cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22133492.v1
title: Supplementary Material for: SYSTEMATIC REVIEW AND METANALYSIS OF CLINICAL OUTCOMES AFTER ENUCLEATION OF PANCREATIC METASTASES FROM RENAL CELL CARCINOMA.

description: ABSTRACT. Introduction: A systematic review of the literature was carried out to determine the clinical and oncological outcome of patients who had enucleation of solitary pancreatic metastases from renal cell carcinoma. Methods: Operative mortality, postoperative complications, observed survival and disease free survival were analyzed. The clinical outcomes of patients who had enucleation were compared to those of 857 patients collected from the literature who had standard or atypical pancreatic resection for the same disease using propensity score matching Results: There was no postoperative mortality in the 56 patients who had enucleation of pancreatic metastases from renal cell carcinoma . In 51 patients postoperative complications could be analyzed. Ten patients (10/51=19.6%) had postoperative complications. Three patients (3/51 = 5.9%) had major complications (Clavien-Dindo III or more). Five year observed survival rates and disease free survival for patients with enucleation were 92% and 79% respectively. These results compared favourably with those obtained in patients who had standard resection and other forms of atypical resection (also using propensity score matching). Patients who had partial pancreatic resection (atypical or not) with pancreatic-jejunal anastomosis had increased rates of postoperative complications and local recurrences. Conclusions: Enucleation of pancreatic metastases offers a valid solution in selected patients.
DOI: 10.6084/m9.figshare.22058939
title: Supplementary Material for: Health-related quality of life in children and adolescents with overweight, obesity and severe obesity: a cross-sectional study

description: Introduction Children and adolescents with overweight and obesity have an impaired health-related quality of life (HRQoL). However, it is unclear which of these children are most affected in their physical, psychological and social functioning. Therefore, this study aimed to evaluate HRQoL in treatment-seeking children and adolescents with overweight, obesity and severe obesity. Methods A cross-sectional study was performed at the Centre for Overweight Adolescent and Children’s Healthcare (COACH). Children and adolescents (8-17 years) with overweight, obesity and severe obesity were included. The primary outcome was the self-reported HRQoL measured with the KIDSCREEN-27. Results A total of 419 participants with overweight (N=121), obesity (N=182) and severe obesity (N=116) were included. One way ANOVA analysis showed that children and adolescents with severe obesity reported significantly lower physical wellbeing (41.25±13.14) compared to those with overweight (47.91±12.53; p&lt;0.001) and obesity (46.74±11.93; p&lt;0.001). Furthermore, impaired psychological wellbeing was found in the group with severe obesity (45.14 ± 13.27) in comparison to the group with overweight (50.90 ± 9.48; p&lt;0.001) and obesity (49.71 ± 10.95; p=0.002). Multivariable linear regression analysis, while correcting for age, sex, cardio metabolic health risk and ethnicity, revealed similar results. Additionally, children and adolescents with severe obesity scored lower regarding autonomy & parent relation than those with overweight (B=3.95; p= 0.009). In almost all groups and dimensions of the KIDSCREEN-27, caregivers scored lower compared to the children and adolescents themselves. Furthermore, a low child-caregiver agreement seemed to exist, especially in the children and adolescents with overweight. Conclusion The HRQoL of treatment-seeking children and adolescents with overweight and obesity was most affected in children and adolescents with the most severe grade of obesity. Following these findings, lifestyle intervention programs targeting childhood obesity should be aware of this even more vulnerable group so that treatments can be tailored according to their needs.
DOI: 10.6084/m9.figshare.22058939.v1
title: Supplementary Material for: Health-related quality of life in children and adolescents with overweight, obesity and severe obesity: a cross-sectional study

