bluuebunny/crossref_metadata_2025_split huggingface dataset:
Therapeutic applications of nanomedicine in metabolic diseases by targeting the endothelium
Authors: Hou L , Zhang M , Liu L , Zhong Q , Xie M , Zhao G 
Published: September 2022

Abstract
The endothelial cells not only constitute the barrier between the blood and interstitial space, but also actively regulate vascular tone, blood flow and the function of adjacent parenchymal cells. The close anatomical relationship between endothelial cells and highly vascularized metabolic organs suggests that the crosstalk between these units is vital for systemic metabolic homeostasis. Here, we review recent studies about the pivotal role of endothelial cells in metabolic diseases. Specifically, we discuss how the dysfunction of endothelial cells directly contributes to the development of insulin resistance, type 2 diabetes mellitus, atherosclerosis and non-alcoholic fatty liver disease via communication with parenchymal cells. Furthermore, although many biological macromolecules have been shown to ameliorate the progression of metabolic diseases by improving endothelial function, the low solubility, poor bioavailability or lack of specificity of these molecules limit their clinical application. Given the advantages in drug delivery of nanomedicine, we focus on summarizing the reports that improving endothelial dysfunction through nanomedicine-based therapies provides an opportunity for preventing metabolic diseases.
Mindfulness-based stress reduction to improve depression, pain and high patient global assessment in controlled rheumatoid arthritis
Authors: Gaboury Isabelle , Dobkin Patricia L , Gendron Françoise , Roberge Pasquale , Beaulieu Marie-Claude , Carrier Nathalie , Dagenais Pierre , Roux Sophie , Boire Gilles 
Published: September 2022

Abstract

Objective
The aim was to improve distressing patient-reported outcomes (PROs) that persisted in RA patients with clinically controlled inflammation (controlled RA).

Methods
In a pragmatic pilot study, we offered mindfulness-based stress reduction (MBSR), a group intervention, to controlled RA patients who had high (≥16) Centre for Evaluation Studies depression (CES-D) scores and/or patient general assessment of disease activity (PGA) at least 2/10 larger than evaluator general assessment (EGA) (PGA-EGA: Delta). Evaluations before, 6 and 12 months after MBSR included CES-D, PGA, modified HAQ, simple disease activity index (SDAI), anxiety (general anxiety disorder 7; GAD-7), coping strategies (coping with health injuries and problems; CHIP), sleep disturbance and pain. Facilitators and obstacles to recruitment and participation were identified. A subset of patients was interviewed for qualitative analysis of their experience.

Results
Out of 306 screened patients, 65 were referred, 39 (60%) agreed and 28 (43%) completed MBSR. Anticipated burden, timing and frequency of group meetings, commuting issues, age extremes and co-morbidities were barriers to participation. Up to 12 months after MBSR, anxiety, depression, emotion-oriented coping, sleep and function significantly improved. Nonetheless, no significant impact was observed on pain, PGA, Delta or SDAI. The interviews revealed that benefits, including integration of effective coping strategies, were maintained.

Conclusion
We addressed MBSR feasibility issues and selection of outcomes in controlled RA patients with distressing PROs. For patients who chose to participate in MBSR, lasting benefits were evident for anxiety, depression, sleep and function. Larger studies are required to evaluate the weaker impact of MBSR on RA-related pain and PGA.
Promoting effect of a calcium-responsive self-assembly β-sheet peptide on collagen intrafibrillar mineralization
Authors: Li Zhongcheng , Ren Qian , Han Sili , Ding Longjiang , Qin Xi , Hu Die , He Ting , Tian Tian , Lu Ziqian , Zhang Linglin 
Published: September 2022

