cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12887464
title: Salvianolic acid B combined with mesenchymal stem cells contributes to nucleus pulposus regeneration

description: To investigate whether salvianolic acid B is able to enhance repair of degenerated intervertebral discs by mesenchymal stem cells (MSCs) through the promotion of MSC differentiation into nucleus pulposus cells in a nucleus-pulposus-like environment and by enhancing the trophic effect of MSCs on residual nucleus pulposus cells (mediated by transforming growth factor-β1). Successful intervertebral disc degeneration models, established by aspiration of the nucleus pulposus in New Zealand white rabbits, were randomly divided into eight groups: Group A was treated with MSC transplantation. Group B was treated with MSC transplantation and salvianolic acid B, with the subgroups B1, B2, B3, and B4 receiving 0.01 mg/L, 0.1 mg/L, 1 mg/L, and 10 mg/L salvianolic acid B, respectively. Groups C and D were treated with phosphate buffer saline and sham graft, respectively. Group E was the normal control group. At the end of week 8, the type II collagen, proteoglycan, transforming growth factor-β1, and water contents in each group were examined by semi-quantitative immunohistochemistry, spectrophotometry, enzyme-linked immunosorbent assay, and magnetic resonance, respectively. The content of type II collagen, proteoglycan, transforming growth factor-β1, and water in groups B3 and B4 were significantly higher than those in group A (<i>p</i> &lt; 0.01). Salvianolic acid B (1 mg/L to 10 mg/L) plus MSC transplantation was more effective in repairing degenerated intervertebral discs than was stem cell transplantation alone.
DOI: 10.6084/m9.figshare.12887464.v2
title: Salvianolic acid B combined with mesenchymal stem cells contributes to nucleus pulposus regeneration

description: To investigate whether salvianolic acid B is able to enhance repair of degenerated intervertebral discs by mesenchymal stem cells (MSCs) through the promotion of MSC differentiation into nucleus pulposus cells in a nucleus-pulposus-like environment and by enhancing the trophic effect of MSCs on residual nucleus pulposus cells (mediated by transforming growth factor-β1). Successful intervertebral disc degeneration models, established by aspiration of the nucleus pulposus in New Zealand white rabbits, were randomly divided into eight groups: Group A was treated with MSC transplantation. Group B was treated with MSC transplantation and salvianolic acid B, with the subgroups B1, B2, B3, and B4 receiving 0.01 mg/L, 0.1 mg/L, 1 mg/L, and 10 mg/L salvianolic acid B, respectively. Groups C and D were treated with phosphate buffer saline and sham graft, respectively. Group E was the normal control group. At the end of week 8, the type II collagen, proteoglycan, transforming growth factor-β1, and water contents in each group were examined by semi-quantitative immunohistochemistry, spectrophotometry, enzyme-linked immunosorbent assay, and magnetic resonance, respectively. The content of type II collagen, proteoglycan, transforming growth factor-β1, and water in groups B3 and B4 were significantly higher than those in group A (<i>p</i> &lt; 0.01). Salvianolic acid B (1 mg/L to 10 mg/L) plus MSC transplantation was more effective in repairing degenerated intervertebral discs than was stem cell transplantation alone.
DOI: 10.6084/m9.figshare.8033723
title: Raman spectroscopy investigation shows that mineral maturity is greater in CD-1 than in C57BL/6 mice distal femurs after sexual maturity