description: Introduction Children and adolescents with overweight and obesity have an impaired health-related quality of life (HRQoL). However, it is unclear which of these children are most affected in their physical, psychological and social functioning. Therefore, this study aimed to evaluate HRQoL in treatment-seeking children and adolescents with overweight, obesity and severe obesity. Methods A cross-sectional study was performed at the Centre for Overweight Adolescent and Children’s Healthcare (COACH). Children and adolescents (8-17 years) with overweight, obesity and severe obesity were included. The primary outcome was the self-reported HRQoL measured with the KIDSCREEN-27. Results A total of 419 participants with overweight (N=121), obesity (N=182) and severe obesity (N=116) were included. One way ANOVA analysis showed that children and adolescents with severe obesity reported significantly lower physical wellbeing (41.25±13.14) compared to those with overweight (47.91±12.53; p&lt;0.001) and obesity (46.74±11.93; p&lt;0.001). Furthermore, impaired psychological wellbeing was found in the group with severe obesity (45.14 ± 13.27) in comparison to the group with overweight (50.90 ± 9.48; p&lt;0.001) and obesity (49.71 ± 10.95; p=0.002). Multivariable linear regression analysis, while correcting for age, sex, cardio metabolic health risk and ethnicity, revealed similar results. Additionally, children and adolescents with severe obesity scored lower regarding autonomy & parent relation than those with overweight (B=3.95; p= 0.009). In almost all groups and dimensions of the KIDSCREEN-27, caregivers scored lower compared to the children and adolescents themselves. Furthermore, a low child-caregiver agreement seemed to exist, especially in the children and adolescents with overweight. Conclusion The HRQoL of treatment-seeking children and adolescents with overweight and obesity was most affected in children and adolescents with the most severe grade of obesity. Following these findings, lifestyle intervention programs targeting childhood obesity should be aware of this even more vulnerable group so that treatments can be tailored according to their needs.
DOI: 10.5281/zenodo.7783972
title: Somatosensory profiling of patients undergoing alcohol withdrawal: do neuropathic pain and sensory loss represent a problem?

description: Chronic heavy alcohol use is known to cause neurological complications such as peripheral neuropathy. Concerning the pathophysiology, few sural nerve and skin biopsies studies showed that small fibers might be selectively vulnerable to degeneration in alcohol-related peripheral neuropathy. Pain has rarely been properly evaluated in this pathology. The aim of the present study was to assess pain intensity, potential neuropathic characteristics as well as the functionality of both small and large nerve sensitive fibers. In this observational study, twenty-seven consecutive adult patients, hospitalized for alcohol withdrawal and 13 healthy controls were recruited. All the participants underwent a quantitative sensory testing (QST) according to the standardized protocol of the German Research Network Neuropathic Pain, a neurological examination and filled standardized questionnaires assessing alcohol consumption and dependence as well as pain characteristics and psychological comorbidities. Half of the patients reported pain. Yet the intensity was weak, leading to a low interference with daily life, and the characteristics did not support a neuropathic component. A functional impairment of small nerve fibers was frequently described, with thermal hypoesthesia observed in 52% of the patients. Patients with a higher alcohol consumption over the last 2 years showed a greater impairment of small fiber function.
DOI: 10.5281/zenodo.7783973
title: Somatosensory profiling of patients undergoing alcohol withdrawal: do neuropathic pain and sensory loss represent a problem?

description: Chronic heavy alcohol use is known to cause neurological complications such as peripheral neuropathy. Concerning the pathophysiology, few sural nerve and skin biopsies studies showed that small fibers might be selectively vulnerable to degeneration in alcohol-related peripheral neuropathy. Pain has rarely been properly evaluated in this pathology. The aim of the present study was to assess pain intensity, potential neuropathic characteristics as well as the functionality of both small and large nerve sensitive fibers. In this observational study, twenty-seven consecutive adult patients, hospitalized for alcohol withdrawal and 13 healthy controls were recruited. All the participants underwent a quantitative sensory testing (QST) according to the standardized protocol of the German Research Network Neuropathic Pain, a neurological examination and filled standardized questionnaires assessing alcohol consumption and dependence as well as pain characteristics and psychological comorbidities. Half of the patients reported pain. Yet the intensity was weak, leading to a low interference with daily life, and the characteristics did not support a neuropathic component. A functional impairment of small nerve fibers was frequently described, with thermal hypoesthesia observed in 52% of the patients. Patients with a higher alcohol consumption over the last 2 years showed a greater impairment of small fiber function.
DOI: 10.6084/m9.figshare.22187661
title: Prognostic and survival impact of BCL9 and RPS6KB1 copy number variation detected from circulating free DNA in hepatocellular carcinoma

