cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16586303
title: Supplementary Material for: Urinary Plasminogen Activator Inhibitor-1: A Biomarker of Acute Tubular Injury

description: <b><i>Introduction:</i></b> Acute kidney injury (AKI) is a threatening, multiaetiological syndrome encompassing a variety of forms and damage patterns. AKI lacks sufficiently specific diagnostic tools to evaluate the distinct combination of pathophysiological events underlying each case, which limits personalized and optimized handling. Therefore, a pathophysiological diagnosis based on new urinary biomarkers is sought for practical (readiness and noninvasiveness) and conceptual reasons, as the urine is a direct product of the kidneys. However, biomarkers found in the urine may also have extrarenal origin, thus conveying pathophysiological information from other organs or tissues. Urinary plasminogen activator inhibitor-1 (PAI-1) has been associated to AKI, although its origin and traffic to the urine are not known. <b><i>Methods:</i></b> Herein, we studied the blood or renal origin of urinary PAI-1 (uPAI-1) in experimental AKI in Wistar rats, by means of the in situ renal perfusion method. For this purpose, urine was collected while the kidneys of rats with AKI showing increased uPAI-1 excretion, and controls, were in situ perfused with a saline solution. <b><i>Results:</i></b> Our results show that during perfusion, PAI-1 remained in the urine of AKI rats, suggesting that renal cells shed this protein directly to the urine. PAI-1 is also significantly increased in the urine of AKI patients. Its low correlation with other urinary markers such as NGAL or NAG suggests that PAI-1 provides complementary and distinct phenotypical information. <b><i>Conclusion:</i></b> In conclusion, uPAI-1 is a biomarker produced by damaged kidneys following AKI, whose precise pathophysiological meaning in AKI needs to be further investigated.
DOI: 10.6084/m9.figshare.16586303.v1
title: Supplementary Material for: Urinary Plasminogen Activator Inhibitor-1: A Biomarker of Acute Tubular Injury

description: <b><i>Introduction:</i></b> Acute kidney injury (AKI) is a threatening, multiaetiological syndrome encompassing a variety of forms and damage patterns. AKI lacks sufficiently specific diagnostic tools to evaluate the distinct combination of pathophysiological events underlying each case, which limits personalized and optimized handling. Therefore, a pathophysiological diagnosis based on new urinary biomarkers is sought for practical (readiness and noninvasiveness) and conceptual reasons, as the urine is a direct product of the kidneys. However, biomarkers found in the urine may also have extrarenal origin, thus conveying pathophysiological information from other organs or tissues. Urinary plasminogen activator inhibitor-1 (PAI-1) has been associated to AKI, although its origin and traffic to the urine are not known. <b><i>Methods:</i></b> Herein, we studied the blood or renal origin of urinary PAI-1 (uPAI-1) in experimental AKI in Wistar rats, by means of the in situ renal perfusion method. For this purpose, urine was collected while the kidneys of rats with AKI showing increased uPAI-1 excretion, and controls, were in situ perfused with a saline solution. <b><i>Results:</i></b> Our results show that during perfusion, PAI-1 remained in the urine of AKI rats, suggesting that renal cells shed this protein directly to the urine. PAI-1 is also significantly increased in the urine of AKI patients. Its low correlation with other urinary markers such as NGAL or NAG suggests that PAI-1 provides complementary and distinct phenotypical information. <b><i>Conclusion:</i></b> In conclusion, uPAI-1 is a biomarker produced by damaged kidneys following AKI, whose precise pathophysiological meaning in AKI needs to be further investigated.
DOI: 10.5285/d6bcf4171c2f4754a7455d00deda0f72
title: MIDAS Open: UK daily rainfall data, v202107

