cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23180213
title: Supplementary Material for: Frequency and functional consequences of low appendicular lean mass and sarcopenic obesity in patients with asthma referred for pulmonary rehabilitation

description: Introduction: one of the most prominent extra-pulmonary manifestations in patients with chronic respiratory disease are changes in body weight and composition. However, the frequency and functional consequences of low appendicular lean mass (ALM) or sarcopenic obesity (SO) in patients with asthma is largely unknown. Therefore, the aims of the current study were to assess the frequency and functional consequences of low appendicular lean mass index (ALMI) and SO in patients with asthma. Methods: a retrospectively analyzed cross-sectional study was conducted in 687 patients with asthma (60% female, 58±13 years, FEV1 76±25%pred) referred for comprehensive pulmonary rehabilitation (PR). Body composition, pulmonary function, exercise capacity, quadriceps muscle function, and quality of life were assessed. Patients were classified as presenting low ALMI according to the 10th percentiles of age-sex-body mass index (BMI)-specific reference values and as having SO according to the diagnostic procedure proposed by the 2022 ESPEN/EASO consensus. In addition, clinical outcomes between patients with normal and low ALMI or with and without SO were compared. Results: the frequency of patients classified as low ALMI was 19%, whereas 45% of the patients were obese. Among the obese patients, 29% had SO. In patients with normal weight, those with low ALMI were younger and had worse pulmonary function, exercise capacity and quadriceps muscle function than those with normal ALMI (all p&lt;0.05). Overweight patients with low ALMI presented poorer pulmonary function and quadriceps muscle function (both strength and total work capacity). In obese class I patients, those with low ALMI showed lower quadriceps strength and maximal oxygen uptake acquired during cardiopulmonary exercise testing. Both male and female patients with SO showed lower quadriceps muscle function and reduced maximal exercise capacity compared to non-SO asthma patients. Conclusion/discussion: Approximately one in five asthma patients presented low ALM when age-sex-BMI-specific ALMI cut-offs were applied. Obesity is common among patients with asthma referred for PR. Among the obese patients a significant proportion presented SO. Low ASM and SO were associated with worse functional outcomes.
DOI: 10.6084/m9.figshare.23180213.v1
title: Supplementary Material for: Frequency and functional consequences of low appendicular lean mass and sarcopenic obesity in patients with asthma referred for pulmonary rehabilitation

description: Introduction: one of the most prominent extra-pulmonary manifestations in patients with chronic respiratory disease are changes in body weight and composition. However, the frequency and functional consequences of low appendicular lean mass (ALM) or sarcopenic obesity (SO) in patients with asthma is largely unknown. Therefore, the aims of the current study were to assess the frequency and functional consequences of low appendicular lean mass index (ALMI) and SO in patients with asthma. Methods: a retrospectively analyzed cross-sectional study was conducted in 687 patients with asthma (60% female, 58±13 years, FEV1 76±25%pred) referred for comprehensive pulmonary rehabilitation (PR). Body composition, pulmonary function, exercise capacity, quadriceps muscle function, and quality of life were assessed. Patients were classified as presenting low ALMI according to the 10th percentiles of age-sex-body mass index (BMI)-specific reference values and as having SO according to the diagnostic procedure proposed by the 2022 ESPEN/EASO consensus. In addition, clinical outcomes between patients with normal and low ALMI or with and without SO were compared. Results: the frequency of patients classified as low ALMI was 19%, whereas 45% of the patients were obese. Among the obese patients, 29% had SO. In patients with normal weight, those with low ALMI were younger and had worse pulmonary function, exercise capacity and quadriceps muscle function than those with normal ALMI (all p&lt;0.05). Overweight patients with low ALMI presented poorer pulmonary function and quadriceps muscle function (both strength and total work capacity). In obese class I patients, those with low ALMI showed lower quadriceps strength and maximal oxygen uptake acquired during cardiopulmonary exercise testing. Both male and female patients with SO showed lower quadriceps muscle function and reduced maximal exercise capacity compared to non-SO asthma patients. Conclusion/discussion: Approximately one in five asthma patients presented low ALM when age-sex-BMI-specific ALMI cut-offs were applied. Obesity is common among patients with asthma referred for PR. Among the obese patients a significant proportion presented SO. Low ASM and SO were associated with worse functional outcomes.
DOI: 10.6084/m9.figshare.23274614
title: Supplementary Material for: Mechanical thrombectomy treatment beyond 16 hours from last known well in patients with large vessel occlusion