description: Circulating cell-free DNA (cfDNA) is a noninvasive substitute to liver biopsy for hepatocellular carcinoma (HCC) molecular profiling. This study aimed to use cfDNA to investigate copy number variation (CNV) in the BCL9 and RPS6KB1 genes and its impact on prognosis in HCC. Real-Time Polymerase Chain Reaction was used to determine the CNV and cfDNA integrity index in 100 HCC patients. CNV gain in BCL9 and RPS6KB1 genes was detected in 14% and 24% of patients, respectively. Gain in CNV of BCL9 associated with risk of HCC in alcohol drinkers and hepatitis C seropositivity. In patients with RPS6KB1 gain, HCC risk increased with a high body mass index, smoking, schistosomiasis, and Barcelona clinical liver cancer stage (BCLC) A. Gain in both genes showed a high risk of HCC with elevated liver enzymes, Schistosomiasis, BCLC C, and PS &gt; 1. The integrity of cfDNA was higher in patients with CNV gain in RPS6KB1 than those harboring CNV gain in BCL9. Lastly, BCL9 gain and BCL9 + RPS6KB1 gain led to higher mortality rates and reduced survival times. cfDNA was used to detect BCL9 and RPS6KB1 CNVs, which influence prognosis and can be used as independent predictors of HCC patient survival.
DOI: 10.6084/m9.figshare.22187661.v1
title: Prognostic and survival impact of BCL9 and RPS6KB1 copy number variation detected from circulating free DNA in hepatocellular carcinoma

description: Circulating cell-free DNA (cfDNA) is a noninvasive substitute to liver biopsy for hepatocellular carcinoma (HCC) molecular profiling. This study aimed to use cfDNA to investigate copy number variation (CNV) in the BCL9 and RPS6KB1 genes and its impact on prognosis in HCC. Real-Time Polymerase Chain Reaction was used to determine the CNV and cfDNA integrity index in 100 HCC patients. CNV gain in BCL9 and RPS6KB1 genes was detected in 14% and 24% of patients, respectively. Gain in CNV of BCL9 associated with risk of HCC in alcohol drinkers and hepatitis C seropositivity. In patients with RPS6KB1 gain, HCC risk increased with a high body mass index, smoking, schistosomiasis, and Barcelona clinical liver cancer stage (BCLC) A. Gain in both genes showed a high risk of HCC with elevated liver enzymes, Schistosomiasis, BCLC C, and PS &gt; 1. The integrity of cfDNA was higher in patients with CNV gain in RPS6KB1 than those harboring CNV gain in BCL9. Lastly, BCL9 gain and BCL9 + RPS6KB1 gain led to higher mortality rates and reduced survival times. cfDNA was used to detect BCL9 and RPS6KB1 CNVs, which influence prognosis and can be used as independent predictors of HCC patient survival.
DOI: 10.6084/m9.figshare.22316709
title: Effects of spinal stabilization exercises delivered using telerehabilitation on outcomes in patients with chronic neck pain: a randomized controlled trial

description: When spinal stabilization exercises (SSE) are performed regularly, may provide benefits on outcome measures in chronic nonspecific neck pain (CNNP) patients. The pandemic has made it difficult for CNNP patients to access regular physiotherapy-exercise services. This study aims to compare telerehabilitation (TR) with face-to-face rehabilitation in CNNP. Neck Functional Capacity Evaluation Test (NFCET) results were the primary outcomes. Pain intensity (PI), disability, awareness, neck muscles architecture, andexercise satisfaction were the secondary outcomes. Patients were randomized into the TR group (TRG) (n = 15) and the control group (CG) (n = 16). Patients performed SSE 3 days a week, for 8 weeks. The TRG was instructed remotely while the CG was instructed in the clinic. After 8 weeks in both groups, NFCET values and neck awareness increased (p &lt; 0.05), PI and disability decreased (p &lt; 0.05). Muscle architecture improved in both groups (p &lt; 0.05), except for the Right Sternocleidomastoideus in both groups and the Right Upper-Trapezius in TRG (p &gt; 0.05). There was no difference between the groups for all variables and exercise satisfaction(p &gt; 0.05). SSE for CNNP, whether supervised by therapists in the clinic or by telerehabilitation, was equally effective. NCT04691024
DOI: 10.6084/m9.figshare.22360693.v1
title: CeSta_makeInput_data

description: IRCC-PDx data preprocessing for integrative modelling.
DOI: 10.6084/m9.figshare.22154561.v2
title: Gut microbiota impacts bone via Bacteroides vulgatus-valeric acid-related pathways

