cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6855281
title: Datasheets used in paper: "Revisiting the safety of aspartame” by Arbind Kumar Choudhary and Etheresia Pretorius: Nutrition 5 Reviews 2017; 75(9): 718–73

description: USDA original datasheets: p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; font: 10.0px Times} USDA National Nutrient Database for Standard Reference
DOI: 10.6084/m9.figshare.6855281.v1
title: Datasheets used in paper: "Revisiting the safety of aspartame” by Arbind Kumar Choudhary and Etheresia Pretorius: Nutrition 5 Reviews 2017; 75(9): 718–73

description: USDA original datasheets: p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; font: 10.0px Times} USDA National Nutrient Database for Standard Reference
DOI: 10.6084/m9.figshare.6856262.v2
title: Average Monthly Precipitation for Boulder, CO (.csv)

description: These data are used in the Earth Analytics Bootcamp Day 4 Lesson on Pandas Dataframes. These data were originally downloaded from the National Oceanic and Atmospheric Administration (NOAA).
DOI: 10.6084/m9.figshare.6856262.v3
title: Average Monthly Precipitation for Boulder, CO (.csv)

description: These data are used in the Earth Analytics Bootcamp Day 4 Lesson on Pandas Dataframes. These data were originally downloaded from the National Oceanic and Atmospheric Administration (NOAA).
DOI: 10.6084/m9.figshare.6855203
title: Species Temperature Index and thermal range information forNorth Pacific and North Atlantic plankton and bottom trawl species

description: Data supporting analyses in Burrows, M. T., A. E. Bates, M. J. Costello, M. Edwards, G. J. Edgar, C. J. Fox, B. S. Halpern, J. G. Hiddink, M. L. Pinsky, R. D. Batt, J. García Molinos, B. Payne, D. Schoeman, R. D. Stuart-Smith, and E. S. Poloczanska. 2018. Thermal affinities and vertical temperature gradients predict responses to warming in ocean communities. Nature, in review. <br>Two files. 1. Species range quantiles of temperature (mxesr.csv). 2. Description of dataset
DOI: 10.6084/m9.figshare.6855173
title: Global methylation profiles in buccal cells of long-term smokers and moist snuff consumers

description: <b>Purpose:</b> Alternations in gene methylation and other epigenetic changes regulate normal development as well as drive disease progression. The aim of this study is to investigate global methylation changes in the buccal cells of smokers and smokeless tobacco users. <b>Materials and methods:</b> Generally healthy adult male subjects were recruited into smoker (SMK), moist snuff consumer (MSC) and non-tobacco consumer (NTC) cohorts (40 subjects/cohort) (ClinicalTrials.gov Identifier: NCT01923402). Global methylation profiling was performed on Illumina 450 K methylation arrays using buccal cell DNAs. <b>Results:</b> The SMK cohort exhibited larger qualitative and quantitative changes relative to MSC. Approximately half of the differentially methylated 1252 gene loci were grouped as combustible tobacco-related (CTR) signatures and a third of the changes, tobacco-related (TR) signatures, were associated with smoking. Very few (41) differentially methylated gene loci were exclusively associated with moist snuff use and were designated as moist snuff-related (MSR) signature. Pathway enrichment analyses revealed that developmental and immune response pathways, among others, were impacted due to tobacco use. <b>Conclusions:</b> Chronic cigarette smoking causes hyper- and hypo-methylation of genes that could contribute to smoking-related diseases. These results help place combustible and non-combustible tobacco products along a risk continuum and provide additional insights into the effects of tobacco consumption.
DOI: 10.6084/m9.figshare.6855173.v1
title: Global methylation profiles in buccal cells of long-term smokers and moist snuff consumers

description: <b>Purpose:</b> Alternations in gene methylation and other epigenetic changes regulate normal development as well as drive disease progression. The aim of this study is to investigate global methylation changes in the buccal cells of smokers and smokeless tobacco users. <b>Materials and methods:</b> Generally healthy adult male subjects were recruited into smoker (SMK), moist snuff consumer (MSC) and non-tobacco consumer (NTC) cohorts (40 subjects/cohort) (ClinicalTrials.gov Identifier: NCT01923402). Global methylation profiling was performed on Illumina 450 K methylation arrays using buccal cell DNAs. <b>Results:</b> The SMK cohort exhibited larger qualitative and quantitative changes relative to MSC. Approximately half of the differentially methylated 1252 gene loci were grouped as combustible tobacco-related (CTR) signatures and a third of the changes, tobacco-related (TR) signatures, were associated with smoking. Very few (41) differentially methylated gene loci were exclusively associated with moist snuff use and were designated as moist snuff-related (MSR) signature. Pathway enrichment analyses revealed that developmental and immune response pathways, among others, were impacted due to tobacco use. <b>Conclusions:</b> Chronic cigarette smoking causes hyper- and hypo-methylation of genes that could contribute to smoking-related diseases. These results help place combustible and non-combustible tobacco products along a risk continuum and provide additional insights into the effects of tobacco consumption.
DOI: 10.6084/m9.figshare.6855140
title: Substance abuse at early age as a potential risk factor for driving under the influence of substance in Jeddah, Saudi Arabia: A cross-sectional study