description: Introduction: Mechanical thrombectomy (MT) has been reported to be effective within 24 h after last known well (LKW) by the DAWN (DWI or CTP Assessment with Clinical Mismatch in the Triage of Wake-Up and Late Presenting Strokes Undergoing Neurointervention with Trevo) trial and within 16 h after LKW by the DEFUSE-3 (Endovascular Therapy Following Imaging Evaluation for Ischemic Stroke 3) trial. However, there have been few reports of MT more than 16 h after LKW, and the efficacy and safety of MT more than 24 h after LKW have not yet been demonstrated. We evaluated the efficacy and safety of MT more than 16 h after LKW. Methods: Using data from the Nippon Medical School Hospital MT registry from April 2011 to August 2022, consecutive patients with anterior circulation large vessel occlusion (LVO) and prehospital modified Rankin scale (mRS) scores of 0–3 were enrolled. Patients were classified into the following three groups: early group (LKW &lt;6 h); middle group (LKW 6–16 h); and late group (LKW &gt;16 h). The clinical characteristics and outcomes were compared among these three groups. Results: Among 778 patients in the MT registry, 624 were enrolled. The early group included 432 patients, the middle group included 123 patients, and the late group included 69 patients. The patients had a median age of 77 years (interquartile range, 68–83) and 359 were male (57.5%). The median prehospital mRS score was 1 (interquartile range, 1–1), median National Institutes of Health Stroke Scale score on admission was 17 (interquartile range, 10–23), and median Alberta Stroke Program Early CT score was 10 (interquartile range, 8–10). Regarding safety and efficacy, the proportions of cases with successful reperfusion (modified Thrombolysis in Cerebral Infarction score of 2b–3; 85.4% vs 92.7% vs 88.7%; P=.47), symptomatic intracranial haemorrhage (6.4% vs 5.7% vs 7.2%; P=.99), mRS score ≤3 at 90 days (52.0% vs 60.2% vs 44.9%; P=.11), and mRS score of 6 at 90 days (11.3% vs 10.6 vs 8.7%; P=.37) were not significantly different between the three groups. Conclusion: Patients who received MT more than 16 h after LKW experienced the same safety and efficacy as those who received MT at 0–16 h after LKW. MT more than 16 h after LKW may be safe and effective for stroke patients with LVO.
DOI: 10.6084/m9.figshare.23274614.v1
title: Supplementary Material for: Mechanical thrombectomy treatment beyond 16 hours from last known well in patients with large vessel occlusion

description: Introduction: Mechanical thrombectomy (MT) has been reported to be effective within 24 h after last known well (LKW) by the DAWN (DWI or CTP Assessment with Clinical Mismatch in the Triage of Wake-Up and Late Presenting Strokes Undergoing Neurointervention with Trevo) trial and within 16 h after LKW by the DEFUSE-3 (Endovascular Therapy Following Imaging Evaluation for Ischemic Stroke 3) trial. However, there have been few reports of MT more than 16 h after LKW, and the efficacy and safety of MT more than 24 h after LKW have not yet been demonstrated. We evaluated the efficacy and safety of MT more than 16 h after LKW. Methods: Using data from the Nippon Medical School Hospital MT registry from April 2011 to August 2022, consecutive patients with anterior circulation large vessel occlusion (LVO) and prehospital modified Rankin scale (mRS) scores of 0–3 were enrolled. Patients were classified into the following three groups: early group (LKW &lt;6 h); middle group (LKW 6–16 h); and late group (LKW &gt;16 h). The clinical characteristics and outcomes were compared among these three groups. Results: Among 778 patients in the MT registry, 624 were enrolled. The early group included 432 patients, the middle group included 123 patients, and the late group included 69 patients. The patients had a median age of 77 years (interquartile range, 68–83) and 359 were male (57.5%). The median prehospital mRS score was 1 (interquartile range, 1–1), median National Institutes of Health Stroke Scale score on admission was 17 (interquartile range, 10–23), and median Alberta Stroke Program Early CT score was 10 (interquartile range, 8–10). Regarding safety and efficacy, the proportions of cases with successful reperfusion (modified Thrombolysis in Cerebral Infarction score of 2b–3; 85.4% vs 92.7% vs 88.7%; P=.47), symptomatic intracranial haemorrhage (6.4% vs 5.7% vs 7.2%; P=.99), mRS score ≤3 at 90 days (52.0% vs 60.2% vs 44.9%; P=.11), and mRS score of 6 at 90 days (11.3% vs 10.6 vs 8.7%; P=.37) were not significantly different between the three groups. Conclusion: Patients who received MT more than 16 h after LKW experienced the same safety and efficacy as those who received MT at 0–16 h after LKW. MT more than 16 h after LKW may be safe and effective for stroke patients with LVO.
DOI: 10.5285/fc18715a-07d6-4d03-b27c-124637338201
title: Whole island counts of South Georgia Shag nests at Bird Island, South Georgia, from 1989-2020

