cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25375/uct.7472852.v1
title: Outcomes and challenges of a kidney transplant programme at Groote Schuur Hospital, Cape Town: a South African perspective

description: <b>Method</b>: Data were collected on all patients who underwent a kidney transplant at GSH from 1st July 2010 to the 30 June 2015. Analyses were performed to assess baseline characteristics, graft and patient survival, as well as predictors of poor outcome. <b>Results</b> 198 patients were transplanted. The mean age was 38 +/- 10.5 years, 127 (64.1%) were male, and 86 (43.4%) were of African ethnicity. Deceased donor organs were used for 130 (66.7%) patients and living donors for 65 (33.3%). There were &gt; 5 HLA mismatches in 58.9% of transplants. Sepsis was the commonest cause of death and delayed graft function [DGF] occurred in 41 (21.4%) recipients. Patient survival was 90.4% at 1 year and 83.1% at 5 years. Graft survival was 89.4% at 1 year and 80.0% at 5 years. DGF (HR 2.83 (1.12 – 7.19), p value = 0.028) and recipient age &gt; 40 years (HR 3.12 (1.26 – 7.77), p value = 0.014) were predictors of death.<br><br>Ethics Statement:Ethical approval for the study was received from the human research ethics committee at University of Cape Town [HREC: 759/2014]. This approval permitted a folder review of patients transplanted within the specified time period. Informed consent for folder review was waived. All clinical and laboratory data was obtained from routine clinic visits (set out by KDIGO best clinical practice guidelines). All kidney biopsies were only performed for clinical indications including unexplained haematuria, proteinuria or rising creatinine. For confidentiality and anonymity all patients were anonymised prior to statistical analysis. The information was stored on a password protected research computer, only the primary and sub investigators had access to the data. None of the transplant donors were from a vulnerable population and all donors or next of kin provided written informed consent that was freely given. The consent for deceased donation was obtained by dedicated transplant sisters who work as part of the transplant team. All Living non-related donors are ethically evaluated by a national Ministry Advisory Committee. Groote Schuur Hospital transplant department complies with the Declaration of Istanbul.<br>
DOI: 10.6084/m9.figshare.7472846
title: <i>R1</i> retrotransposons in the nucleolar organizers of <i>Drosophila melanogaster</i> are transcribed by RNA polymerase I upon heat shock

description: The ribosomal RNA genes (<i>rDNA</i>) of <i>Drosophila melanogaster</i> reside within centromere-proximal nucleolar organizers on both the X and Y chromosomes. Each locus contains between 200–300 tandem repeat <i>rDNA</i> units that encode 18S, 5.8S, 2S, and 28S ribosomal RNAs (rRNAs) necessary for ribosome biogenesis. In arthropods like <i>Drosophila</i>, about 60% of the <i>rDNA</i> genes have <i>R1</i> and/or <i>R2</i> retrotransposons inserted at specific sites within their <i>28S</i> regions; these units likely fail to produce functional 28S rRNA. We showed earlier that <i>R2</i> expression increases upon nucleolar stress caused by the loss of the ribosome assembly factor, Nucleolar Phosphoprotein of 140 kDa (Nopp140). Here we show that <i>R1</i> expression is selectively induced by heat shock. Actinomycin D, but not α-amanitin, blocked <i>R1</i> expression in S2 cells upon heat shock, indicating that <i>R1</i> elements are transcribed by Pol I. A series of RT-PCRs established read-through transcription by Pol I from the <i>28S</i> gene region into <i>R1</i>. Sequencing the RT-PCR products confirmed the 28S-R1 RNA junction and the expression of <i>R1</i> elements within nucleolar <i>rDNA</i> rather than <i>R1</i> elements known to reside in centromeric heterochromatin. Using a genome-wide precision run-on sequencing (PRO-seq) data set available at NCBI-GEO, we show that Pol I activity on <i>R1</i> elements is negligible under normal non-heat shock conditions but increases upon heat shock. We propose that prior to heat shock Pol I pauses within the 5ʹ end of <i>R1</i> where we find a consensus “pause button”, and that heat shock releases Pol I for read-through transcription farther into <i>R1</i>.
DOI: 10.6084/m9.figshare.7472846.v1
title: <i>R1</i> retrotransposons in the nucleolar organizers of <i>Drosophila melanogaster</i> are transcribed by RNA polymerase I upon heat shock