description: The UK daily rainfall data contain rainfall accumulation and precipitation amounts over a 24 hour period. The data were collected by observation stations operated by the Met Office across the UK and transmitted within the following message types: NCM, AWSDLY, DLY3208 and SSER. The data spans from 1853 to 2020. Over time a range of rain gauges have been used - see section 5.6 and the relevant message type information in the linked MIDAS User Guide for further details. This version supersedes the previous version of this dataset and a change log is available in the archive, and in the linked documentation for this record, detailing the differences between this version and the previous version. The change logs detail new, replaced and removed data. This dataset is part of the Midas-open dataset collection made available by the Met Office under the UK Open Government Licence, containing only UK mainland land surface observations owned or operated by Met Office. It is a subset of the fuller, restricted Met Office Integrated Data Archive System (MIDAS) Land and Marine Surface Stations dataset, also available through the Centre for Environmental Data Analysis - see the related dataset section on this record. A large proportion of the UK raingauge observing network (associated with WAHRAIN, WADRAIN and WAMRAIN for hourly, daily and monthly rainfall measurements respectively) is operated by other agencies beyond the Met Office, and are consequently currently excluded from the Midas-open dataset. Currently this represents approximately 13% of available daily rainfall observations within the full MIDAS collection.
DOI: 10.5285/4d48efaaeb7f47a7963df75d6d1dbdc5
title: MIDAS Open: UK mean wind data, v202107

description: The UK mean wind data contain the mean wind speed and direction, and the direction, speed and time of the maximum gust, all during 1 or more hours, ending at the stated time and date. The data were collected by observation stations operated by the Met Office across the UK and transmitted within the following message types: SYNOP, HCM, AWSHRLY, DLY3208, HWNDAUTO and HWND6910. The data spans from 1949 to 2020. This version supersedes the previous version of this dataset and a change log is available in the archive, and in the linked documentation for this record, detailing the differences between this version and the previous version. The change logs detail new, replaced and removed data. For further details on observing practice, including measurement accuracies for the message types, see relevant sections of the MIDAS User Guide linked from this record (e.g. section 3.3 details the wind network in the UK, section 5.5 covers wind measurements in general and section 4 details message type information). This dataset is part of the Midas-open dataset collection made available by the Met Office under the UK Open Government Licence, containing only UK mainland land surface observations owned or operated by the Met Office. It is a subset of the fuller, restricted Met Office Integrated Data Archive System (MIDAS) Land and Marine Surface Stations dataset, also available through the Centre for Environmental Data Analysis - see the related dataset section on this record.
DOI: 10.5285/625f5ea4ddac4578a2aacf47bcf39657
title: MIDAS Open: UK hourly solar radiation data, v202107

description: The UK hourly solar radiation data contain the amount of solar irradiance received during the hour ending at the specified time. All sites report 'global' radiation amounts. This is also known as 'total sky radiation' as it includes both direct solar irradiance and 'diffuse' irradiance as a result of light scattering. Some sites also provide separate diffuse and direct irradiation amounts, depending on the instrumentation at the site. For these the sun's path is tracked with two pyrometers - one where the path to the sun is blocked by a suitable disc to allow the scattered sunlight to be measured to give the diffuse measurement, while the other has a tube pointing at the sun to measure direct solar irradiance whilst blanking out scattered sun light. This version supersedes the previous version of this dataset and a change log is available in the archive, and in the linked documentation for this record, detailing the differences between this version and the previous version. The change logs detail new, replaced and removed data. The data were collected by observation stations operated by the Met Office across the UK and transmitted within the following message types: SYNOP, HCM, AWSHRLY, MODLERAD, ESAWRADT and DRADR35 messages. The data spans from 1947 to 2020. This dataset is part of the Midas-open dataset collection made available by the Met Office under the UK Open Government Licence, containing only UK mainland land surface observations owned or operated by the Met Office. It is a subset of the fuller, restricted Met Office Integrated Data Archive System (MIDAS) Land and Marine Surface Stations dataset, also available through the Centre for Environmental Data Analysis - see the related dataset section on this record.
DOI: 10.5285/cabc37d867fa4f2a84302350df908693
title: MIDAS Open: UK soil temperature data, v202107