description: Whole island counts of the number of active nests of South Georgia shag Leucocarbo [atriceps] georgianus on Bird Island. Counts were first made in 1989-1990. A repeat count was made in 1994-95 and from 2012-13 onwards active nests have been counted either biennially or annually.
description: Observational data is collected as part of a long term population monitoring initiative carried out over multiple decades. Counts take place over a number of days, at up to 21 colonies across Bird Island. Not all colonies are occupied in all seasons. Annually collected egg-laying data from two colonies on Bird Island (Wanderer Ridge Extension and Pearson Point) are used to determine optimal survey dates for breeding pairs, at which time all other colonies are surveyed and occupied nests recorded. Birds are observed either from within the colony, or from a nearby vantage point using binoculars. Birds are counted if they are sitting tight, or are deemed to have well-built nests. Experienced observers survey each colony area at least twice in the same day. Surveys are repeated until the two counts are within 10%. The mean count value is then calculated and presented. More recently, some counts have been conducted using counts of nests in photographs. The 1989/90 and 1994/95 data were collected by Centre for Ecology and Hydrology researchers (Sarah Wanless and Mike Harris). Subsequent data has been collected as part of the British Antarctic Survey long-term monitoring programme at Bird Island. Data has been collected by a number of different observers, who are listed with the count data. All data were collected under permit from the Government of South Georgia and the South Sandwich Islands. All sampling procedures used were regulated by the British Antarctic Survey Ethical Review Committee in collaboration with Cambridge University and the UK Home Office.
description: Differences in the methods are specified under Comments in the data.
DOI: 10.17028/rd.lboro.19940093
title: Longitudinal data of building information modelling (BIM) adoption among contractors

description: This is a dataset of a longitudinal study of BIM adoption among contractors. Based on the Technology Adoption Model (TAM), a questionnaire was designed to capture adoption behaviours. Data were collected in 2017 and 2020. The dataset includes the name for each variable, the wording as in the questionnaire, and the measurement scale.
DOI: 10.17028/rd.lboro.19940093.v1
title: Longitudinal data of building information modelling (BIM) adoption among contractors

description: This is a dataset of a longitudinal study of BIM adoption among contractors. Based on the Technology Adoption Model (TAM), a questionnaire was designed to capture adoption behaviours. Data were collected in 2017 and 2020. The dataset includes the name for each variable, the wording as in the questionnaire, and the measurement scale.
DOI: 10.25345/c5qr4p177
title: MassIVE MSV000092617 - Using FAIMS to improve tumor neoantigen detection
title: DDA and PRM analysis, with and without FAIMS, for the T3, F244, and 1956 MCA sarcoma cell lines. PRM analysis of MHC-I neoantigens in ex vivo mouse tumors.
DOI: 10.5281/zenodo.8196963
title: RDM dataset

description: This dataset contains images of the CNR-STIIMA ReDeManufacturing Lab: real data as pictures of real assets (e.g. pallet, PCBs) synthetic data generated using the VR digital twin of the lab
DOI: 10.5281/zenodo.7853027
title: Dataset Citation and Re-use Data

description: This dataset includes processed citation data for datasets recorded in OpenAlex as of May 2022. It identifies self-citations to these datasets at the individual, institutional, and country level, and includes domain classifications of the citing works using the Science-Metrix classifications.
description: {"references": ["Archambault, \u00c9., Beauchesne, O. H., & Caruso, J. (2011). Towards a multilingual, comprehensive and open scientific journal ontology. Proceedings of the 13th International Conference of the International Society for Scientometrics and Informetrics (ISSI), 66\u201377. https://www.issi-society.org/proceedings/issi_2011/ISSI_2011_Proceedings_Vol1_09.pdf", "Priem, J., Piwowar, H., & Orr, R. (2022). OpenAlex: A fully-open index of scholarly works, authors, venues, institutions, and concepts. https://doi.org/10.48550/ARXIV.2205.01833"]}
DOI: 10.5281/zenodo.7853026
title: Dataset Citation and Re-use Data