description: The ribosomal RNA genes (<i>rDNA</i>) of <i>Drosophila melanogaster</i> reside within centromere-proximal nucleolar organizers on both the X and Y chromosomes. Each locus contains between 200–300 tandem repeat <i>rDNA</i> units that encode 18S, 5.8S, 2S, and 28S ribosomal RNAs (rRNAs) necessary for ribosome biogenesis. In arthropods like <i>Drosophila</i>, about 60% of the <i>rDNA</i> genes have <i>R1</i> and/or <i>R2</i> retrotransposons inserted at specific sites within their <i>28S</i> regions; these units likely fail to produce functional 28S rRNA. We showed earlier that <i>R2</i> expression increases upon nucleolar stress caused by the loss of the ribosome assembly factor, Nucleolar Phosphoprotein of 140 kDa (Nopp140). Here we show that <i>R1</i> expression is selectively induced by heat shock. Actinomycin D, but not α-amanitin, blocked <i>R1</i> expression in S2 cells upon heat shock, indicating that <i>R1</i> elements are transcribed by Pol I. A series of RT-PCRs established read-through transcription by Pol I from the <i>28S</i> gene region into <i>R1</i>. Sequencing the RT-PCR products confirmed the 28S-R1 RNA junction and the expression of <i>R1</i> elements within nucleolar <i>rDNA</i> rather than <i>R1</i> elements known to reside in centromeric heterochromatin. Using a genome-wide precision run-on sequencing (PRO-seq) data set available at NCBI-GEO, we show that Pol I activity on <i>R1</i> elements is negligible under normal non-heat shock conditions but increases upon heat shock. We propose that prior to heat shock Pol I pauses within the 5ʹ end of <i>R1</i> where we find a consensus “pause button”, and that heat shock releases Pol I for read-through transcription farther into <i>R1</i>.
DOI: 10.7284/111028
title: Multibeam Echosounder data collected during research cruise MGL1307 using a Kongsberg EM122 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7472831
title: ALSPAC in London Medical History Questionnaire

description: Health questionnaire from ALSPAC in London study
DOI: 10.7284/111031
title: pCO2 (Partial Pressure of Carbon Dioxide) data collected during research cruise MGL1307 using a LDEO pCO2 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7472828
title: Metabolomics Data for extended data.docx

description: Descriptive statistics for metabolomics data collected during the ALSPAC in London study.
DOI: 10.6084/m9.figshare.7472828.v1
title: Metabolomics Data for extended data.docx

description: Descriptive statistics for metabolomics data collected during the ALSPAC in London study.
DOI: 10.6084/m9.figshare.7472831.v1
title: ALSPAC in London Medical History Questionnaire

description: Health questionnaire from ALSPAC in London study
DOI: 10.7284/111034
title: Singlebeam Echosounder data collected during research cruise MGL1307 using a Knudsen 3260 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7472777
title: Diurnal variation of metabolites in three individual participants