Abstract
Recently, a de novo synthetic calcium-responsive self-assembly β-sheet peptide ID8 (Ile-Asp-Ile-Asp-Ile-Asp-Ile-Asp) has been developed to serve as the template inducing hydroxyapatite nucleation. The aim of this study was to evaluate the effect of ID8 on intrafibrillar mineralization of collagen making full use of its self-assembly ability. The mineralization experiments were carried out in vitro on both bare Type I collagen and fully demineralized dentin samples. The calcium-responsive self-assembly of ID8 was revealed by circular dichroism spectrum, 8-anilino-1-naphthalenesulfonic acid ammonium salt hydrate assay, attenuated total reflection Fourier transform infrared spectrum (ATR-FTIR) and transmission electron microscope (TEM). Polyacrylic acid (450 kDa) with a concentration of 100 μg ml−1 was selected as the nucleation inhibitor based on the determination of turbidimetry and TEM with selected area electron diffraction (TEM-SAED). The results showed that collagen intrafibrillar mineralization was significantly promoted with the pretreatment of self-assembly ID8 detected by TEM-SAED, SEM, X-ray diffraction and ATR-FTIR. The pretreatment of collagen utilizing self-assembly ID8 not only enhanced intermolecular hydrogen bonding but also contributed to calcium retention inside collagen and significantly increased the hydrophilicity of collagen. These results indicated that peptides with self-assembly properties like ID8 are expected to be potential tools for biomimetic mineralization of collagen.
Semi-3D cultures using Laminin 221 as a coating material for human induced pluripotent stem cells
Authors: Nakashima Yoshiki , Yoshida Shinsuke , Tsukahara Masayoshi 
Published: September 2022

Abstract
It was previously believed that human induced pluripotent stem cells (hiPSCs) did not show adhesion to the coating material Laminin 221, which is known to have specific affinity for cardiomyocytes. In this study, we report that human mononuclear cell-derived hiPSCs, established with Sendai virus vector, form peninsular-like colonies rather than embryonic stem cell-like colonies; these peninsular-like colonies can be passaged more than 10 times after establishment. Additionally, initialization-deficient cells with residual Sendai virus vector adhered to the coating material Laminin 511 but not to Laminin 221. Therefore, the expression of undifferentiated markers tended to be higher in hiPSCs established on Laminin 221 than on Laminin 511. On Laminin 221, hiPSCs15M66 showed a semi-floating colony morphology. The expression of various markers of cell polarity was significantly lower in hiPSCs cultured on Laminin 221 than in hiPSCs cultured on Laminin 511. Furthermore, 201B7 and 15M66 hiPSCs showed 3D cardiomyocyte differentiation on Laminin 221. Thus, the coating material Laminin 221 provides semi-floating culture conditions for the establishment, culture and induced differentiation of hiPSCs.
Functional biomaterials for tendon/ligament repair and regeneration
Authors: Tang Yunkai , Wang Zhen , Xiang Lei , Zhao Zhenyu , Cui Wenguo 
Published: September 2022

AbstractWith an increase in life expectancy and the popularity of high-intensity exercise, the frequency of tendon and ligament injuries has also increased. Owing to the specificity of its tissue, the rapid restoration of injured tendons and ligaments is challenging for treatment. This review summarizes the latest progress in cells, biomaterials, active molecules and construction technology in treating tendon/ligament injuries. The characteristics of supports made of different materials and the development and application of different manufacturing methods are discussed. The development of natural polymers, synthetic polymers and composite materials has boosted the use of scaffolds. In addition, the development of electrospinning and hydrogel technology has diversified the production and treatment of materials. First, this article briefly introduces the structure, function and biological characteristics of tendons/ligaments. Then, it summarizes the advantages and disadvantages of different materials, such as natural polymer scaffolds, synthetic polymer scaffolds, composite scaffolds and extracellular matrix (ECM)-derived biological scaffolds, in the application of tendon/ligament regeneration. We then discuss the latest applications of electrospun fiber scaffolds and hydrogels in regeneration engineering. Finally, we discuss the current problems and future directions in the development of biomaterials for restoring damaged tendons and ligaments.
Recent advances of natural and bioengineered extracellular vesicles and their application in vascular regeneration
Authors: Xu Jianxiong , Wang Jinxuan , Chen Yidan , Hou Yuanfang , Hu Jianjun , Wang Guixue 
Published: September 2022