description: The UK soil temperature data contain daily and hourly values of soil temperatures at depths of 5, 10, 20, 30, 50, and 100 centimetres. The measurements were recorded by observation stations operated by the Met Office across the UK and transmitted within NCM or DLY3208 messages. The data spans from 1900 to 2020. This version supersedes the previous version of this dataset and a change log is available in the archive, and in the linked documentation for this record, detailing the differences between this version and the previous version. The change logs detail new, replaced and removed data. At many stations temperatures below the surface are measured at various depths. The depths used today are 5, 10, 20, 30 and 100cm, although measurements are not necessarily made at all these depths at a station and exceptionally measurements may be made at other depths. When imperial units were in general use, typically before 1961, the normal depths of measurement were 4, 8, 12, 24 and 48 inches. Liquid-in-glass soil thermometers at a depth of 20 cm or less are unsheathed and have a bend in the stem between the bulb and the lowest graduation. At greater depths the thermometer is suspended in a steel tube and has its bulb encased in wax. This dataset is part of the Midas-open dataset collection made available by the Met Office under the UK Open Government Licence, containing only UK mainland land surface observations owned or operated by the Met Office. It is a subset of the fuller, restricted Met Office Integrated Data Archive System (MIDAS) Land and Marine Surface Stations dataset, also available through the Centre for Environmental Data Analysis - see the related dataset section on this record.
DOI: 10.5285/0cb035c7598a4dcb8aecb6b6558c83e9
title: HadUK-Grid Climate Observations by UK river basins, v1.0.3.0 (1862-2020)

description: HadUK-Grid is a collection of gridded climate variables derived from the network of UK land surface observations. The data have been interpolated from meteorological station data onto a uniform grid to provide complete and consistent coverage across the UK. These data at 1 km resolution have been averaged across a set of discrete geographies defining UK river basins consistent with data from UKCP18 climate projections. The dataset spans the period from 1862 to 2020, but the start time is dependent on climate variable and temporal resolution. The gridded data are produced for daily, monthly, seasonal and annual timescales, as well as long term averages for a set of climatological reference periods. Variables include air temperature (maximum, minimum and mean), precipitation, sunshine, mean sea level pressure, wind speed, relative humidity, vapour pressure, days of snow lying, and days of ground frost. This data set supersedes the previous versions of this dataset which also superseded UKCP09 gridded observations. Subsequent versions may be released in due course and will follow the version numbering as outlined by Hollis et al. (2018, see linked documentation). This release includes data for the calendar year 2020. Ongoing quality checks and data recovery to historical data results in changes to around 0.01% of the observational station data used as input to produce the gridded dataset. A correction to _FillValue assignment in the metadata for seasonal and annual grids has also been applied to be consistent with the rest of the dataset. The primary purpose of these data are to facilitate monitoring of UK climate and research into climate change, impacts and adaptation. The datasets have been created by the Met Office with financial support from the Department for Business, Energy and Industrial Strategy (BEIS) and Department for Environment, Food and Rural Affairs (DEFRA) in order to support the Public Weather Service Customer Group (PWSCG), the Hadley Centre Climate Programme, and the UK Climate Projections (UKCP18) project. The data recovery activity to supplement 19th and early 20th Century data availability has also been funded by the Natural Environment Research Council (NERC grant ref: NE/L01016X/1) project "Analysis of historic drought and water scarcity in the UK". The dataset is provided under Open Government Licence.
DOI: 10.5281/zenodo.5493615
title: Generated RGBD Tracking Benchmarks (LaSOT) Part 04

description: We convert the existing RGB tracking benchmarks, eg. LaSOT, to RGB+pseudo-Depth tracking benchmarks using DenseDepth or HighResDepth monocular depth estimation methods.
DOI: 10.5281/zenodo.5493614
title: Generated RGBD Tracking Benchmarks (LaSOT) Part 04

description: We convert the existing RGB tracking benchmarks, eg. LaSOT, to RGB+pseudo-Depth tracking benchmarks using DenseDepth or HighResDepth monocular depth estimation methods.
DOI: 10.5281/zenodo.5221424
title: Tracking label images with TrackMate

description: Dataset used in a tutorial that shows how to use TrackMate to track label images. For more details see here: https://imagej.net/plugins/trackmate/trackmate-label-image-detector
DOI: 10.5281/zenodo.5221423
title: Tracking label images with TrackMate

description: Dataset used in a tutorial that shows how to use TrackMate to track label images. For more details see here: https://imagej.net/plugins/trackmate/trackmate-label-image-detector
DOI: 10.5281/zenodo.5220796
title: Tracking cell migration with the TrackMate threshold detector

description: Migrating cells tracked with TrackMate, using the threshold detector. For more information see https://imagej.net/plugins/trackmate/trackmate-thresholding-detector
DOI: 10.5281/zenodo.5220795
title: Tracking cell migration with the TrackMate threshold detector