description: The circadian system influences virtually all biological functions. Understanding the impact of circadian variation on metabolism may provide insight into mechanisms of circadian-associated disorders and guide the implementation of chrono-therapy. Previous research has reported circadian variation in 7–20% of metabolites in human blood. In this study, untargeted metabolomics profiles were measured using blood of two healthy men and one healthy woman, collected every 2 h for up to 48 h under carefully controlled conditions. The pattern of variation of each metabolite over time was examined on each participant separately, using both one- and two-order harmonic models. A total of 100 of 663 metabolites, representing all metabolite categories, showed diurnal rhythmic concentrations that exceeded the Bonferroni threshold (P −5). Overall, peak times of many metabolites were clustered during the afternoon-midnight, including the majority of amino acids, all peptides, all lysolipids and all phospholipids, whereas the majority of steroids peaked in the morning. We observed substantial inter-individual variation for both peak times and amplitudes in these three subjects. In conclusion, at least 15% of blood metabolites, representing a broad group of biological pathways, exhibit diurnal variation in three participants. The average peak times of most of these metabolites are clustered in morning or afternoon-midnight. Further work is needed to validate and extend this work in more individuals.
DOI: 10.7284/111026
title: Speedlog data collected during research cruise MGL1307 using a Furuno DS-50 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7472777.v1
title: Diurnal variation of metabolites in three individual participants

description: The circadian system influences virtually all biological functions. Understanding the impact of circadian variation on metabolism may provide insight into mechanisms of circadian-associated disorders and guide the implementation of chrono-therapy. Previous research has reported circadian variation in 7–20% of metabolites in human blood. In this study, untargeted metabolomics profiles were measured using blood of two healthy men and one healthy woman, collected every 2 h for up to 48 h under carefully controlled conditions. The pattern of variation of each metabolite over time was examined on each participant separately, using both one- and two-order harmonic models. A total of 100 of 663 metabolites, representing all metabolite categories, showed diurnal rhythmic concentrations that exceeded the Bonferroni threshold (P −5). Overall, peak times of many metabolites were clustered during the afternoon-midnight, including the majority of amino acids, all peptides, all lysolipids and all phospholipids, whereas the majority of steroids peaked in the morning. We observed substantial inter-individual variation for both peak times and amplitudes in these three subjects. In conclusion, at least 15% of blood metabolites, representing a broad group of biological pathways, exhibit diurnal variation in three participants. The average peak times of most of these metabolites are clustered in morning or afternoon-midnight. Further work is needed to validate and extend this work in more individuals.
DOI: 10.7284/111032
title: TSG (Thermosalinograph) data collected during research cruise MGL1307 using a Sea-Bird SBE-21 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112239
title: Expendable Probe data collected during research cruise MGL1308 using a Sippican MK21 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112246
title: GNSS (Global Navigation Satellite System) data collected during research cruise MGL1308 using a C&C C-Nav 3050 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112248
title: GNSS (Global Navigation Satellite System) data collected during research cruise MGL1308 using a C&C C-Nav 2000 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112249
title: Gravimeter data collected during research cruise MGL1308 using a Bell BGM-3 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112242
title: Gyrocompass data collected during research cruise MGL1308 using a Kongsberg Simrad GC80 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17028/rd.lboro.7472675
title: Social camouflage: A survey of 143 students of their preference for assistive technology cutlery and the visual mechanisms being influenced