description: We performed integrative analyses in a Chinese cohort (n = 517) of peri-/post-menopausal women with metagenomics/targeted metabolomics to identify novel microbiome-related biomarkers for bone health. We also performed validations in US Caucasians (n = 59).
DOI: 10.6084/m9.figshare.21325737
title: Human tonsillar stromal cells and immune cells

description: Hematopoietic cells were stained with fluorochrome-conjugated antibodies against human CD45, CD3, CD19 and CD14 and stromal cells with fluorochrome-conjugated antibodies against human CD45 and CD235a. Live/dead cell discrimination was performed by adding 7-amino-actinomycin D (7AAD; Calbiochem) prior to acquisition. CD45– CD235a– stromal cells, CD45+ CD3+ T cells and CD45+ CD19+ B cells were sorted with a BD FACS Melody cell sorter (BD Biosciences) and run on the 10x Chromium analyzer (10X Genomics). cDNA library generation was performed following the established commercial protocol for Chromium Single Cell 3’ Reagent Kit (v3 Chemistry). Libraries were run via Novaseq 6000 for Illumina sequencing at the Functional Genomic Center Zurich. A total of 20 samples were collected from 9 patients and processed in 6 batches. All samples from the same patient were processed in the same batch. Gene expression estimation from sequencing files was done using CellRanger (v3.0.2) count with Ensembl GRCh38.9 release as reference to build the index for human samples. Next, quality control was performed in R v.4.0.0 using the R/Bioconductor package scater (v.1.16.0) and included removal of damaged and contaminating cells based on (1) very high or low UMI counts (&gt;2.5 median absolute deviation from the median across all cells), (2) very high or low total number of detected genes (&gt;2.5 median absolute deviation from the median across all cells) and (3) high mitochondrial gene content (&gt; 2.5 median absolute deviations above the median across all cells). In addition, contaminating cells expressing any of the markers CD3E, PTPRC, CD79A or GYPA were removed from stromal cell samples. Downstream analysis was performed using the Seurat R package (v.4.0.1) and included normalization, scaling, dimensionality reduction with PCA and UMAP, graph-based clustering and calculation of unbiased cluster markers as well as dimensionality reduction with diffusionmap as implemented in the scater R/Bioconductor package (v.1.16.0). Clusters were characterized based on the expression of calculated cluster markers and canonical marker genes as reported in previous publications. For the extended stromal cell analysis, two contaminating clusters with 50 cycling cells and 150 cells expressing both fibroblast and endothelial marker genes (indicative of doublets) were removed. For high resolution FRC analysis, FRC subsets were re-embedded and two clusters containing 256 cells with high levels of endothelial or mitochondrial/non-coding genes, respectively, were excluded. Comparative analysis included determination of cell type-, subset- and condition-specific gene signatures. Thereby differentially expressed genes were calculated running the FindAllMarkers function from Seurat R package.
DOI: 10.25381/cput.22121426.v1
title: Relationship buying - a new paradigm in business-to-business marketing

description: Ethical clearance 2007FOBREC208 <br> The data provides an overview of over 400 South African business characteristics, demographic and experience factors, procurement strategies, and policies and procedures. The data also identifies a number of constructs, viz. preference of suppliers’ salespeople, Black Economic Empowerment status; service quality; relationship; environment sustainability; culture, employment equity and affirmative action; personal relationships, the provision of gifts; access to management and exceeding expectations, which were used to propose a new supplier preference model.
DOI: 10.17028/rd.lboro.22110695.v1
title: Supplementary information files for Quantum-corrected thickness-dependent thermal conductivity in amorphous silicon predicted by machine learning molecular dynamics simulations