description: <b><i>Purpose/Aim of the study</i></b>mice are the most often used pre-clinical lab models for studying the pathologies of bone mineralization. However, recent evidence suggests that two of the most often used mice strains (C57BL/6J and CD-1) might show differences in the bone mineralization process. This study sought to investigate the main compositional properties of bone tissue between nonpathological C57BL/6J and CD-1 murine knee joints. <b><i>Materials and Methods</i></b>: to this end, medial and lateral condylar subchondral bones and the adjacent diaphyseal cortical bone of 13 murine femurs (n = 7 C57BL/6J and n = 6 CD-1 at eight weeks old, just after sexual maturation) were analyzed with ex vivo Raman spectroscopy. <i><b>Results</b></i>: regardless of the bone tissue analyzed, our results showed that CD-1 laboratory mice present a more mature mineral phase than C57BL/6J laboratory mice, but present no difference in maturity of the collagen phase. For both strains, the subchondral bone of the medial condylar and cortical bone from the diaphysis have similar compositional properties, and CD-1 presents less variation than C57BL/6J. Furthermore, we depict a novel parametric relationship between the crystallinity and carbonate-to-amide-I ratio that might help in deciphering the mineral maturation process that occurs during bone’s mineralization. <b><i>Conclusions</i></b>: Our results suggest that the timing of bone maturation might be different between non-pathological C57BL/6J and CD-1 murine knee femurs.
DOI: 10.6084/m9.figshare.8033723.v1
title: Raman spectroscopy investigation shows that mineral maturity is greater in CD-1 than in C57BL/6 mice distal femurs after sexual maturity

description: <b><i>Purpose/Aim of the study</i></b>mice are the most often used pre-clinical lab models for studying the pathologies of bone mineralization. However, recent evidence suggests that two of the most often used mice strains (C57BL/6J and CD-1) might show differences in the bone mineralization process. This study sought to investigate the main compositional properties of bone tissue between nonpathological C57BL/6J and CD-1 murine knee joints. <b><i>Materials and Methods</i></b>: to this end, medial and lateral condylar subchondral bones and the adjacent diaphyseal cortical bone of 13 murine femurs (n = 7 C57BL/6J and n = 6 CD-1 at eight weeks old, just after sexual maturation) were analyzed with ex vivo Raman spectroscopy. <i><b>Results</b></i>: regardless of the bone tissue analyzed, our results showed that CD-1 laboratory mice present a more mature mineral phase than C57BL/6J laboratory mice, but present no difference in maturity of the collagen phase. For both strains, the subchondral bone of the medial condylar and cortical bone from the diaphysis have similar compositional properties, and CD-1 presents less variation than C57BL/6J. Furthermore, we depict a novel parametric relationship between the crystallinity and carbonate-to-amide-I ratio that might help in deciphering the mineral maturation process that occurs during bone’s mineralization. <b><i>Conclusions</i></b>: Our results suggest that the timing of bone maturation might be different between non-pathological C57BL/6J and CD-1 murine knee femurs.
DOI: 10.6084/m9.figshare.12850124.v1
title: Multiomics analysis of the mdx/mTR mouse model of Duchenne muscular dystrophy

description: Duchenne muscular dystrophy (DMD) is a progressive neuromuscular disease characterized by extensive muscle weakness. Patients with DMD lack a functional dystrophin protein, which transmits force and organizes the cytoskeleton of skeletal muscle. Multiomic studies have been proposed as a way to obtain novel insight about disease processes from preclinical models, and we used this approach to study pathological changes in dystrophic muscles. We evaluated hindlimb muscles of male mdx/mTR mice, which lack a functional dystrophin protein and have deficits in satellite cell abundance and proliferative capacity. Wild type (WT) C57BL/6 J mice served as controls. Muscle fiber contractility was measured, along with changes in the transcriptome using RNA sequencing, and in the proteome, metabolome, and lipidome using mass spectrometry. While mdx/mTR mice displayed gross pathological changes and continued cycles of degeneration and regeneration, we found no differences in permeabilized fiber contractility between strains. However, there were numerous changes in the transcriptome and proteome related to protein balance, contractile elements, extracellular matrix, and metabolism. There was only a 53% agreement in fold-change data between the proteome and transcriptome. Numerous changes in markers of skeletal muscle metabolism were observed, with dystrophic muscles exhibiting elevated glycolytic metabolites such as 6-phosphoglycerate, fructose-6-phosphate and glucose-6-phosphate, fructose bisphosphate, phosphorylated hexoses, and phosphoenolpyruvate. These findings highlight the utility of multiomics in studying muscle disease, and provide additional insight into the pathological changes in dystrophic muscles that might help to indirectly guide evidence-based nutritional or exercise prescription in DMD patients.
DOI: 10.6084/m9.figshare.12850124
title: Multiomics analysis of the mdx/mTR mouse model of Duchenne muscular dystrophy