description: <b>Objective:</b> Worldwide, trauma is a major health problem, and road traffic accidents (RTAs) are the primary cause of death among young men in Saudi Arabia. The aim of our study was to estimate the extent of driving under the influence of an abused substance in Saudi Arabia and to explore the associated factors. <b>Methods:</b> This is a cross-sectional survey conducted between May and September 2016 at Al-Amal Hospital in Jeddah, Saudi Arabia, a referral center for addiction. We included all patients who were admitted for additional education and rehabilitation and had no psychotic symptoms. We used a standardized and pretested questionnaire to collect data regarding sociodemographic and socioeconomic characteristics, history of and current substance abuse, driving under the influence of an abused substance, injuries, imprisonment, and fatalities under the influence of an abused substance. Whenever possible, we compared self-reported data with medical records and resolved any conflict by discussion with the patient. <b>Results:</b> A total of 101 out of 112 invited patients participated in our study (90.2%). The mean age of the participants was 33.28 years (SD = 9.46 years). Of the total, 93.1% (<i>n</i> = 94) drove under the influence of an abused substance. Amphetamines and alcohol were the first substance abused (56.4% [<i>n</i> = 57] and 25.7% [<i>n</i> = 26] of patients, respectively). As currently abused substances, amphetamines and cannabis were reported in 38.6% (<i>n</i> = 39) and 24.8% (<i>n</i> = 25) of participants, respectively. The mean age at the time of the first substance abuse was 18.76 years (SD = 4.99 years). In the univariate regression (odds ratio [OR] = 0.86; 95% confidence interval [CI], 0.75–0.99; <i>P</i> = .046) but not the multivariate regression (OR =0.87; 95% CI, 0.75–1.00; <i>P</i> = .056), a younger age at the time of the first substance abuse was associated with a higher probability of driving under the influence of an abused substance. <b>Conclusions:</b> Our study showed that among individuals hospitalized due to substance abuse problems, driving under the influence of drugs and alcohol was common. Preventive measures to reduce driving under the influence should be introduced in addition to specialized hospitals. Further research is required to investigate the factors associated with driving under the influence of abused substances in Saudi Arabia.
DOI: 10.6084/m9.figshare.6855140.v2
title: Substance abuse at early age as a potential risk factor for driving under the influence of substance in Jeddah, Saudi Arabia: A cross-sectional study

description: <b>Objective:</b> Worldwide, trauma is a major health problem, and road traffic accidents (RTAs) are the primary cause of death among young men in Saudi Arabia. The aim of our study was to estimate the extent of driving under the influence of an abused substance in Saudi Arabia and to explore the associated factors. <b>Methods:</b> This is a cross-sectional survey conducted between May and September 2016 at Al-Amal Hospital in Jeddah, Saudi Arabia, a referral center for addiction. We included all patients who were admitted for additional education and rehabilitation and had no psychotic symptoms. We used a standardized and pretested questionnaire to collect data regarding sociodemographic and socioeconomic characteristics, history of and current substance abuse, driving under the influence of an abused substance, injuries, imprisonment, and fatalities under the influence of an abused substance. Whenever possible, we compared self-reported data with medical records and resolved any conflict by discussion with the patient. <b>Results:</b> A total of 101 out of 112 invited patients participated in our study (90.2%). The mean age of the participants was 33.28 years (SD = 9.46 years). Of the total, 93.1% (<i>n</i> = 94) drove under the influence of an abused substance. Amphetamines and alcohol were the first substance abused (56.4% [<i>n</i> = 57] and 25.7% [<i>n</i> = 26] of patients, respectively). As currently abused substances, amphetamines and cannabis were reported in 38.6% (<i>n</i> = 39) and 24.8% (<i>n</i> = 25) of participants, respectively. The mean age at the time of the first substance abuse was 18.76 years (SD = 4.99 years). In the univariate regression (odds ratio [OR] = 0.86; 95% confidence interval [CI], 0.75–0.99; <i>P</i> = .046) but not the multivariate regression (OR =0.87; 95% CI, 0.75–1.00; <i>P</i> = .056), a younger age at the time of the first substance abuse was associated with a higher probability of driving under the influence of an abused substance. <b>Conclusions:</b> Our study showed that among individuals hospitalized due to substance abuse problems, driving under the influence of drugs and alcohol was common. Preventive measures to reduce driving under the influence should be introduced in addition to specialized hospitals. Further research is required to investigate the factors associated with driving under the influence of abused substances in Saudi Arabia.
DOI: 10.6084/m9.figshare.6855125
title: Trends in Community Temperature Index for bottom trawls and plankton from 1985 to 2014. Summary statistics from regression models