description: This dataset includes processed citation data for datasets recorded in OpenAlex as of May 2022. It identifies self-citations to these datasets at the individual, institutional, and country level, and includes domain classifications of the citing works using the Science-Metrix classifications.
description: {"references": ["Archambault, \u00c9., Beauchesne, O. H., & Caruso, J. (2011). Towards a multilingual, comprehensive and open scientific journal ontology. Proceedings of the 13th International Conference of the International Society for Scientometrics and Informetrics (ISSI), 66\u201377. https://www.issi-society.org/proceedings/issi_2011/ISSI_2011_Proceedings_Vol1_09.pdf", "Priem, J., Piwowar, H., & Orr, R. (2022). OpenAlex: A fully-open index of scholarly works, authors, venues, institutions, and concepts. https://doi.org/10.48550/ARXIV.2205.01833"]}
DOI: 10.6084/m9.figshare.6973862
title: Loss of the novel Vcp (valosin containing protein) interactor Washc4 interferes with autophagy-mediated proteostasis in striated muscle and leads to myopathy <i>in vivo</i>

description: VCP/p97 (valosin containing protein) is a key regulator of cellular proteostasis. It orchestrates protein turnover and quality control <i>in vivo</i>, processes fundamental for proper cell function. In humans, mutations in VCP lead to severe myo- and neuro-degenerative disorders such as inclusion body myopathy with Paget disease of the bone and frontotemporal dementia (IBMPFD), amyotrophic lateral sclerosis (ALS) or and hereditary spastic paraplegia (HSP). We analyzed here the <i>in vivo</i> role of Vcp and its novel interactor Washc4/Swip (WASH complex subunit 4) in the vertebrate model zebrafish (<i>Danio rerio</i>). We found that targeted inactivation of either Vcp or Washc4, led to progressive impairment of cardiac and skeletal muscle function, structure and cytoarchitecture without interfering with the differentiation of both organ systems. Notably, loss of Vcp resulted in compromised protein degradation via the proteasome and the macroautophagy/autophagy machinery, whereas Washc4 deficiency did not affect the function of the ubiquitin-proteasome system (UPS) but caused ER stress and interfered with autophagy function <i>in vivo</i>. In summary, our findings provide novel insights into the <i>in vivo</i> functions of Vcp and its novel interactor Washc4 and their particular and distinct roles during proteostasis in striated muscle cells.
DOI: 10.6084/m9.figshare.6844409
title: Defective autophagy in vascular smooth muscle cells enhances cell death and atherosclerosis

description: Macroautophagy/autophagy is considered as an evolutionarily conserved cellular catabolic process. In this study, we aimed to elucidate the role of autophagy in vascular smooth muscle cells (SMCs) on atherosclerosis. SMCs cultured from mice with SMC-specific deletion of the essential autophagy gene <i>atg7</i> (<i>Atg7cKO</i>) showed reduced serum-induced cell growth, increased cell death, and decreased cell proliferation rate. Furthermore, 7-ketocholestrerol enhanced apoptosis and the expression of CCL2 (chemokine [C-C motif] ligand 2) with the activation of TRP53, the mouse ortholog of human and rat TP53, in SMCs from <i>Atg7cKO</i> mice. In addition, <i>Atg7cKO</i> mice crossed with <i>Apoe</i> (apolipoprotein E)-deficient mice (<i>apoeKO; Atg7cKO:apoeKO</i>) showed reduced medial cellularity and increased TUNEL-positive cells in the descending aorta at 10 weeks of age. Intriguingly, <i>Atg7cKO: apoeKO</i> mice fed a Western diet containing 1.25% cholesterol for 14 weeks showed a reduced survival rate. Autopsy of the mice demonstrated the presence of aortic rupture. Analysis of the descending aorta in <i>Atg7cKO:apoeKO</i> mice showed increased plaque area, increased TUNEL-positive area, decreased SMC-positive area, accumulation of macrophages in the media, and adventitia and perivascular tissue, increased CCL2 expression in SMCs in the vascular wall, medial disruption, and aneurysm formation. In conclusion, our data suggest that defective autophagy in SMCs enhances atherosclerotic changes with outward arterial remodeling.
DOI: 10.6084/m9.figshare.6844409.v1
title: Defective autophagy in vascular smooth muscle cells enhances cell death and atherosclerosis