description: Duchenne muscular dystrophy (DMD) is a progressive neuromuscular disease characterized by extensive muscle weakness. Patients with DMD lack a functional dystrophin protein, which transmits force and organizes the cytoskeleton of skeletal muscle. Multiomic studies have been proposed as a way to obtain novel insight about disease processes from preclinical models, and we used this approach to study pathological changes in dystrophic muscles. We evaluated hindlimb muscles of male mdx/mTR mice, which lack a functional dystrophin protein and have deficits in satellite cell abundance and proliferative capacity. Wild type (WT) C57BL/6 J mice served as controls. Muscle fiber contractility was measured, along with changes in the transcriptome using RNA sequencing, and in the proteome, metabolome, and lipidome using mass spectrometry. While mdx/mTR mice displayed gross pathological changes and continued cycles of degeneration and regeneration, we found no differences in permeabilized fiber contractility between strains. However, there were numerous changes in the transcriptome and proteome related to protein balance, contractile elements, extracellular matrix, and metabolism. There was only a 53% agreement in fold-change data between the proteome and transcriptome. Numerous changes in markers of skeletal muscle metabolism were observed, with dystrophic muscles exhibiting elevated glycolytic metabolites such as 6-phosphoglycerate, fructose-6-phosphate and glucose-6-phosphate, fructose bisphosphate, phosphorylated hexoses, and phosphoenolpyruvate. These findings highlight the utility of multiomics in studying muscle disease, and provide additional insight into the pathological changes in dystrophic muscles that might help to indirectly guide evidence-based nutritional or exercise prescription in DMD patients.
DOI: 10.6084/m9.figshare.13064618.v2
title: Spatial frequency metrics for analysis of microscopic images of musculoskeletal tissues

description: <b>Purpose:</b> Imaging-based metrics for analysis of biological tissues are powerful tools that can extract information such as shape, size, periodicity, and many other features to assess the requested qualities of a tissue. Muscular and osseous tissues consist of periodic structures that are directly related to their function, and so analysis of these patterns likely reflects tissue health and regeneration.<b>Methods:</b> A method for assessment of periodic structures is by analyzing them in the spatial frequency domain using the Fourier transform. In this paper, we present two filters which we developed in the spatial frequency domain for the purpose of analyzing musculoskeletal structures. These filters provide information about 1) the angular orientation of the tissues and 2) their periodicity. We explore periodic structural patterns in the mitochondrial network of skeletal muscles that are reflective of muscle metabolism and myogenesis; and patterns of collagen fibers in the bone that are reflective of the organization and health of bone extracellular matrix.<b>Results:</b> We present an analysis of mouse skeletal muscle in healthy and injured muscles. We used a transgenic mouse that ubiquitously expresses fluorescent protein in their mitochondria and performed 2-photon microscopy to image the structures. To acquire the collagen structure of the bone we used non-linear SHG microscopy of mouse flat bone. We analyze and compare juvenile versus adult mice, which have different structural patterns.<b>Conclusions:</b> Our results indicate that these metrics can quantify musculoskeletal tissues during development and regeneration.
DOI: 10.6084/m9.figshare.13064618
title: Spatial frequency metrics for analysis of microscopic images of musculoskeletal tissues

description: <b>Purpose:</b> Imaging-based metrics for analysis of biological tissues are powerful tools that can extract information such as shape, size, periodicity, and many other features to assess the requested qualities of a tissue. Muscular and osseous tissues consist of periodic structures that are directly related to their function, and so analysis of these patterns likely reflects tissue health and regeneration.<b>Methods:</b> A method for assessment of periodic structures is by analyzing them in the spatial frequency domain using the Fourier transform. In this paper, we present two filters which we developed in the spatial frequency domain for the purpose of analyzing musculoskeletal structures. These filters provide information about 1) the angular orientation of the tissues and 2) their periodicity. We explore periodic structural patterns in the mitochondrial network of skeletal muscles that are reflective of muscle metabolism and myogenesis; and patterns of collagen fibers in the bone that are reflective of the organization and health of bone extracellular matrix.<b>Results:</b> We present an analysis of mouse skeletal muscle in healthy and injured muscles. We used a transgenic mouse that ubiquitously expresses fluorescent protein in their mitochondria and performed 2-photon microscopy to image the structures. To acquire the collagen structure of the bone we used non-linear SHG microscopy of mouse flat bone. We analyze and compare juvenile versus adult mice, which have different structural patterns.<b>Conclusions:</b> Our results indicate that these metrics can quantify musculoskeletal tissues during development and regeneration.
DOI: 10.6084/m9.figshare.12258626
title: Treatment of congenital short palate using bilateral buccal musculomucosal flaps

