cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7667123
title: Validation of an OpenSim full-body model with detailed lumbar spine for estimating lower lumbar spine loads during symmetric and asymmetric lifting tasks

description: There is currently no validated full-body lifting model publicly available on the OpenSim modelling platform to estimate spinal loads during lifting. In this study, the existing full-body-lumbar-spine model was adapted and validated for lifting motions to produce the lifting full-body model. Back muscle activations predicted by the model closely matched the measured erector spinae activation patterns. Model estimates of intradiscal pressures and <i>in vivo</i> measurements were strongly correlated. The same spine loading trends were observed for model estimates and reported vertebral body implant measurements. These results demonstrate the suitability of this model to evaluate changes in lumbar loading during lifting.
DOI: 10.6084/m9.figshare.7667099
title: Raw RT-qPCR values

description: Raw values for RT-qPCR experiments. Relating to Figures 2-7
DOI: 10.6084/m9.figshare.7667111.v1
title: Lipid Library Summmary Data

description: Total lipid fatty acids (TLFA) in tissues of plants, algae and bacteria. Overall 62 bacteria, 59 algae and 48 plant samples were investigated, with the latter separated in 24 leaf and 24 root tissue samples. Fungal data used in the analyses can be found in Rueß et al. 2002 [21] and Rueß et al. 2004 [10].
DOI: 10.6084/m9.figshare.7667114
title: Safe usage of bicalutamide and goserelin in a male patient with acute intermittent porphyria and prostate cancer

description: Safe usage of bicalutamide and goserelin in a male patient with acute intermittent porphyria and prostate cancer
DOI: 10.7284/125181
title: TSG (Thermosalinograph) data collected during research cruise CB1039 using a Sea-Bird SBE-21 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7667096
title: Code and Data for "The relative importance of local and regional processes to metapopulation dynamics"

description: Code and data to reproduce the analyses from the manuscript:<br>Dallas, T, T Schulz, M Saastamoinen, and O Ovaskainen. The relative importance of local and regional processes to metapopulation dynamics<br><br>
DOI: 10.6084/m9.figshare.7667114.v1
title: Safe usage of bicalutamide and goserelin in a male patient with acute intermittent porphyria and prostate cancer

description: Safe usage of bicalutamide and goserelin in a male patient with acute intermittent porphyria and prostate cancer
DOI: 10.6084/m9.figshare.7667123.v1
title: Validation of an OpenSim full-body model with detailed lumbar spine for estimating lower lumbar spine loads during symmetric and asymmetric lifting tasks

description: There is currently no validated full-body lifting model publicly available on the OpenSim modelling platform to estimate spinal loads during lifting. In this study, the existing full-body-lumbar-spine model was adapted and validated for lifting motions to produce the lifting full-body model. Back muscle activations predicted by the model closely matched the measured erector spinae activation patterns. Model estimates of intradiscal pressures and <i>in vivo</i> measurements were strongly correlated. The same spine loading trends were observed for model estimates and reported vertebral body implant measurements. These results demonstrate the suitability of this model to evaluate changes in lumbar loading during lifting.
DOI: 10.7284/125184
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise CB1041 using a RDI WM-600 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7667069
title: Quality reports of the RRBS data after the quality trimming

description: The FastQC-reports of the 63 RRBS libraries after quality trimming. The plots follow the standard FasQC-format and include basic statistics, per base sequence quality, per tile sequence quality, per sequence quality scores, per base sequence content, per sequence GC content, per base N content, sequence length distribution, sequence duplication levels, overrepresented sequences and adapter content.
DOI: 10.6084/m9.figshare.7667060
title: Supplementary Material for: Yield of Screening Tests for Systemic Vasculitis in Young Adults with Ischemic Stroke