AbstractThe progression of cardiovascular diseases such as atherosclerosis and myocardial infarction leads to serious vascular injury, highlighting the urgent need for targeted regenerative therapy. Extracellular vesicles (EVs) composed of a lipid bilayer containing nuclear and cytosolic materials are relevant to the progression of cardiovascular diseases. Moreover, EVs can deliver bioactive cargo in pathological cardiovascular and regulate the biological function of recipient cells, such as inflammation, proliferation, angiogenesis and polarization. However, because the targeting and bioactivity of natural EVs are subject to several limitations, bioengineered EVs have achieved wide advancements in biomedicine. Bioengineered EVs involve three main ways to acquire including (i) modification of the EVs after isolation; (ii) modification of producer cells before EVs’ isolation; (iii) synthesize EVs using natural or modified cell membranes, and encapsulating drugs or bioactive molecules into EVs. In this review, we first summarize the cardiovascular injury-related disease and describe the role of different cells and EVs in vascular regeneration. We also discuss the application of bioengineered EVs from different producer cells to cardiovascular diseases. Finally, we summarize the surface modification on EVs which can specifically target abnormal cells in injured vascular.
KineticMSI, an R-based framework for relative quantification of spatial isotopic incorporation in mass spectrometry imaging experiments
Authors: Farzana Farheen , Martinez-Seidel Federico , Hannan Anthony J. , Hatters Danny , Boughton Berin A 
Published: September 2022

ABSTRACTKinetic mass spectrometry imaging (kMSI) integrates imaging-MS with stable isotope labelling to elucidate metabolic fluxes in a spatiotemporal manner. kMSI studies are hampered by high volumes of complex data and a lack of computational workflows for data analysis that additionally address replicated experiments. To meet these challenges, we developed KineticMSI, an open-source R-based tool for processing and analyzing kMSI datasets. KineticMSI includes statistical tools to quantify tracer incorporation across replicated treatment groups spatially in tissues. It allows users to make data-driven decisions by elucidating affected pathways associated with changes in metabolic turnover. We demonstrate a validation of our method by identifying metabolic changes in the hippocampus of a transgenic Huntington’s disease (HD) mouse model as compared to wild-type mice. We discovered significant changes in metabolism of neuronal cell body lipids (phosphatidylinositol and cardiolipins) in HD mice, previously masked by conventional statistical approaches that compare mean tracer incorporation across brain regions.
ATRAP - Accurate T cell Receptor Antigen Pairing through data-driven filtering of sequencing information from single-cells
Authors: Povlsen Helle Rus , Bentzen Amalie Kai , Kadivar Mohammad , Jessen Leon Eyrich , Hadrup Sine Reker , Nielsen Morten 
Published: September 2022

AbstractNovel single-cell based technologies hold the promise of matching T cell receptor (TCR) sequences with their cognate peptide-MHC recognition motif in a high-throughput manner. Parallel capture of TCR transcripts and peptide-MHC is enabled through the use of reagents labeled with DNA barcodes. However, analysis and annotation of such single-cell sequencing (SCseq) data is challenged by dropout, random noise, and other technical artifacts that must be carefully handled in the downstream processing steps.We here propose a rational, data-driven method termed ATRAP (Accurate T cell Receptor Antigen Paring) to deal with these challenges, filtering away likely artifacts, and enable the generation of large sets of TCR-pMHC sequence data with a high degree of specificity and sensitivity, thus outputting the most likely pMHC target per T cell. We have validated this approach across 10 different virus-specific T cell responses in 16 healthy donors. Across these samples we have identified up to 1494 high-confident TCR-pMHC pairs derived from 4135 single-cells.
Transcriptional and clonal characterization of cytotoxic CD8+ T cells in crescentic glomerulonephritis
Authors: Zhao Yu , Mueller Anne , Cicek Hakan , Paust Hans-Joachim , Sivayoganathan Amirrtavarshni , Linke Alexandra , Wegscheid Claudia , Wiech Thorsten , Huber Tobias B. , Meyer-Schwesinger Catherine , Bonn Stefan , Panzer Ulf , Tiegs Gisa , Krebs Christian F. , Neumann Katrin 
Published: September 2022