description: A case of congenital short palate was treated by bilateral buccal musculomucosal flaps. The levator veli palatini muscle formed a continuous sling, but the anterior portion was attached to the posterior border of the hard palate. The speech outcome improved from severe to normal.
DOI: 10.6084/m9.figshare.12258626.v1
title: Treatment of congenital short palate using bilateral buccal musculomucosal flaps

description: A case of congenital short palate was treated by bilateral buccal musculomucosal flaps. The levator veli palatini muscle formed a continuous sling, but the anterior portion was attached to the posterior border of the hard palate. The speech outcome improved from severe to normal.
DOI: 10.6084/m9.figshare.14551182
title: Spatial-Temporal Aggregation of Groups: Data and Results

description: These datasets are the experimental inputs and outputs associated with the analyzed in Measuring the Spatiotemporal evolution of accident hot spots (Al Hamami and Matisziw 2021).
DOI: 10.6084/m9.figshare.14551182.v1
title: Spatial-Temporal Aggregation of Groups: Data and Results

description: These datasets are the experimental inputs and outputs associated with the analyzed in Measuring the Spatiotemporal evolution of accident hot spots (Al Hamami and Matisziw 2021).
DOI: 10.6084/m9.figshare.12601117
title: Subacute and chronic neuropsychological sequalae of acute organophosphate pesticide self-poisoning: a prospective cohort study from Sri Lanka

description: Some epidemiological evidence implicates acute organophosphate (OP) pesticide poisoning in long-term neurocognitive deficits. However, no study has prospectively followed up poisoned patients long-term from the time of intoxication. We aimed to determine whether clinically significant acute OP self-poisoning leads to subacute and chronic neurocognitive deficits, in a prospective follow up study. Employing Mini Mental State Examination, Digit Span and Cambridge Neuropsychological Test Automated Battery (CANTAB), we compared multiple cognitive functions in 222 patients hospitalized with acute OP pesticide self-poisoning with a control group of 52 patients hospitalized with paracetamol overdose, at three time points: on discharge following clinical recovery, 6 weeks and 6 months post-ingestion. Intergroup comparisons at each time point were done in multiple regression models, adjusting for sex, age, education and psychiatric comorbidities. OP within-group analysis was done to determine a dose–response relationship. After adjusting for covariates, the OP poisoned group had significantly poorer working memory (Digit Span) and episodic memory (CANTAB Paired Associates Learning); impaired spatial planning (CANTAB Stocking of Cambridge); and slower response speed in the sustained attention task (CANTAB Rapid Visual Information Processing), in the post-discharge assessment. Only working memory and episodic memory measures were impaired in the OP group at 6 weeks, whereas no significant intergroup differences were observed at 6 months. The OP subgroup who had complete red cell acetylcholinesterase inhibition on admission had poorer episodic memory when tested post-discharge than those who had partial inhibition, but no significant subgroup differences were observed at 6 weeks or 6 months. Acute OP pesticide poisoning may cause neuropsychological impairment that outlasts the cholinergic phase on a subacute time scale; but does not cause measurable chronic neuropsychological deficits.
DOI: 10.6084/m9.figshare.12601117.v1
title: Subacute and chronic neuropsychological sequalae of acute organophosphate pesticide self-poisoning: a prospective cohort study from Sri Lanka