description: Data from Extended Data Figure 9 in Burrows, M. T., A. E. Bates, M. J. Costello, M. Edwards, G. J. Edgar, C. J. Fox, B. S. Halpern, J. G. Hiddink, M. L. Pinsky, R. D. Batt, J. García Molinos, B. Payne, D. Schoeman, R. D. Stuart-Smith, and E. S. Poloczanska. 2018. Thermal affinities and vertical temperature gradients predict responses to warming in ocean communities. Nature, in review. <br>Two files: The data, and the description of each variable in the dataset.
DOI: 10.6084/m9.figshare.6855140.v1
title: Substance Abuse at Early Age as a Potential Risk Factor for Driving under the Influence of Substance in Jeddah, Saudi Arabia: A Cross-Sectional Study

description: <b>Objective:</b> Worldwide, trauma is a major health problem and road traffic accidents (RTAs) are the primary killer of young men in Saudi Arabia. The aim of our study was to estimate the extent of driving under the influence of an abused substance in Saudi Arabia and to explore the associated factors. <b>Methods:</b> This is a cross sectional survey conducted between May and September 2016 at Al-Amal hospital in Jeddah, Saudi Arabia, a referral center for addiction. We included all patients who were admitted for additional education and rehabilitation and had no psychotic symptoms. We used a standardized and pre-tested questionnaire to collect data regarding socio-demographic and socio-economic characteristics, history of and current substance abuse, driving under the influence of an abused substance, injuries, imprisonment and fatalities under the influence of an abused substance. Whenever possible, we compared the self-reported data with medical records and resolved any conflict by discussing with the patient. <b>Results:</b> A total of 101 out of 112 invited patients participated in our study (90.2%). The mean age of the participants was 33.28 years (SD = 9.46 years). Of the total, 93.1% (n = 94) drove under the influence of an abused substance. Amphetamines and alcohol were the first substance abused in 56.4% (n = 57) and 25.7% (n = 26) of the patients, respectively. As currently abused substances, amphetamines and cannabis were reported in 38.6% (n = 39) and 24.8% (n = 25) of the participants, respectively. The mean age at the time of the first substance abuse was 18.76 years (SD = 4.99 years). In the univariate (OR = 0.86; 95%-CI = 0.75 – 0.99; p = 0.046) but not the multivariate (OR = 0.87; 95%-CI = 0.75 – 1.00; p = 0.056) regression, a younger age at the time of the first substance abuse was associated with a higher probability to drive under the influence of an abused substance. <b>Conclusions:</b> Our study showed that among individuals hospitalized due to substance abuse problems, driving under the influence of drugs and alcohol was common. Preventive measures to reduce driving under the influence should be introduced in addiction to specialized hospitals. Further research is required to investigate the factors associated with driving under the influence of abused substances in Saudi Arabia.
DOI: 10.6084/m9.figshare.6855023
title: Maps of Community Temperature Index, Community Thermal Diversity and Community Thermal Range for plankton and bottom trawl surveys in the North Atlantic and North Pacific from 1985 to 2014. Derived from sea surface temperature

description: Maps from Extended Data Fig. 5 in Burrows, M. T., A. E. Bates, M. J. Costello, M. Edwards, G. J. Edgar, C. J. Fox, B. S. Halpern, J. G. Hiddink, M. L. Pinsky, R. D. Batt, J. García Molinos, B. Payne, D. Schoeman, R. D. Stuart-Smith, and E. S. Poloczanska. 2018. Thermal affinities and vertical temperature gradients predict responses to warming in ocean communities. Nature, in review.<br>Files are Geotiffs. Values are based on Species Temperature Indices from modelled global species distributions matched to Hadley Centre HadISST sea surface temperature.<br><br>
DOI: 10.6084/m9.figshare.6855056
title: SMM-CD_ESIP_2018sum_v2r1_20180710.pdf