description: Systemic vasculitis, which can involve the brain, may be one of the causes of stroke in young adults; therefore, a test panel for systemic vasculitis is considered for some young stroke patients. However, little is known about this test’s yield as a screening test in young adults with ischemic stroke. We evaluated the yield of a panel for systemic vasculitis as a screening test in young patients with ischemic stroke. Consecutive patients aged 18–45 years with ischemic stroke between January 2010 and December 2017 were included. They all underwent screening tests for systemic vasculitis including rheumatoid factor, antinuclear antibody, antineutrophil cytoplasmic antibodies, anticardiolipin antibody, lupus anticoagulant, antiphospholipid antibody, anti-DNA antibody, and anti-Ro/SSA and La/SSB antibodies. Among 3,593 consecutive patients with acute ischemic stroke during the study period, 198 (5.5%) were aged 18–45 years. Only 4 patients (2.0%) were diagnosed with systemic vasculitis; 2 had systemic lupus erythematosus, 1 had Sjogren’s syndrome, and 1 had Churg-Strauss syndrome. Vasculitis panel screening in every young ischemic stroke patient does not yield great results unless a vasculitic process is highly suspected based on other systemic symptoms or signs of vasculitis. Screening should be targeted toward persons with clinical suspicion.
DOI: 10.6084/m9.figshare.7667099.v1
title: Raw RT-qPCR values

description: Raw values for RT-qPCR experiments. Relating to Figures 2-7
DOI: 10.6084/m9.figshare.7667099.v2
title: Raw RT-qPCR values

description: Raw values for RT-qPCR experiments. Relating to Figures 2-7
DOI: 10.6084/m9.figshare.7667054
title: Quality reports of RRBS data before quality trimming

description: The FastQC-reports of the 63 RRBS libraries before quality trimming. The plots follow the standard FasQC-format and include basic statistics, per base sequence quality, per tile sequence quality, per sequence quality scores, per base sequence content, per sequence GC content, per base N content, sequence length distribution, sequence duplication levels, overrepresented sequences and adapter content.
DOI: 10.7284/125187
title: Barometer data collected during research cruise CB1041 using a RM Young 61302 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7667054.v1
title: Quality reports of RRBS data before quality trimming

description: The FastQC-reports of the 63 RRBS libraries before quality trimming. The plots follow the standard FasQC-format and include basic statistics, per base sequence quality, per tile sequence quality, per sequence quality scores, per base sequence content, per sequence GC content, per base N content, sequence length distribution, sequence duplication levels, overrepresented sequences and adapter content.
DOI: 10.6084/m9.figshare.7667030
title: Sequencing design, alignment and methylation statistics calculated from the data described in the manuscript 'Temporally replicated reduced representation bisulfite sequencing data on dna methylation patterns in Great tit'.

description: Sequence and alignment information for the 63 libraries used in the manuscript 'Temporally replicated reduced representation bisulfite sequencing data on dna methylation patterns in Great tit'.
DOI: 10.7284/125183
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise CB1041 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7667027
title: Supplementary Material for: Idiopathic Generalized Exfoliative Dermatitis and Association with Antihypertensive Drugs and Statins: A Retrospective Case-Control Study

description: <b><i>Background/Aims:</i></b> We aim to examine the hypothesis that antihypertensive drugs and statins may be responsible for the development of idiopathic generalized exfoliative dermatitis (GED) with a case-control study. <b><i>Methods:</i></b> All inpatients who were hospitalized under the dermatology service at the Tan Tock Seng Hospital, Singapore, between 1 May 2013 and 31 May 2015, were analysed. Idiopathic GED cases had consistent clinical and histological features but no apparent cause despite comprehensive evaluation. Controls were randomly selected from inpatients with other dermatological conditions in a 1: 1 ratio during the same period. Their relationship was analysed using univariate (χ<sup>2</sup> or Fisher exact tests) and multivariate logistic regression analysis. <b><i>Results:</i></b> There were 78 cases and 83 controls. Of the 78 cases, 42 patients had a history of treatment with antihypertensive drugs or statins. Cases were not found to be more likely on angiotensin-converting enzyme inhibitors, angiotensin receptor blockers, β-blockers, calcium channel blockers, thiazides or statins compared to controls (OR: 0.81; 95% CI: 0.43–1.51; <i>p</i> = 0.507). <b><i>Conclusions:</i></b> There was insufficient evidence to suggest a significant relationship between the chronic use of antihypertensive drugs or statins and idiopathic GED in this study, despite previous evidence reporting this might be so. Further case-control studies with larger sample sizes are needed to evaluate this association.
DOI: 10.6084/m9.figshare.7667027.v1
title: Supplementary Material for: Idiopathic Generalized Exfoliative Dermatitis and Association with Antihypertensive Drugs and Statins: A Retrospective Case-Control Study