description: Some epidemiological evidence implicates acute organophosphate (OP) pesticide poisoning in long-term neurocognitive deficits. However, no study has prospectively followed up poisoned patients long-term from the time of intoxication. We aimed to determine whether clinically significant acute OP self-poisoning leads to subacute and chronic neurocognitive deficits, in a prospective follow up study. Employing Mini Mental State Examination, Digit Span and Cambridge Neuropsychological Test Automated Battery (CANTAB), we compared multiple cognitive functions in 222 patients hospitalized with acute OP pesticide self-poisoning with a control group of 52 patients hospitalized with paracetamol overdose, at three time points: on discharge following clinical recovery, 6 weeks and 6 months post-ingestion. Intergroup comparisons at each time point were done in multiple regression models, adjusting for sex, age, education and psychiatric comorbidities. OP within-group analysis was done to determine a dose–response relationship. After adjusting for covariates, the OP poisoned group had significantly poorer working memory (Digit Span) and episodic memory (CANTAB Paired Associates Learning); impaired spatial planning (CANTAB Stocking of Cambridge); and slower response speed in the sustained attention task (CANTAB Rapid Visual Information Processing), in the post-discharge assessment. Only working memory and episodic memory measures were impaired in the OP group at 6 weeks, whereas no significant intergroup differences were observed at 6 months. The OP subgroup who had complete red cell acetylcholinesterase inhibition on admission had poorer episodic memory when tested post-discharge than those who had partial inhibition, but no significant subgroup differences were observed at 6 weeks or 6 months. Acute OP pesticide poisoning may cause neuropsychological impairment that outlasts the cholinergic phase on a subacute time scale; but does not cause measurable chronic neuropsychological deficits.
DOI: 10.5281/zenodo.4740355
title: MIMII DUE: Sound Dataset for Malfunctioning Industrial Machine Investigation and Inspection with Domain Shifts due to Changes in Operational and Environmental Conditions

description: <strong>Description</strong> This dataset is a sound dataset for malfunctioning industrial machine investigation and inspection with domain shifts due to changes in operational and environmental conditions (MIMII DUE). The dataset consists of normal and abnormal operating sounds of five different types of industrial machines, i.e., fans, gearboxes, pumps, slide rails, and valves. The data for each machine type includes six subsets called ``sections'', and each section roughly corresponds to a single product. Each section consists of data from two domains, called the source domain and the target domain, with different conditions such as operating speed and environmental noise. <strong>This dataset is a subset of the dataset for DCASE 2021 Challenge Task 2, so the dataset is entirely the same as data included in the development dataset and additional training dataset.</strong> For more information, please see this paper and the pages of the development dataset and the task description for DCASE 2021 Challenge Task 2. <strong>Baseline system</strong> Two simple baseline systems are available on the Github repositories [URL] and [URL]. The baseline systems provide a simple entry-level approach that gives a reasonable performance in the dataset. They are good starting points, especially for entry-level researchers who want to get familiar with the anomalous-sound-detection task. <strong>Conditions of use</strong> This dataset was made by <strong>Hitachi, Ltd.</strong> and is available under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) license. <strong>Publication</strong> If you use this dataset, please cite the following paper: Ryo Tanabe, Harsh Purohit, Kota Dohi, Takashi Endo, Yuki Nikaido, Toshiki Nakamura, and Yohei Kawaguchi, "MIMII DUE: Sound Dataset for Malfunctioning Industrial Machine Investigation and Inspection with Domain Shifts due to Changes in Operational and Environmental Conditions," arXiv preprint arXiv: 2105.02702, 2021. [URL] <br> <strong>Feedback</strong> If there is any problem, please contact us: Ryo Tanabe, ryo.tanabe.rw.xk@hitachi.com Yohei Kawaguchi, yohei.kawaguchi.xk@hitachi.com
description: {"references": ["Ryo Tanabe, Harsh Purohit, Kota Dohi, Takashi Endo, Yuki Nikaido, Toshiki Nakamura, and Yohei Kawaguchi, \"MIMII DUE: Sound Dataset for Malfunctioning Industrial Machine Investigation and Inspection with Domain Shifts due to Changes in Operational and Environmental Conditions,\" arXiv preprint arXiv: 2105.02702, 2021."]}