description: This poster aims to facilitate the ESIP-wide review of a Stewardship Maturity Matrix for Climate Data (SMM-CD) to ensure and improve its quality.<br>
DOI: 10.6084/m9.figshare.6855023.v1
title: Maps of Community Temperature Index, Community Thermal Diversity and Community Thermal Range for plankton and bottom trawl surveys in the North Atlantic and North Pacific from 1985 to 2014. Derived from sea surface temperature

description: Maps from Extended Data Fig. 5 in Burrows, M. T., A. E. Bates, M. J. Costello, M. Edwards, G. J. Edgar, C. J. Fox, B. S. Halpern, J. G. Hiddink, M. L. Pinsky, R. D. Batt, J. García Molinos, B. Payne, D. Schoeman, R. D. Stuart-Smith, and E. S. Poloczanska. 2018. Thermal affinities and vertical temperature gradients predict responses to warming in ocean communities. Nature, in review.<br>Files are Geotiffs. Values are based on Species Temperature Indices from modelled global species distributions matched to Hadley Centre HadISST sea surface temperature.<br><br>
DOI: 10.6084/m9.figshare.6854951
title: Boyce et al. 2018 Tables S1-S17.xlsx

description: Supplemental tables for "Discovery of psychoactive plant and mushroom alkaloids in ancient fungal cicada pathogens."
DOI: 10.6084/m9.figshare.6854816
title: Maps of Community Temperature Index, Community Thermal Diversity and Community Thermal Range for plankton and bottom trawl surveys in the North Atlantic and North Pacific from 1985 to 2014. Derived from seabed temperature

description: Maps from Extended Data Fig. 5 in Burrows, M. T., A. E. Bates, M. J. Costello, M. Edwards, G. J. Edgar, C. J. Fox, B. S. Halpern, J. G. Hiddink, M. L. Pinsky, R. D. Batt, J. García Molinos, B. Payne, D. Schoeman, R. D. Stuart-Smith, and E. S. Poloczanska. 2018. Thermal affinities and vertical temperature gradients predict responses to warming in ocean communities. Nature, in review. <br>Files are Geotiffs. Values are based on Species Temperature Indices from modelled global species distributions matched to Hadley Centre EN4 seabed temperature.
DOI: 10.6084/m9.figshare.6854777
title: Data matrix from A giant dapediid from the Late Triassic of Switzerland and insights into neopterygian phylogeny

description: Nexus format file containing the morphological data matrix
DOI: 10.6084/m9.figshare.6854777.v1
title: Data matrix from A giant dapediid from the Late Triassic of Switzerland and insights into neopterygian phylogeny

description: Nexus format file containing the morphological data matrix
DOI: 10.6084/m9.figshare.6854750
title: Raw data.doc

description: Raw data on reactive transport through granitic rock fractures
DOI: 10.6084/m9.figshare.6854750.v1
title: Raw data.doc

description: Raw data on reactive transport through granitic rock fractures
DOI: 10.6084/m9.figshare.6854738
title: Alignments and trees from No detectable effect of <i>Wolbachia w</i>Mel on the prevalence and abundance of the RNA virome of <i>Drosophila melanogaster</i>

description: <i>Wolbachia</i> is an endosymbiotic bacterium that can block viral infections in arthropods, generating interest in its potential to control the spread of mosquito-borne disease. <i>Drosophila melanogaster</i> is model organism for <i>Wolbachia</i> infection, and the <i>w</i>Mel strain of <i>Wolbachia</i> can improve host survival following viral infection. However, it is unclear whether <i>w</i>Mel induces anti-viral blocking against the broader native virome of <i>D. melanogaster</i>, or whether the major effect of <i>Wolbachia</i> is a reduction in viral abundance rather than viral clearance. We examined the effect of <i>Wolbachia</i> on viral abundance by comparing the total transcriptome of <i>w</i>Mel-positive and <i>w</i>Mel-negative <i>D. melanogaster</i> populations sampled from six locations in Australia. In addition, we examined the impact of <i>w</i>Mel on individual flies by obtaining transcriptome data from 20 <i>w</i>Mel-positive and 20 <i>w</i>Mel-negative <i>D. melanogaster</i> from the location (Melbourne) with highest density of <i>w</i>Mel. These data revealed high viral abundance in both <i>Wolbachia</i>-positive and -negative populations and individuals. Notably, none of the viral species identified, representing RNA viruses from at least nine families/floating genera, showed evidence of protection by <i>w</i>Mel. Although the viral loads of picorna-like viruses are reduced by <i>w</i>Mel under experimental conditions, we observed no such effect here. These data show that <i>D. melanogaster</i> can harbour abundant RNA viruses regardless of its <i>Wolbachia</i> status and imply that the interaction between <i>Wolbachia</i> and viruses in nature is more complex than simple blocking.
DOI: 10.6084/m9.figshare.6854738.v1
title: Alignments and trees from No detectable effect of <i>Wolbachia w</i>Mel on the prevalence and abundance of the RNA virome of <i>Drosophila melanogaster</i>