description: <b><i>Background/Aims:</i></b> We aim to examine the hypothesis that antihypertensive drugs and statins may be responsible for the development of idiopathic generalized exfoliative dermatitis (GED) with a case-control study. <b><i>Methods:</i></b> All inpatients who were hospitalized under the dermatology service at the Tan Tock Seng Hospital, Singapore, between 1 May 2013 and 31 May 2015, were analysed. Idiopathic GED cases had consistent clinical and histological features but no apparent cause despite comprehensive evaluation. Controls were randomly selected from inpatients with other dermatological conditions in a 1: 1 ratio during the same period. Their relationship was analysed using univariate (χ<sup>2</sup> or Fisher exact tests) and multivariate logistic regression analysis. <b><i>Results:</i></b> There were 78 cases and 83 controls. Of the 78 cases, 42 patients had a history of treatment with antihypertensive drugs or statins. Cases were not found to be more likely on angiotensin-converting enzyme inhibitors, angiotensin receptor blockers, β-blockers, calcium channel blockers, thiazides or statins compared to controls (OR: 0.81; 95% CI: 0.43–1.51; <i>p</i> = 0.507). <b><i>Conclusions:</i></b> There was insufficient evidence to suggest a significant relationship between the chronic use of antihypertensive drugs or statins and idiopathic GED in this study, despite previous evidence reporting this might be so. Further case-control studies with larger sample sizes are needed to evaluate this association.
DOI: 10.6084/m9.figshare.7667030.v1
title: SupplementaryTable_1.xlsx

description: Sequence and alignment information for the 63 libraries used in the manuscript 'Temporally replicated reduced representation bisulfite sequencing data on dna methylation patterns in Great tit'.
DOI: 10.7284/125191
title: GNSS (Global Navigation Satellite System) data collected during research cruise CB1041 using a Furuno GP-320B instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7666997
title: Anthropogenic alluvial sediments in North Carolina Piedmont gullies indicate swift geomorphic response to 18th century land-use practices

description: Gullies are common erosional features in the Piedmont of North Carolina that have often been studied as indicators of poor land-management practices. However, the timing of gully formation, and thus the specific practices that caused their formation, has been largely overlooked in the literature. Here, we use the timing of gully formation to examine the geomorphic and anthropogenic triggers for erosion in the Piedmont. To do this, we mapped 74 gullies in the landscape and found that most contained alluvium within the gully or in alluvial fans. Soil pits were dug at a subset of the gully sites (16 in alluvium, 1 in colluvium, and 1 upland comparison) and examined for soil development, organic content, and particle size. Seven charcoal fragments were sampled from the soil pits and were radiocarbon dated. Radiocarbon ages cluster in the late 1700s, which suggests that early European settlers had an immediate impact on the landscape through deforestation and agriculture. The swift response of the landscape to deforestation and agriculture indicates that the argillic Piedmont soils are pre-disposed to erosion. Our results highlight the importance of erosion prevention as reforested farmland is cleared during urban expansion.
DOI: 10.6084/m9.figshare.7666997.v1
title: Anthropogenic alluvial sediments in North Carolina Piedmont gullies indicate swift geomorphic response to 18th century land-use practices

