improves axon regeneration and motor outcome in a rodent stroke model
Authors: Kugler Christof , Blank Nelli , Matuskova Hana , Thielscher Christian , Reichenbach Nicole , Lin Tien-Chen , Bradke Frank , Petzold Gabor C 
Published: June 2022

Abstract
Ischaemic stroke remains a leading cause of death and disability worldwide. Surviving neurons in the peri-infarct area are able to establish novel axonal projections to juxtalesional regions, but this regeneration is curtailed by a growth-inhibitory environment induced by cells such as reactive astrocytes in the glial scar. Here, we found that the astroglial synaptogenic cue thrombospondin-1 is upregulated in the peri-infarct area, and hence tested the effects of the anticonvulsant pregabalin, a blocker of the neuronal thrombospondin-1 receptor Alpha2delta1/2, in a mouse model of cortical stroke. Studying axonal projections after cortical stroke in mice by three-dimensional imaging of cleared whole-brain preparations, we found that pregabalin, when administered systemically for 5 weeks after stroke, augments novel peri-infarct motor cortex projections and improves skilled forelimb motor function. Thus, the promotion of axon elongation across the glial scar by pregabalin represents a promising target beyond the acute phase after stroke to improve structural and functional recovery.
Integrating earthworm movement and life history through dynamic energy budgets
Authors: Gergs Andre , Rakel Kim , Bussen Dino , Capowiez Yvan , Ernst Gregor , Roeben Vanessa 
Published: June 2022

AbstractEarthworms are considered ecosystem engineers and, as such, they are an integral part of the soil ecosystem. The movement of earthworms is significantly influenced by environmental factors such as temperature and soil properties. As movement may directly be linked to food ingestion, especially of endogeic species like Aporrectodea caliginosa, changes in those environmental factors also affect life history traits such as growth and reproduction.In our laboratory studies, earthworms showed a decrease in burrowing activity with decreasing moisture levels and, to some extent, the organic matter content. The burrowing activity of earthworms was also affected by temperature, for which the casts produced per earthworm was used as a proxy in laboratory experiments. We integrated changes in earthworm movement and life histories in response to temperature, soil organic matter content and the moisture level, as observed in our experiment and reported in the literature, through dynamic energy budget (DEB) modelling. The joint parametrization of a DEB model for A. caliginosa based on movement and life history data revealed that food ingestion via movement is an integral part of the earthworms’ energy budgets. Our findings highlight the importance of soil properties to be considered in the model development for earthworms. Furthermore, by understanding and incorporating the effect of environmental factors on the physiology, this mechanistic approach can help assess the impact of environmental changes such as temperature rise or drought.
The European Registry for Patients with Mechanical Circulatory Support (EUROMACS): third Paediatric (Paedi-EUROMACS) report
Authors: de By Theo M M H , Schweiger Martin , Hussain Hina , Amodeo Antonio , Martens Thomas , Bogers Ad J J C , Damman Kevin , Gollmann-Tepeköylü Can , Hulman Michael , Iacovoni Attilio , Krämer Ulrike , Loforte Antonio , Napoleone Carlo Pace , Němec Petr , Netuka Ivan , Özbaran Mustafa , Polo Luz , Pya Yuri , Ramjankhan Faiz , Sandica Eugen , Sliwka Joanna , Stiller Brigitte , Kadner Alexander , Franceschini Alessio , Thiruchelvam Timothy , Zimpfer Daniel , Meyns Bart , Berger Felix , Miera Oliver 
Published: June 2022

Abstract

OBJECTIVES
A third paediatric report has been generated from the European Registry for Patients with Mechanical Circulatory Support (EUROMACS). The purpose of EUROMACS, which is operated by the European Association for Cardio-Thoracic Surgery, is to gather data related to durable mechanical circulatory support for scientific purposes and to publish reports with respect to the course of mechanical circulatory support therapy. Since the first report issued, efforts to increase compliance and participation have been extended. Additionally, the data provided the opportunity to analyse patients of younger age and lower weight.

METHODS
Participating hospitals contributed pre-, peri- and long-term postoperative data on mechanical circulatory support implants to the registry. Data for all implants in paediatric patients (&lt;19 years of age) performed from 1 January 2000 to 31 December 2020 were analysed. This report includes updates of patient characteristics, implant frequency, outcome (including mortality rates, transplants and recovery rates) as well as adverse events including neurological dysfunction, device malfunction, major infection and bleeding.