description: Migrating cells tracked with TrackMate, using the threshold detector. For more information see https://imagej.net/plugins/trackmate/trackmate-thresholding-detector
DOI: 10.5281/zenodo.5220610
title: Segmenting cells in a spheroid in 3D using 2D StarDist within TrackMate

description: 3D image of cells in a spheroid, imaged on a confocal microscope, used in a tutorial to demonstrate how to hack TrackMate to segment cells in 3D using the 2D segmentation algorithms it ships. Image by Guillaume Jacquemet. For more details see https://imagej.net/plugins/trackmate/trackmate-stardist#generation-of-3d-labels-by-tracking-2d-labels-using-trackmate
DOI: 10.5281/zenodo.5220609
title: Segmenting cells in a spheroid in 3D using 2D StarDist within TrackMate

description: 3D image of cells in a spheroid, imaged on a confocal microscope, used in a tutorial to demonstrate how to hack TrackMate to segment cells in 3D using the 2D segmentation algorithms it ships. Image by Guillaume Jacquemet. For more details see https://imagej.net/plugins/trackmate/trackmate-stardist#generation-of-3d-labels-by-tracking-2d-labels-using-trackmate
DOI: 10.5285/489e22fb2961482bb76711cedbeecedd
title: HadUK-Grid Climate Observations by UK countries, v1.0.3.0 (1862-2020)

description: HadUK-Grid is a collection of gridded climate variables derived from the network of UK land surface observations. The data have been interpolated from meteorological station data onto a uniform grid to provide complete and consistent coverage across the UK. These data at 1 km resolution have been averaged across a set of discrete geographies defining UK countries consistent with data from UKCP18 climate projections. The dataset spans the period from 1862 to 2020, but the start time is dependent on climate variable and temporal resolution. The gridded data are produced for daily, monthly, seasonal and annual timescales, as well as long term averages for a set of climatological reference periods. Variables include air temperature (maximum, minimum and mean), precipitation, sunshine, mean sea level pressure, wind speed, relative humidity, vapour pressure, days of snow lying, and days of ground frost. This data set supersedes the previous versions of this dataset which also superseded UKCP09 gridded observations. Subsequent versions may be released in due course and will follow the version numbering as outlined by Hollis et al. (2018, see linked documentation). This release includes data for the calendar year 2020. Ongoing quality checks and data recovery to historical data results in changes to around 0.01% of the observational station data used as input to produce the gridded dataset. A correction to _FillValue assignment in the metadata for seasonal and annual grids has also been applied to be consistent with the rest of the dataset. The primary purpose of these data are to facilitate monitoring of UK climate and research into climate change, impacts and adaptation. The datasets have been created by the Met Office with financial support from the Department for Business, Energy and Industrial Strategy (BEIS) and Department for Environment, Food and Rural Affairs (DEFRA) in order to support the Public Weather Service Customer Group (PWSCG), the Hadley Centre Climate Programme, and the UK Climate Projections (UKCP18) project. The data recovery activity to supplement 19th and early 20th Century data availability has also been funded by the Natural Environment Research Council (NERC grant ref: NE/L01016X/1) project "Analysis of historic drought and water scarcity in the UK". The dataset is provided under Open Government Licence.
DOI: 10.5281/zenodo.5205955
title: Cell migration with ERK signalling

description: Movie following cells expressing ERK and a nuclei staining, tracked with TrackMate and later analyzed with MATLAB. See https://imagej.net/plugins/trackmate/trackmate-stardist for more details.
DOI: 10.5281/zenodo.5205934
title: Cell migration with ERK signalling

description: Movie following cells expressing ERK and a nuclei staining, tracked with TrackMate and later analyzed with MATLAB. See https://imagej.net/plugins/trackmate/trackmate-stardist for more details.
DOI: 10.5285/bc774f1b83524437a8046d8b9a9e3c6d
title: HadUK-Grid Gridded Climate Observations on a 60km grid over the UK, v1.0.3.0 (1862-2020)