description: Macroautophagy/autophagy is considered as an evolutionarily conserved cellular catabolic process. In this study, we aimed to elucidate the role of autophagy in vascular smooth muscle cells (SMCs) on atherosclerosis. SMCs cultured from mice with SMC-specific deletion of the essential autophagy gene <i>atg7</i> (<i>Atg7cKO</i>) showed reduced serum-induced cell growth, increased cell death, and decreased cell proliferation rate. Furthermore, 7-ketocholestrerol enhanced apoptosis and the expression of CCL2 (chemokine [C-C motif] ligand 2) with the activation of TRP53, the mouse ortholog of human and rat TP53, in SMCs from <i>Atg7cKO</i> mice. In addition, <i>Atg7cKO</i> mice crossed with <i>Apoe</i> (apolipoprotein E)-deficient mice (<i>apoeKO; Atg7cKO:apoeKO</i>) showed reduced medial cellularity and increased TUNEL-positive cells in the descending aorta at 10 weeks of age. Intriguingly, <i>Atg7cKO: apoeKO</i> mice fed a Western diet containing 1.25% cholesterol for 14 weeks showed a reduced survival rate. Autopsy of the mice demonstrated the presence of aortic rupture. Analysis of the descending aorta in <i>Atg7cKO:apoeKO</i> mice showed increased plaque area, increased TUNEL-positive area, decreased SMC-positive area, accumulation of macrophages in the media, and adventitia and perivascular tissue, increased CCL2 expression in SMCs in the vascular wall, medial disruption, and aneurysm formation. In conclusion, our data suggest that defective autophagy in SMCs enhances atherosclerotic changes with outward arterial remodeling.
DOI: 10.6084/m9.figshare.6973862.v2
title: Loss of the novel Vcp (valosin containing protein) interactor Washc4 interferes with autophagy-mediated proteostasis in striated muscle and leads to myopathy <i>in vivo</i>

description: VCP/p97 (valosin containing protein) is a key regulator of cellular proteostasis. It orchestrates protein turnover and quality control <i>in vivo</i>, processes fundamental for proper cell function. In humans, mutations in VCP lead to severe myo- and neuro-degenerative disorders such as inclusion body myopathy with Paget disease of the bone and frontotemporal dementia (IBMPFD), amyotrophic lateral sclerosis (ALS) or and hereditary spastic paraplegia (HSP). We analyzed here the <i>in vivo</i> role of Vcp and its novel interactor Washc4/Swip (WASH complex subunit 4) in the vertebrate model zebrafish (<i>Danio rerio</i>). We found that targeted inactivation of either Vcp or Washc4, led to progressive impairment of cardiac and skeletal muscle function, structure and cytoarchitecture without interfering with the differentiation of both organ systems. Notably, loss of Vcp resulted in compromised protein degradation via the proteasome and the macroautophagy/autophagy machinery, whereas Washc4 deficiency did not affect the function of the ubiquitin-proteasome system (UPS) but caused ER stress and interfered with autophagy function <i>in vivo</i>. In summary, our findings provide novel insights into the <i>in vivo</i> functions of Vcp and its novel interactor Washc4 and their particular and distinct roles during proteostasis in striated muscle cells.
DOI: 10.5281/zenodo.8225189
title: RDM dataset

description: This dataset contains images of the CNR-STIIMA ReDeManufacturing Lab, focusing on three classes of objects: conveyor, pallet, PCB. The dataset comprises real data as pictures of real assets and synthetic data generated using the VR digital twin of the lab.
DOI: 10.6084/m9.figshare.6973862.v1
title: Loss of the novel Vcp (valosin containing protein) interactor Washc4 interferes with autophagy-mediated proteostasis in striated muscle and leads to myopathy <i>in vivo</i>

description: VCP/p97 (valosin containing protein) is a key regulator of cellular proteostasis. It orchestrates protein turnover and quality control <i>in vivo</i>, processes fundamental for proper cell function. In humans, mutations in VCP lead to severe myo- and neuro-degenerative disorders such as inclusion body myopathy with Paget disease of the bone and frontotemporal dementia (IBMPFD), amyotrophic lateral sclerosis (ALS) or and hereditary spastic paraplegia (HSP). We analyzed here the <i>in vivo</i> role of Vcp and its novel interactor Washc4/Swip (WASH complex subunit 4) in the vertebrate model zebrafish (<i>Danio rerio</i>). We found that targeted inactivation of either Vcp or Washc4, led to progressive impairment of cardiac and skeletal muscle function, structure and cytoarchitecture without interfering with the differentiation of both organ systems. Notably, loss of Vcp resulted in compromised protein degradation via the proteasome and the macroautophagy/autophagy machinery, whereas Washc4 deficiency did not affect the function of the ubiquitin-proteasome system (UPS) but caused ER stress and interfered with autophagy function <i>in vivo</i>. In summary, our findings provide novel insights into the <i>in vivo</i> functions of Vcp and its novel interactor Washc4 and their particular and distinct roles during proteostasis in striated muscle cells.