description: <i>Wolbachia</i> is an endosymbiotic bacterium that can block viral infections in arthropods, generating interest in its potential to control the spread of mosquito-borne disease. <i>Drosophila melanogaster</i> is model organism for <i>Wolbachia</i> infection, and the <i>w</i>Mel strain of <i>Wolbachia</i> can improve host survival following viral infection. However, it is unclear whether <i>w</i>Mel induces anti-viral blocking against the broader native virome of <i>D. melanogaster</i>, or whether the major effect of <i>Wolbachia</i> is a reduction in viral abundance rather than viral clearance. We examined the effect of <i>Wolbachia</i> on viral abundance by comparing the total transcriptome of <i>w</i>Mel-positive and <i>w</i>Mel-negative <i>D. melanogaster</i> populations sampled from six locations in Australia. In addition, we examined the impact of <i>w</i>Mel on individual flies by obtaining transcriptome data from 20 <i>w</i>Mel-positive and 20 <i>w</i>Mel-negative <i>D. melanogaster</i> from the location (Melbourne) with highest density of <i>w</i>Mel. These data revealed high viral abundance in both <i>Wolbachia</i>-positive and -negative populations and individuals. Notably, none of the viral species identified, representing RNA viruses from at least nine families/floating genera, showed evidence of protection by <i>w</i>Mel. Although the viral loads of picorna-like viruses are reduced by <i>w</i>Mel under experimental conditions, we observed no such effect here. These data show that <i>D. melanogaster</i> can harbour abundant RNA viruses regardless of its <i>Wolbachia</i> status and imply that the interaction between <i>Wolbachia</i> and viruses in nature is more complex than simple blocking.
DOI: 10.6084/m9.figshare.6854681
title: Figures for "Evidence accumulation account of human operators’ decisions in intermittent control during inverted pendulum balancing"

description: Figures from the conference paper to be published soon in the proceedings of IEEE Conference on Systems, Man, and Cybernetics 2018<br>
DOI: 10.6084/m9.figshare.6854681.v3
title: Figures for "Evidence accumulation account of human operators’ decisions in intermittent control during inverted pendulum balancing"

description: Figures from the conference paper to be published soon in the proceedings of IEEE Conference on Systems, Man, and Cybernetics 2018<br>
DOI: 10.6084/m9.figshare.6854681.v2
title: Evidence accumulation account of human operators’ decisions in intermittent control during inverted pendulum balancing

description: Figures from the conference paper to be published soon in the proceedings of IEEE Conference on Systems, Man, and Cybernetics 2018<br>
DOI: 10.6084/m9.figshare.6854534
title: Supplementary Material for: LOC101930370/MiR-1471 Axis Modulates the Hedgehog Signaling Pathway in Breast Cancer

description: <b><i>Background/Aims:</i></b> Non-coding RNAs (ncRNAs) play vital regulatory roles in many tumors. However, the functional roles of these transcripts responsible for their dysregulation in breast cancer (BC) are not thoroughly understood. <b><i>Methods:</i></b> We examined the expression of microRNA miR-1471 in BC specimens. Online analysis tools predicted that lncRNA LOC101930370 might act as an endogenous ‘sponge’ by competing for miR-1471 binding targets. Luciferase assays were used to prove the interaction of LOC101930370, miR-1471 and SHH. Edu, wound-healing and transwell assays were used to verify the contribution of miR-1471 and LOC101930370 on MCF-7 cells proliferation and metastasis. Gain and loss of function studies were performed to evaluate the relevance of Hedgehog pathway with LOC101930370/miR-1471 regulating axis in MCF-7 cells. <b><i>Results:</i></b> The expression of miR-1471 was markedly downregulated in BC. Inhibition of miR-1471 by LOC101930370 was proved by luciferase assay. Knockdown of LOC101930370 suppressed BC cells progression. MiR-1471 inhibitor resulted in a more aggressive metastasis of MCF-7 cells. Moreover, SHH and Gli-1 expression were significantly suppressed by LOC101930370 knockdown, and upregulated by miR-1471 inhibitor transfection. <b><i>Conclusions:</i></b> Collectively, our study reveals the interaction between LOC101930370 and miR-1471 for the first time. LOC101930370 positively regulates the expression of SHH by sponging miR-1471, which sheds new light on lncRNA-directed diagnostics and therapeutics in BC.