RESULTS
Twenty-five hospitals contributed 537 registered implants in 480 patients. The most frequent aetiology of heart failure was any form of cardiomyopathy (59%), followed by congenital heart disease and myocarditis (15% and 14%, respectively). Competing outcomes analysis revealed that a total of 86% survived to transplant or recovery or are ongoing; at the 2-year follow-up examination, 21.9% died while on support. At 12 months, 45.1% received transplants, 7.5% were weaned from their device and 20.8% died. The 3-month adverse events rate was 1.59 per patient-year for device malfunction including pump exchange, 0.7 for major bleeding, 0.78 for major infection and 0.71 for neurological events.

CONCLUSIONS
The overall survival rate was 79.2% at 12 months following ventricular assist device implant. The comparison of survival rates of the early and later eras shows no significant difference. A focus on specific subgroups showed that survival was less in patients of younger age (&lt;1 year of age; P = 0.01) and lower weight (&lt;20 kg; P = 0.015). Transplant rates at 6 months continue to be low (33.2%).
A circular RNA derived from the insulin receptor locus protects against doxorubicin-induced cardiotoxicity
Authors: Lu Dongchao , Chatterjee Shambhabi , Xiao Ke , Riedel Isabelle , Huang Cheng-Kai , Costa Alessia , Cushman Sarah , Neufeldt Dimyana , Rode Laura , Schmidt Arne , Juchem Malte , Leonardy Julia , Büchler Gwen , Blume Jonas , Gern Olivia-Luise , Kalinke Ulrich , Wen Tan Wilson Lek , Foo Roger , Vink Aryan , van Laake Linda W , van der Meer Peter , Bär Christian , Thum Thomas 
Published: June 2022

Abstract

Aims
Cardiotoxicity leading to heart failure (HF) is a growing problem in many cancer survivors. As specific treatment strategies are not available, RNA discovery pipelines were employed and a new and powerful circular RNA (circRNA)-based therapy was developed for the treatment of doxorubicin-induced HF.

Methods and results
The circRNA sequencing was applied and the highly species-conserved circRNA insulin receptor (Circ-INSR) was identified, which participates in HF processes, including those provoked by cardiotoxic anti-cancer treatments. Chemotherapy-provoked cardiotoxicity leads to the down-regulation of Circ-INSR in rodents and patients, which mechanistically contributes to cardiomyocyte cell death, cardiac dysfunction, and mitochondrial damage. In contrast, Circ-INSR overexpression prevented doxorubicin-mediated cardiotoxicity in both rodent and human cardiomyocytes in vitro and in a mouse model of chronic doxorubicin cardiotoxicity. Breast cancer type 1 susceptibility protein (Brca1) was identified as a regulator of Circ-INSR expression. Detailed transcriptomic and proteomic analyses revealed that Circ-INSR regulates apoptotic and metabolic pathways in cardiomyocytes. Circ-INSR physically interacts with the single-stranded DNA-binding protein (SSBP1) mediating its cardioprotective effects under doxorubicin stress. Importantly, in vitro transcribed and circularized Circ-INSR mimics also protected against doxorubicin-induced cardiotoxicity.

Conclusion
Circ-INSR is a highly conserved non-coding RNA which is down-regulated during cardiotoxicity and cardiac remodelling. Adeno-associated virus and circRNA mimics-based Circ-INSR overexpression prevent and reverse doxorubicin-mediated cardiomyocyte death and improve cardiac function. The results of this study highlight a novel and translationally important Circ-INSR-based therapeutic approach for doxorubicin-induced cardiac dysfunction.
Seismic surface wave focal spot imaging: numerical resolution experiments
Authors: Giammarinaro Bruno , Tsarsitalidou Christina , Hillers Gregor , de Rosny Julien , Seydoux Léonard , Catheline Stefan , Campillo Michel , Roux Philippe 
Published: June 2022

SUMMARY
Numerical experiments of seismic wave propagation in a laterally homogeneous layered medium explore subsurface imaging at subwavelength distances for dense seismic arrays. We choose a time-reversal approach to simulate fundamental mode Rayleigh surface wavefields that are equivalent to the cross-correlation results of three-component ambient seismic field records. We demonstrate that the synthesized 2-D spatial autocorrelation fields in the time domain support local or so-called focal spot imaging. Systematic tests involving clean isotropic surface wavefields but also interfering body wave components and anisotropic incidence assess the accuracy of the phase velocity and dispersion estimates obtained from focal spot properties. The results suggest that data collected within half a wavelength around the origin is usually sufficient to constrain the used Bessel functions models. Generally, the cleaner the surface wavefield the smaller the fitting distances that can be used to accurately estimate the local Rayleigh wave speed. Using models based on isotropic surface wave propagation we find that phase velocity estimates from vertical–radial component data are less biased by P-wave energy compared to estimates obtained from vertical–vertical component data, that even strong anisotropic surface wave incidence yields phase velocity estimates with an accuracy of 1 per cent or better, and that dispersion can be studied in the presence of noise. Estimates using a model to resolve potential medium anisotropy are significantly biased by anisotropic surface wave incidence. The overall accurate results obtained from near-field measurements using isotropic medium assumptions imply that dense array seismic Rayleigh wave focal spot imaging can increase the depth sensitivity compared to ambient noise surface wave tomography. The analogy to elastography focal spot medical imaging implies that a high station density and clean surface wavefields support subwavelength resolution of lateral medium variations.
Nontargeted metabolomics-based multiple machine learning modeling boosts early accurate detection for citrus Huanglongbing
Authors: Wang Zhixin , Niu Yue , Vashisth Tripti , Li Jingwen , Madden Robert , Livingston Taylor Shea , Wang Yu 
Published: June 2022