description: Camouflage has been used extensively in modern military applications for over one hundred years. However, social camouflage has been used by artists and designers for even longer within clothing, body-worn accessories and more recently automotive and product design. Most practicing designers learn this tacit heuristic through trial and error or passed on through master-student experience. This paper will provide the theoretical principles behind the heuristic and validate their application through evidence from different sources. A series of photographs was compiled of seven commercially available cutleries for people with limited grip strength or mobility in their hands that included a set that embodied the principles of social camouflage. The optimum shapes for grip in these sets highlights their unconventional shape, making them less desirable to use in public. A survey of preferences for a range of cutlery was completed with over 143 students using a semantic differential (SD) scale, with ‘least medical’ and ‘most medical’ as the polar nouns. A sample of eight students, four male, four females, completed the survey again using computer screen-based eye tracking. The areas of interest and the order of movement of fixations were noted. The SD scale order placed the socially camouflaged closer to desirable than medical term. Eye tracking highlighted that students followed the outline of the highest contrast visual elements when viewing the socially camouflaged cutlery; being drawn away from the outline of the actual shape. In all others, the outline profile was prominent. To further validate the findings and to inspect viewing pattern of participants when making choices, eye-tracking experiment was conducted. The participants were asked to volunteer to complete the second phase of the project. A computer screen-based eye-tacker (SensoMotoric Instrument, SMI) was used to capture the eye-movement of the participants, when making selection from the presented choices of images. Participants were asked to complete the survey again.This data-set includes the files from the eye-tracking experiment such as images showing Areas of Interests (AOI), heatmaps and screenshots from post-processing of data. Additionally, videos in data-set show the sequence of heatmaps and gaze path of participants for different images presented. The files such as; raw data-set, event statistics, larger and integrated AOI, contains the eye-movement data of participants. The last two files show summarised outcomes from the eye-tracking experiment.<br>
DOI: 10.17028/rd.lboro.7472654
title: Supplementary information files for article: 'Association between physical activity and sub-types of cardiovascular disease death causes in a general population cohort'

description: Supplementary information files for article: 'Association between physical activity and sub-types of cardiovascular disease death causes in a general population cohort'.<br>Abstract:Physical activity is thought to be cardioprotective, but associations with different subtypes of cardiovascular disease (CVD) are poorly understood. We examined associations between physical activity and seven major CVD death causes. The sample comprised 65,093 adults (aged 58 ± 12 years, 45.4% men) followed up over mean [SD] 9.4 ± 4.5 years, recruited from The Health Survey for England and the Scottish Health Surveys. A CVD diagnosis was reported in 9.2% of the sample at baseline. Physical activity was self-reported. Outcomes were subtypes of CVD death; acute myocardial infarction; chronic ischaemic heart disease; pulmonary heart disease; a composite of cardiac arrest, arrhythmias, and sudden cardiac death; heart failure; cerebrovascular; composite of aortic aneurysm and other peripheral vascular diseases. There were 3050 CVD deaths (30.8% of all deaths). In Cox proportional hazards models adjusted for confounders, physical activity was associated with reduced relative risk of all CVD outcomes; compared with the lowest, the highest physical activity quintile was associated with reduced risk of acute myocardial infarction (Hazard ratio 0.66: 95% CI 0.50, 0.89), chronic ischaemic heart disease (0.49: 0.38, 0.64), pulmonary heart disease (0.48: 0.22, 1.07), arrhythmias (0.18: 0.04, 0.76); heart failure (0.35: 0.20, 0.63), cerebrovascular events (0.53: 0.38, 0.75); aneurysm and peripheral vascular diseases (0.54: 0.34, 0.93). Results were largely consistent across participants with and without existing CVD at baseline. Physical activity was associated with reduced risk of seven major CVD death causes. Protective benefits were apparent even at levels of activity below the current recommendations.
DOI: 10.17028/rd.lboro.7472675.v1
title: Social camouflage: A survey of 143 students of their preference for assistive technology cutlery and the visual mechanisms being influenced