AbstractCrescentic glomerulonephritis (cGN), most often caused by anti-neutrophil cytoplasmic autoantibody (ANCA)-associated vasculitis, is an aggressive form of immune-mediated kidney disease and represents an important cause of end-stage renal failure. Although it is known that T cells infiltrate the kidney in cGN, their precise role in autoimmune kidney disease remains to be fully elucidated. By performing single-cell analysis, we identified activated, clonally expanded CD8+ T cells with a cytotoxic gene expression profile in the kidneys of patients with ANCA-associated cGN. Using an experimental model of cGN, we demonstrated that clonally expanded murine CD8+ T cells highly expressed the cytotoxic molecule granzyme B. Moreover, lack of CD8+ T cells or granzyme B resulted in an ameliorated course of cGN. This was associated with reduced cleaved caspase-3 induction in renal tissue cells. Our data indicate that clonally expanded cytotoxic CD8+ T cells have a previously unrecognized pathogenic function in aggravating immune-mediated kidney disease.
Age and musical training effects on auditory short-term, long-term, and working memory
Authors: Rubio G. Fernández , Olsen E. R. , Klarlund M. , Mallon O. , Carlomagno F. , Vuust P. , Kringelbach M.L. , Brattico E. , Bonetti L. 
Published: September 2022

AbstractCognitive aging is characterized by a gradual decline in cognitive functioning. One of the most worrying deficits for older adults is a decreased capacity to memorize and remember new information. In this study, we assessed auditory short-term memory (STM), long-term memory (LTM), and working memory (WM) abilities of young and older adults using musical and numerical tasks. Additionally, we measured musical training and tested whether this capacity influences memory performance. Regarding STM, young adults scored higher than older adults when making same/different judgements of rhythmic sequences, but their performance was alike for melodic sequences. Higher levels of musical training were associated with enhanced STM capacity for melodic sequences. In relation to LTM, young adults outperformed older adults in identifying new musical sequences. Moreover, younger and older individuals with high musical training outperformed those with low musical training. No group differences were found in the recognition of previously memorized musical sequences. Finally, we found no group differences in WM capacity, although there was a non-significant tendency for young adults to outperform older adults. Overall, we found that aging differently affects several types of auditory memory and that, for certain musical memory tasks, a higher level of musical training provides significant advantages.
Multivariable Graphical User Interface for Simulation of Tethered Particle Motion
Authors: Ramdin Khovesh A. , Hackl Markus , Chundawat Shishir P. S. 
Published: September 2022

AbstractThe analysis of particles bound to a surface by flexible tethers can facilitate understanding of various biophysical phenomena (e.g., molecular dynamics of DNA-protein or protein-ligand binding interactions, DNA extensibility and polymer biophysics). Being able to model such systems theoretically can aid in understanding experimentally observed motions and furthermore the limitations of such models can provide insight into modeling complex systems that basic theory sometimes cannot account for. The simulation of tethered particle motion (TPM) allows for efficient analysis of complex behaviors exhibited by such systems, however this type of experiment is rarely taught in undergraduate science classes. We have developed a MATLAB simulation package intended to be used in academic contexts to concisely model and graphically represent the behavior of different tether-particle systems. We show how analysis of the simulation results can be used in biophysical research employing single molecule force spectroscopy (SMFS). Here, our simulation package is capable of modeling any given particle-tether-substrate system and allows the user to generate a parameter space with static and dynamic model components. Our simulation was successfully able to recreate generally observed experimental trends using a recently developed SMFS technique called Acoustic Force Spectroscopy (AFS). Further, the simulation was validated through consideration of the conservation of energy of the tether-bead system, trend analyses, and comparison of particle positional data from actual TPM in silico experiments conducted to simulate data with a parameter space similar to the AFS experimental setup. Overall, our TPM simulator and graphical user interface is suitable for use in an academic context and serves as a template for researchers to set up TPM simulations to mimic their specific SMFS experimental setup.
Rapid Identity and Quantity CQA Test for Multivalent mRNA Drug Product Formulations
Authors: Gao Rachel Y. , Riley Christine M. , Toth Evan , Blair Rebecca H. , Gerold Megan N. , McCormick Caitlin , Taylor Amber W. , Hu Tianjing , Rowlen Kathy L. , Dawson Erica D. 
Published: September 2022