Abstract
Early accurate detection of crop disease is extremely important for timely disease management. Huanglongbing (HLB), one of the most destructive citrus diseases, has brought about severe economic losses for the global citrus industry. The direct strategies for HLB identification, such as quantitative real-time polymerase chain reaction (qPCR) and chemical staining, are robust for the symptomatic plants but powerless for the asymptomatic ones at the early stage of affection. Thus, it is very necessary to develop a practical method used for the early detection of HLB. In this study, a novel method combining ultra-high performance liquid chromatography/mass spectrometry (UHPLC/MS)-based nontargeted metabolomics and machine learning (ML) was developed for conducting the early detection of HLB for the first time. Six ML algorithms were selected to build the classifiers. Regularized logistic regression (LR-L2) and gradient-boosted decision tree (GBDT) outperformed with the highest average accuracy of 95.83% to not only classify healthy and infected plants but identify significant features. The proposed method proved to be practical for early detection of HLB, which tackled the shortcomings of low sensitivity in the conventional methods and avoid the problems such as lighting condition interference in spectrum/image recognition-based ML methods. Additionally, the discovered biomarkers were verified by the metabolic pathway analysis and content change analysis, which was remarkably consistent with the previous reports.
Fate of dissected arch vessels by adventitial inversion technique for acute type A aortic dissection repair
Authors: Takeuchi Yuriko , Suzuki Ryo , Kurazumi Hiroshi , Nawata Ryosuke , Yokoyama Toshiki , Tsubone Sarii , Matsuno Yutaro , Mikamo Akihito , Hamano Kimikazu 
Published: June 2022

Abstract

OBJECTIVES
The adventitial inversion technique is used widely for aortic reconstruction for acute type A aortic dissection, as it easily controls the bleeding at anastomotic sites and closes the patent false lumen. However, this technique for arch vessel reconstruction has not been previously reported. Therefore, we applied the adventitial inversion technique for dissected arch vessel reconstruction to close the patent false lumen.

METHODS
Among 57 consecutive patients who underwent emergency surgical treatment for acute type A aortic dissection from July 2006 to July 2012, the adventitial inversion technique for the dissected arch vessels was performed in 26 patients (42 arch vessel stumps). The patency and morphologic change of the false lumen of the arch vessels were evaluated using contrast-enhanced computed tomography.

RESULTS
Overall, 2 hospital deaths were recorded, and the hospital mortality rate was 4%. No postoperative cerebral strokes and reoperations due to bleeding occurred. Follow-up by contrast-enhanced computed tomography was completed in 24 patients (37 stumps) with a mean duration of 99 ± 35 months. The postoperative closure rate of the false lumen after adventitial inversion was 86%, which was higher than when adventitial inversion was not used. No adverse events including stroke occurred during follow-up period.

CONCLUSIONS
This technique facilitates the closure of the false lumen of dissected arch vessels and might improve clinical outcomes.
Merger histories of brightest group galaxies from MUSE stellar kinematics
Authors: Loubser S I , Lagos P , Babul A , O’Sullivan E , Jung S L , Olivares V , Kolokythas K 
Published: June 2022

ABSTRACT
Using Multi-Unit Spectroscopic Explorer (MUSE) spectroscopy, we analyse the stellar kinematics of 18 brightest group early-type (BGEs) galaxies, selected from the Complete Local-Volume Groups Sample (CLoGS). We analyse the kinematic maps for distinct features, and measure specific stellar angular momentum within one effective radius (λe). We classify the BGEs as fast (10/18) or slow (8/18) rotators, suggesting at least two different evolution paths. We quantify the anticorrelation between higher order kinematic moment h3 and V/σ (using the ξ3 parameter), and the kinematic misalignment angle between the photometric and kinematic position angles (using the Ψ parameter), and note clear differences between these parameter distributions of the fast and slow rotating BGEs. We find that all 10 of our fast rotators are aligned between the morphological and kinematical axis, consistent with an oblate galaxy shape, whereas the slow rotators are spread over all three classes: oblate (1/8), triaxial (4/8), and prolate (3/8). We place the results into context using known radio properties, X-ray properties, and observations of molecular gas. We find consistent merger histories inferred from observations for the fast-rotating BGEs, indicating that they experienced gas-rich mergers or interactions, and these are very likely the origin of the cold gas. Observational evidence for the slow rotators is consistent with gas-poor mergers. For the slow rotators with cold gas, all evidence point to cold gas cooling from the intragroup medium.
Quality Improvement Evaluation of a Veterans’ Palliative Care Telehealth Music Therapy Program
Authors: Zeiser Shelly R 
Published: June 2022