description: Gullies are common erosional features in the Piedmont of North Carolina that have often been studied as indicators of poor land-management practices. However, the timing of gully formation, and thus the specific practices that caused their formation, has been largely overlooked in the literature. Here, we use the timing of gully formation to examine the geomorphic and anthropogenic triggers for erosion in the Piedmont. To do this, we mapped 74 gullies in the landscape and found that most contained alluvium within the gully or in alluvial fans. Soil pits were dug at a subset of the gully sites (16 in alluvium, 1 in colluvium, and 1 upland comparison) and examined for soil development, organic content, and particle size. Seven charcoal fragments were sampled from the soil pits and were radiocarbon dated. Radiocarbon ages cluster in the late 1700s, which suggests that early European settlers had an immediate impact on the landscape through deforestation and agriculture. The swift response of the landscape to deforestation and agriculture indicates that the argillic Piedmont soils are pre-disposed to erosion. Our results highlight the importance of erosion prevention as reforested farmland is cleared during urban expansion.
DOI: 10.6084/m9.figshare.7667030.v2
title: SupplementaryTable_1.xlsx

description: Sequence and alignment information for the 63 libraries used in the manuscript 'Temporally replicated reduced representation bisulfite sequencing data on dna methylation patterns in Great tit'.
DOI: 10.7284/125188
title: Radiometer data collected during research cruise CB1041 using a Biospherical QSP-2150 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/125189
title: Singlebeam Echosounder data collected during research cruise CB1041 using a Knudsen 320M instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7666907
title: Interleukin 4 induces rapid mucin transport, increases mucus thickness and quality and decreases colitis and <i>Citrobacter rodentium</i> in contact with epithelial cells

description: <i>Citrobacter rodentium</i> infection is a murine model for pathogenic intestinal <i>Escherichia coli</i> infection. <i>C. rodentium</i> infection causes an initial decrease in mucus layer thickness, followed by an increase during clearance. We aimed to identify the cause of these changes and to utilize this naturally occurring mucus stimulus to decrease pathogen impact and inflammation. We identified that mucin production and speed of transport from Golgi to secretory vesicles at the apical surface increased concomitantly with increased mucus thickness. Of the cytokines differentially expressed during increased mucus thickness, IFN-γ and TNF-α decreased the mucin production and transport speed, whereas IL-4, IL-13, <i>C. rodentium</i> and <i>E. coli</i> enhanced these aspects. IFN-γ and TNF-α treatment in combination with <i>C. rodentium</i> and pathogenic <i>E. coli</i> infection negatively affected mucus parameters <i>in vitro</i>, which was relieved by IL-4 treatment. The effect of IL-4 was more pronounced than that of IL-13, and in wild type mice, only IL-4 was present. Increased expression of <i>Il-4, Il-4-receptor α, Stat6</i> and <i>Spdef</i> during clearance indicate that this pathway contributes to the increase in mucin production. <i>In vivo</i> IL-4 administration initiated 10 days after infection increased mucus thickness and quality and decreased colitis and pathogen contact with the epithelium. Thus, during clearance of infection, the concomitant increase in IL-4 protects and maintains goblet cell function against the increasing levels of TNF-α and IFN-γ. Furthermore, IL-4 affects intestinal mucus production, pathogen contact with the epithelium and colitis. IL-4 treatment may thus have therapeutic benefits for mucosal healing.
DOI: 10.7284/125190
title: TSG (Thermosalinograph) data collected during research cruise CB1041 using a Sea-Bird SBE-21 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7666907.v1
title: Interleukin 4 induces rapid mucin transport, increases mucus thickness and quality and decreases colitis and <i>Citrobacter rodentium</i> in contact with epithelial cells