description: HadUK-Grid is a collection of gridded climate variables derived from the network of UK land surface observations. The data have been interpolated from meteorological station data onto a uniform grid to provide complete and consistent coverage across the UK. The dataset at 60 km resolution is derived from the associated 1 km x 1 km resolution to allow for comparison to data from UKCP18 climate projections. The dataset spans the period from 1862 to 2020, but the start time is dependent on climate variable and temporal resolution. The gridded data are produced for daily, monthly, seasonal and annual timescales, as well as long term averages for a set of climatological reference periods. Variables include air temperature (maximum, minimum and mean), precipitation, sunshine, mean sea level pressure, wind speed, relative humidity, vapour pressure, days of snow lying, and days of ground frost. This data set supersedes the previous versions of this dataset which also superseded UKCP09 gridded observations. Subsequent versions may be released in due course and will follow the version numbering as outlined by Hollis et al. (2018, see linked documentation). This release includes data for the calendar year 2020. Ongoing quality checks and data recovery to historical data results in changes to around 0.01% of the observational station data used as input to produce the gridded dataset. A correction to _FillValue assignment in the metadata for seasonal and annual grids has also been applied to be consistent with the rest of the dataset. The primary purpose of these data are to facilitate monitoring of UK climate and research into climate change, impacts and adaptation. The datasets have been created by the Met Office with financial support from the Department for Business, Energy and Industrial Strategy (BEIS) and Department for Environment, Food and Rural Affairs (DEFRA) in order to support the Public Weather Service Customer Group (PWSCG), the Hadley Centre Climate Programme, and the UK Climate Projections (UKCP18) project. The data recovery activity to supplement 19th and early 20th Century data availability has also been funded by the Natural Environment Research Council (NERC grant ref: NE/L01016X/1) project "Analysis of historic drought and water scarcity in the UK". The dataset is provided under Open Government Licence.
DOI: 10.5285/616e6194a8c742d790f3b43bf66a534d
title: HadUK-Grid Gridded Climate Observations on a 25km grid over the UK, v1.0.3.0 (1862-2020)

description: HadUK-Grid is a collection of gridded climate variables derived from the network of UK land surface observations. The data have been interpolated from meteorological station data onto a uniform grid to provide complete and consistent coverage across the UK. The dataset at 25 km resolution is derived from the associated 1 km x 1 km resolution to allow for comparison to data from UKCP18 climate projections. The dataset spans the period from 1862 to 2020, but the start time is dependent on climate variable and temporal resolution. The gridded data are produced for daily, monthly, seasonal and annual timescales, as well as long term averages for a set of climatological reference periods. Variables include air temperature (maximum, minimum and mean), precipitation, sunshine, mean sea level pressure, wind speed, relative humidity, vapour pressure, days of snow lying, and days of ground frost. This data set supersedes the previous versions of this dataset which also superseded UKCP09 gridded observations. Subsequent versions may be released in due course and will follow the version numbering as outlined by Hollis et al. (2018, see linked documentation). This release includes data for the calendar year 2020. Ongoing quality checks and data recovery to historical data results in changes to around 0.01% of the observational station data used as input to produce the gridded dataset. A correction to _FillValue assignment in the metadata for seasonal and annual grids has also been applied to be consistent with the rest of the dataset. The primary purpose of these data are to facilitate monitoring of UK climate and research into climate change, impacts and adaptation. The datasets have been created by the Met Office with financial support from the Department for Business, Energy and Industrial Strategy (BEIS) and Department for Environment, Food and Rural Affairs (DEFRA) in order to support the Public Weather Service Customer Group (PWSCG), the Hadley Centre Climate Programme, and the UK Climate Projections (UKCP18) project. The data recovery activity to supplement 19th and early 20th Century data availability has also been funded by the Natural Environment Research Council (NERC grant ref: NE/L01016X/1) project "Analysis of historic drought and water scarcity in the UK". The dataset is provided under Open Government Licence.
DOI: 10.5281/zenodo.5494443
title: Plasmid Loss data and scripts

description: Plasmid loss data and corresponding scripts.
DOI: 10.5281/zenodo.5494442
title: Plasmid Loss data and scripts

description: Plasmid loss data and corresponding scripts.
DOI: 10.5281/zenodo.5493705
title: Plasmid Loss images and scripts

description: Image dataset and their corresponding R scripts.