AbstractMusic therapy is an important psychosocial aspect of hospice and palliative care programs to address pain, grief, and anxiety. The COVID-19 pandemic introduced new challenges to psychosocial therapies in palliative care, including the inability of families to be at the bedside of seriously ill patients, and the need to provide services remotely through video technology. Due to this sudden shift in service delivery, music therapists adapted without research evidence or evaluation of service quality. This evidence-based quality improvement (QI) evaluation examined the program effectiveness of music therapy telehealth services at one Veterans Affairs Medical Center (VAMC) for patients in palliative care, their family members, and VAMC staff during this time of societal grief, anxiety, and isolation. Evaluation metrics included patient (n = 39), staff (n = 27), and family member (n = 3) responses to QI surveys, and analysis of journal entries from key stakeholders (i.e., music therapist, nurse case manager, palliative care physician). We conducted a content analysis of QI surveys and completed the first and second cycle coding of journal entries. Results from the QI survey indicated that music therapy telehealth provided affective and interpersonal benefits, and increased compliance with other therapies. Reflections from key stakeholders included clinical recommendations for service implementation and descriptions of the influence of the telehealth modality on the therapeutic relationship. Findings suggested that music therapy telehealth services can provide psychosocial support for veterans, families, and staff in palliative care. QI research may be utilized to provide helpful ongoing feedback regarding clinical effectiveness.
RUV-III-NB: normalization of single cell RNA-seq data
Authors: Salim Agus , Molania Ramyar , Wang Jianan , De Livera Alysha , Thijssen Rachel , Speed Terence P 
Published: June 2022

AbstractNormalization of single cell RNA-seq data remains a challenging task. The performance of different methods can vary greatly between datasets when unwanted factors and biology are associated. Most normalization methods also only remove the effects of unwanted variation for the cell embedding but not from gene-level data typically used for differential expression (DE) analysis to identify marker genes. We propose RUV-III-NB, a method that can be used to remove unwanted variation from both the cell embedding and gene-level counts. Using pseudo-replicates, RUV-III-NB explicitly takes into account potential association with biology when removing unwanted variation. The method can be used for both UMI or read counts and returns adjusted counts that can be used for downstream analyses such as clustering, DE and pseudotime analyses. Using published datasets with different technological platforms, kinds of biology and levels of association between biology and unwanted variation, we show that RUV-III-NB manages to remove library size and batch effects, strengthen biological signals, improve DE analyses, and lead to results exhibiting greater concordance with independent datasets of the same kind. The performance of RUV-III-NB is consistent and is not sensitive to the number of factors assumed to contribute to the unwanted variation.
Quality-controlled R-loop meta-analysis reveals the characteristics of R-loop consensus regions
Authors: Miller Henry E , Montemayor Daniel , Abdul Jebriel , Vines Anna , Levy Simon A , Hartono Stella R , Sharma Kumar , Frost Bess , Chédin Frédéric , Bishop Alexander J R 
Published: June 2022

AbstractR-loops are three-stranded nucleic acid structures formed from the hybridization of RNA and DNA. While the pathological consequences of R-loops have been well-studied to date, the locations, classes, and dynamics of physiological R-loops remain poorly understood. R-loop mapping studies provide insight into R-loop dynamics, but their findings are challenging to generalize. This is due to the narrow biological scope of individual studies, the limitations of each mapping modality, and, in some cases, poor data quality. In this study, we reprocessed 810 R-loop mapping datasets from a wide array of biological conditions and mapping modalities. From this data resource, we developed an accurate R-loop data quality control method, and we reveal the extent of poor-quality data within previously published studies. We then identified a set of high-confidence R-loop mapping samples and used them to define consensus R-loop sites called ‘R-loop regions’ (RL regions). In the process, we identified a stark divergence between RL regions detected by S9.6 and dRNH-based mapping methods, particularly with respect to R-loop size, location, and colocalization with RNA binding factors. Taken together, this work provides a much-needed method to assess R-loop data quality and offers novel context regarding the differences between dRNH- and S9.6-based R-loop mapping approaches.