description: <i>Citrobacter rodentium</i> infection is a murine model for pathogenic intestinal <i>Escherichia coli</i> infection. <i>C. rodentium</i> infection causes an initial decrease in mucus layer thickness, followed by an increase during clearance. We aimed to identify the cause of these changes and to utilize this naturally occurring mucus stimulus to decrease pathogen impact and inflammation. We identified that mucin production and speed of transport from Golgi to secretory vesicles at the apical surface increased concomitantly with increased mucus thickness. Of the cytokines differentially expressed during increased mucus thickness, IFN-γ and TNF-α decreased the mucin production and transport speed, whereas IL-4, IL-13, <i>C. rodentium</i> and <i>E. coli</i> enhanced these aspects. IFN-γ and TNF-α treatment in combination with <i>C. rodentium</i> and pathogenic <i>E. coli</i> infection negatively affected mucus parameters <i>in vitro</i>, which was relieved by IL-4 treatment. The effect of IL-4 was more pronounced than that of IL-13, and in wild type mice, only IL-4 was present. Increased expression of <i>Il-4, Il-4-receptor α, Stat6</i> and <i>Spdef</i> during clearance indicate that this pathway contributes to the increase in mucin production. <i>In vivo</i> IL-4 administration initiated 10 days after infection increased mucus thickness and quality and decreased colitis and pathogen contact with the epithelium. Thus, during clearance of infection, the concomitant increase in IL-4 protects and maintains goblet cell function against the increasing levels of TNF-α and IFN-γ. Furthermore, IL-4 affects intestinal mucus production, pathogen contact with the epithelium and colitis. IL-4 treatment may thus have therapeutic benefits for mucosal healing.
DOI: 10.7284/125193
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise CB1042 using a RDI WM-600 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/125194
title: Anemometer data collected during research cruise CB1042 using a RM Young 05106 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7666775
title: Additional file 1: of CeL-ID: cell line identification using RNA-seq data

description: List of sample names in CCLE dataset (BG-04-S1.xls). (XLS 92 kb)
DOI: 10.6084/m9.figshare.7666778
title: Additional file 2: of CeL-ID: cell line identification using RNA-seq data

description: Test results on an independent test set of eight HCT116 cells obtained from GSE101966 (BG-04-S2.xls). (XLS 38 kb)
DOI: 10.6084/m9.figshare.7666775.v1
title: Additional file 1: of CeL-ID: cell line identification using RNA-seq data

description: List of sample names in CCLE dataset (BG-04-S1.xls). (XLS 92 kb)
DOI: 10.7284/125196
title: Barometer data collected during research cruise CB1042 using a RM Young 61302 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/125192
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise CB1042 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/125200
title: GNSS (Global Navigation Satellite System) data collected during research cruise CB1042 using a Furuno GP-320B instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/125195
title: Hygrometer data collected during research cruise CB1042 using a RM Young 41382 instrument system onboard the platform RV Clifford A. Barnes

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7666409
title: 6MP Allopurinol hypoglycemia patient data SPSS

description: Data fields from left to rightUnique Patient number<br>Maintenance day<br>Glucose<br>ALT (Alanine AminoTransferase)<br>ALC (Absolute Lymphocyte Count<br>ANC (Absolute Neutrophil Count<br>WBC (White Blood Count<br>Hemoglobin<br>6MMP x 10^3 (6-methylmercaptopurine pg/8x10^8 RBC)<br>6TGN (6-Thioguanine pg/8x10^8 RBC)<br>6MP mg/m2 _mercaptopurine dose<br>MTX mg/m2 methotrexate dose<br>allopurinol dose in mg
DOI: 10.6084/m9.figshare.7666403
title: Subsurface S<sub>HMAX</sub> determined from a borehole image log, onshore southern East Coast Basin, New Zealand

description: Understanding the <i>in-situ</i> stress field in the subsurface provides insights on the tectonic processes and seismic hazards of a basin. This paper presents observations and interpretations of present day maximum horizontal stress (S<sub>Hmax</sub>) orientation from well Ranui-2 located in the onshore southern East Coast Basin. Fractures identified in the Ranui-2 image log have been divided into distinct subsets based on fracture orientation. These subsets correspond in a general sense, to changes in lithology in the well, which are associated with changes in formations. Analysis of the image log shows the present day S<sub>Hmax</sub> in the borehole has two primary stress directions, W–E and NW–SE, and most of the fractures strike NE–SW. The change in S<sub>Hmax</sub> occurs at a depth of <i>circa.</i> 1130 m measured depth (918 m true vertical depth subsea), below the depth at which the borehole changes from vertical to ≥10° deviation. When these data are compared to the regional stress field obtained using other stress indicators such as earthquake focal mechanisms, the results are consistent with each other. This study shows that shallow subsurface indications of present-day S<sub>Hmax</sub> in southeastern North Island reflect S<sub>Hmax</sub> orientations from deeper within the subsurface.