description: Supplementary files for article Quantum-corrected thickness-dependent thermal conductivity in amorphous silicon redicted by machine learning molecular dynamics simulations <br> Amorphous silicon (a-Si) is an important thermal-management material and also serves as an ideal playground for studying heat transport in strongly disordered materials. Theoretical prediction of the thermal conductivity of a-Si in a wide range of temperatures and sample sizes is still a challenge. Herein we present a systematic investigation of the thermal transport properties of a-Si by employing large-scale molecular dynamics (MD) simulations with an accurate and efficient machine learned neuroevolution potential (NEP) trained against abundant reference data calculated at the quantum-mechanical density-functional-theory level. The high efficiency of NEP allows us to study the effects of finite size and quenching rate in the formation of a-Si in great detail. We find that a simulation cell up to 64000 atoms (a cubic cell with a linear size of 11 nm) and a quenching rate down to 1011 K s−1 are required for almost convergent thermal conductivity. Structural properties, including short- and medium-range order as characterized by the pair-correlation function, angular-distribution function, coordination number, ring statistics, and structure factor are studied to demonstrate the accuracy of NEP and to further evaluate the role of quenching rate. Using both the heterogeneous and homogeneous nonequilibrium MD methods and the related spectral decomposition techniques, we calculate the temperature- and thickness-dependent thermal conductivity values of a-Si and show that they agree well with available experimental results from 10 K to room temperature. Our results also highlight the importance of quantum effects in the calculated thermal conductivity and support the quantum-correction method based on the spectral thermal conductivity.
DOI: 10.25403/upresearchdata.22110392.v1
title: Analysis of communal wool farmer's production practices in relation to responsible wool standards

description: This dataset consists of communal wool farmer's production practices to score them against responsible wool standards. The data was collected in the Eastern Cape province of South Africa and a total of 50 communal wool farmers were randomly selected. A questionnaire was developed and interviews were administered through semi-structured interviews. The questionnaire collected information on demographics (age, gender, level of education, income etc.) and on the communal wool farmers’ production practices (land holdings, shearing practices, grazing, herding, etc.). The data was analysed using descriptive analysis in the form of mean, frequency, percentages, tables and figures and a rubric method was developed to assess the production practises of communal farmers in relation to the Responsible Wool Standard (RWS).
DOI: 10.25403/upresearchdata.21951167.v1
title: Predictive fourier transform infrared (FT-IR) models for disease resistance in Eucalyptus clones.

description: The datasets entails 3 Fourier Transform Infrared (FT-IR) models for <em>Eucalyptus</em> hybrid clones resistance and susceptibility as well as the sample sets for the study (disseration). The samples were collected from an inoculation trial and then analyzed for FT-IR. To develop the FT-IR models, spectra converted to spc format using terminal and Github.The spectral data was then analyzed on R-Studio using the Eucalyptus script. <br> The dataset comparing two methods (VSURF & SVM) has also been included. As well as the 3 models classification perfomance using Support Vector Machine (SVM) and the Partial Least Square-Discriminant Analysis (PLS-DA) performance analysis.
DOI: 10.25381/cput.21836415.v1
title: Adaptation strategies for Franschhoek Ront and Bont Route in the context of COVID-19

description: This data is from a qualitative study into the adaptation strategies for the Franschhoek Ront and Bont CBT Route in the context of COVID-19. Semi-structured interviews were conducted with thirteen (13) Ront and Bont route participating businesses. Ethical clearance (2021_FBMSREC_100) was granted by the Faculty of Business and Management Sceinces Ethics Committee and all the participants consented to the study.
DOI: 10.25381/cput.21821703.v1
title: Concentrations of heavy metals in soil and grapevine leaf samples from vineyards in the Cape Winelands

description: Chemical analysis is an essential management tool for the early detection of risks, such as excessive fertilisation and heavy metal and pesticide contamination, in vineyards. The objective of this study was to conduct a detailed pioneer screening of heavy metal levels in soils and grapevine leaf tissues in selected wine farms. Soil and grapevine leaf samples were collected from demarcated areas in selected vineyards in the Cape Winelands region of South Africa. The sampling was done in winter and summer from the same sites. Farming practices of the farms were recorded. The soil and the leaf samples were analysed using the inductively coupled plasma mass spectrometry (ICP-MS) technique. This dataset provides the basis for long-term monitoring of heavy metal levels in soils and grapevine leaf tissues in the Cape Winelands. The dataset is relevant to farmers, researchers, and wine consumers. <br> This study received ethics approval from the Faculty of Applied Sciences Ethics Committee: Reference no: 214245470/04/2021.
DOI: 10.25420/britishmuseum.21771146.v1
title: Annotation video documentary - Serian

description: Annotation of parang-making practises with English translation.
DOI: 10.6084/m9.figshare.21706325.v1
title: Sp receiver functions, as well as related information for each station

description: These data are the Sp receiver functions, as well as related information for each station, associated with the article: "Asthenospheric low velocity zone consistent with globally prevalent partial melting".