description: Camouflage has been used extensively in modern military applications for over one hundred years. However, social camouflage has been used by artists and designers for even longer within clothing, body-worn accessories and more recently automotive and product design. Most practicing designers learn this tacit heuristic through trial and error or passed on through master-student experience. This paper will provide the theoretical principles behind the heuristic and validate their application through evidence from different sources. A series of photographs was compiled of seven commercially available cutleries for people with limited grip strength or mobility in their hands that included a set that embodied the principles of social camouflage. The optimum shapes for grip in these sets highlights their unconventional shape, making them less desirable to use in public. A survey of preferences for a range of cutlery was completed with over 143 students using a semantic differential (SD) scale, with ‘least medical’ and ‘most medical’ as the polar nouns. A sample of eight students, four male, four females, completed the survey again using computer screen-based eye tracking. The areas of interest and the order of movement of fixations were noted. The SD scale order placed the socially camouflaged closer to desirable than medical term. Eye tracking highlighted that students followed the outline of the highest contrast visual elements when viewing the socially camouflaged cutlery; being drawn away from the outline of the actual shape. In all others, the outline profile was prominent. To further validate the findings and to inspect viewing pattern of participants when making choices, eye-tracking experiment was conducted. The participants were asked to volunteer to complete the second phase of the project. A computer screen-based eye-tacker (SensoMotoric Instrument, SMI) was used to capture the eye-movement of the participants, when making selection from the presented choices of images. Participants were asked to complete the survey again.This data-set includes the files from the eye-tracking experiment such as images showing Areas of Interests (AOI), heatmaps and screenshots from post-processing of data. Additionally, videos in data-set show the sequence of heatmaps and gaze path of participants for different images presented. The files such as; raw data-set, event statistics, larger and integrated AOI, contains the eye-movement data of participants. The last two files show summarised outcomes from the eye-tracking experiment.<br>
DOI: 10.17028/rd.lboro.7472654.v1
title: Supplementary information files for article: 'Association between physical activity and sub-types of cardiovascular disease death causes in a general population cohort'

description: Supplementary information files for article: 'Association between physical activity and sub-types of cardiovascular disease death causes in a general population cohort'.<br>Abstract:Physical activity is thought to be cardioprotective, but associations with different subtypes of cardiovascular disease (CVD) are poorly understood. We examined associations between physical activity and seven major CVD death causes. The sample comprised 65,093 adults (aged 58 ± 12 years, 45.4% men) followed up over mean [SD] 9.4 ± 4.5 years, recruited from The Health Survey for England and the Scottish Health Surveys. A CVD diagnosis was reported in 9.2% of the sample at baseline. Physical activity was self-reported. Outcomes were subtypes of CVD death; acute myocardial infarction; chronic ischaemic heart disease; pulmonary heart disease; a composite of cardiac arrest, arrhythmias, and sudden cardiac death; heart failure; cerebrovascular; composite of aortic aneurysm and other peripheral vascular diseases. There were 3050 CVD deaths (30.8% of all deaths). In Cox proportional hazards models adjusted for confounders, physical activity was associated with reduced relative risk of all CVD outcomes; compared with the lowest, the highest physical activity quintile was associated with reduced risk of acute myocardial infarction (Hazard ratio 0.66: 95% CI 0.50, 0.89), chronic ischaemic heart disease (0.49: 0.38, 0.64), pulmonary heart disease (0.48: 0.22, 1.07), arrhythmias (0.18: 0.04, 0.76); heart failure (0.35: 0.20, 0.63), cerebrovascular events (0.53: 0.38, 0.75); aneurysm and peripheral vascular diseases (0.54: 0.34, 0.93). Results were largely consistent across participants with and without existing CVD at baseline. Physical activity was associated with reduced risk of seven major CVD death causes. Protective benefits were apparent even at levels of activity below the current recommendations.
DOI: 10.7284/112247
title: INS (Inertial Navigation System) data collected during research cruise MGL1308 using a Kongsberg Seapath 200 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7472630
title: mod_data

description: Dataset
DOI: 10.6084/m9.figshare.7472630.v1
title: mod_data

description: Dataset
DOI: 10.7284/112250
title: INS (Inertial Navigation System) data collected during research cruise MGL1308 using a Applanix POS/MV-320 V3 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112241
title: Magnetometer data collected during research cruise MGL1308 using a Geometrics G-882 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112244
title: Meteorological Station data collected during research cruise MGL1308 using a RM Young 26700 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112240
title: Multibeam Echosounder data collected during research cruise MGL1308 using a Kongsberg EM122 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112245
title: Singlebeam Echosounder data collected during research cruise MGL1308 using a Knudsen 3260 instrument system onboard the platform RV Marcus G. Langseth

description: Original (unprocessed) data collected during a Field_expedition