ABSTRACTThe COVID-19 pandemic highlighted mRNA as a promising platform for vaccines and therapeutics. Many of the analytical tools used to characterize the critical quality attributes of mRNA are inherently singleplex and are not necessarily optimal from a labor and cost perspective. Here we demonstrate feasibility of a multiplexed platform (VaxArray) for efficient identity verification and concentration determination for both monovalent and multivalent mRNA formulations. A model system comprised of mRNA constructs for influenza hemagglutinin and neuraminidase was used to characterize the analytical performance metrics for a VaxArray mRNA assay. The assay presented herein had a time to result of less than 2 hours, required no PCR-based amplification nor extraction of mRNA from lipid nanoparticles, and exhibited high construct specificity that enabled application to the bivalent mixture. The sensitivity for influenza hemagglutinin and neuraminidase mRNA was sub-µg/mL, which is vaccine-relevant, and the average accuracy (%recovery) and precision were 104%±2%and 9%±2%, respectively.
Re-expression of CA1 and entorhinal activity patterns preserves temporal context memory at long timescales
Authors: Zou Futing , Guo Wanjia , Allen Emily J. , Wu Yihan , Charest Ian , Naselaris Thomas , Kay Kendrick , Kuhl Brice A. , Hutchinson J. Benjamin , DuBrow Sarah 
Published: September 2022

ABSTRACTConverging, cross-species evidence indicates that memory for time is supported by hippocampal area CA1 and entorhinal cortex. However, limited evidence characterizes how these regions preserve temporal memories over long timescales (e.g., months). At long timescales, memoranda may be encountered in multiple temporal contexts, potentially creating interference. Here, using 7T fMRI, we measured CA1 and entorhinal activity patterns as human participants viewed thousands of natural scene images distributed, and repeated, across many months. We show that memory for an image’s original temporal context was predicted by the degree to which CA1/entorhinal activity patterns from the first encounter with an image were re-expressed during re-encounters occurring minutes to months later. Critically, temporal memory signals were dissociable from predictors of recognition confidence, which were carried by distinct medial temporal lobe expressions. These findings suggest that CA1 and entorhinal cortex preserve temporal memories across long timescales by coding for and reinstating temporal context information.
Associations between thinner retinal neuronal layers and suboptimal brain structural integrity: Are the eyes a window to the brain?
Authors: Barrett-Young Ashleigh , Abraham Wickliffe C. , Cheung Carol Y. , Gale Jesse , Hogan Sean , Ireland David , Keenan Ross , Knodt Annchen R. , Melzer Tracy R. , Moffitt Terrie E. , Ramrakha Sandhya , Tham Yih Chung , Wilson Graham A. , Wong Tien Yin , Hariri Ahmad. R. , Poulton Richie 
Published: September 2022

AbstractWe investigated the extent to which measures of retinal neuronal thickness capture variability in the structural integrity of the brain in a large population-based cohort followed from birth to midlife. Using data from the Dunedin Multidisciplinary Health and Development Study (n=1037; analyticn=828, aged 45 years), we specifically tested for associations between optical coherence tomography-measured retinal neuronal layers and MRI-measured structural brain integrity. We found that Study members who had thinner retinal neuronal layers had thinner average cortex, smaller total cortical surface area, smaller subcortical grey matter volumes, larger volume of white matter hyperintensities as well as older looking brains. This suggests that retinal neuronal thickness reflects differences in midlife structural brain integrity consistent with accelerated cognitive decline and increased risk for later dementia, further supporting the proposition that the retina may be a biomarker of brain aging as early as midlife.