cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.1594/pangaea.928929
title: Wind speed and direction measurements at Cataract Scout Park, Australia, taken during the COALA-2020 campaign

description: Measurements of wind speed and direction were captured using a three-dimensional sonic anemometer (Windmaster Pro, Gill Instruments Limited, Hampshire, UK). Measurements were taken at Cataract Scout Park, Appin, N.S.W. (34°14'42.29"S 150°49'24.97"E) from a mast 10 m above ground level as part of the Characterizing Organics and Aerosol Loading over Australia (COALA-2020) campaign. Data processing was handled by the EddyPro® 7 software (LI-COR Biosciences, Lincoln, NE, USA). Measurements were taken at 1-minute time resolution and averaged to thirty-minute means, as reported here. Mean wind speed and direction are the only parameters reported here as the authors are concerned the adjacent tree canopy has significantly impacted the flux measurements. For further details please contact the authors. Wind speed and direction measurements were also taken at an adjacent air quality monitoring station installed for the campaign. These data are also available in this depository, listed under "Air quality pollutants measurements at Cataract Scout Park, Australia, taken during the COALA-2020 campaign."
description: COALA-2020 was funded by Australia's National Environmental Science Program through the Clean Air and Urban Landscapes hub
DOI: 10.1594/pangaea.929001
title: Air quality pollutants measurements at Cataract Scout Park, Australia, taken during the COALA-2020 campaign

description: Measurements of air quality pollutant concentration were collected using a New South Wales Department of Planning, Industry, and Environment Air Quality Monitoring Station (AQMS). Measured variables included relative humidity, ambient temperature, wind speed and direction, particulate matter less than 2.5 µm in diameter (PM2.5), particulate matter less than 10 µm in diameter (PM10), ozone, nitric oxide (NO), nitrous oxide (NO2), oxides of nitrogen (NOx), sulfur dioxide (SO2) and visibility by nephelometer. The station used was identical to those used in the DPIE air quality monitoring network around N.S.W. Details of the instrumentation used can be found here: https://www.environment.nsw.gov.au/topics/air/air-quality-basics/sampling-air-pollution. Measurements were taken at Cataract Scout Park, Appin, N.S.W. (34°14'42.29"S 150°49'24.97"E) as part of the Characterising Organics and Aerosol Loading over Australia (COALA-2020) campaign. Measurements are available from late December, 2019 to mid-March, 2020. Reported measurements are at 1-minute time resolution. Data have been filtered for flagged, outlying and negative values. All gaseous measurements were corrected using overnight zero and span measurements. Ozone was corrected overnight using only zero measurements. It must be noted that the sulfur dioxide record contains some data gaps.
description: Empty cells = ndCOALA-2020 was funded by Australia's National Environmental Science Program through the Clean Air and Urban Landscapes hub
DOI: 10.1594/pangaea.949797
title: Soil NOx measurements at Cataract Scout Park, Australia, taken during the COALA-2020 campaign

description: Measurements of soil NOx were collected using Lancaster University Dynamic Soil Chambers (LU-DySCs) combined NOx analysers (Thermo Fisher Scientific Inc, 42i). Measured variables included nitric oxide (NO), Nitrogen dioxide (NO2), and oxides of nitrogen (NOx). Measurements were taken at Cataract Scout Park, Appin, N.S.W. (34°14'42.29S 150°49'24.97E) as part of the Characterising Organics and Aerosol Loading over Australia (COALA-2020) campaign. The soil chambers were located ~100m away from the main observatory, under the Eucalyptus tree. Both sample chamber and reference chambers were simultaneously collected the NOx mixing ratio by seperate NOx analysers. Four soil collars were installed, two collars were no litter (NL) on the soil and the other two collars were litter on the soil (WL). Measurements are available from February 24 to March 23, 2020. Reported measurements are at 1-minute time resolution.
DOI: 10.1594/pangaea.806187
title: (Table 1) Sulfur content and sulfur-isotope ratios at DSDP Leg 82 Holes basalts

description: The sulfur contents of 21 basalt samples from four DSDP Leg 82 holes were determined and the isotopic compositions of sulfur were measured on 15 of them. Most of the basalts are altered and have sulfur contents of about 100 ppm. Isotopic ratios for sulfate and total sulfur range from +0.7 to +10.5 per mil, indicating almost complete leaching of the igneous sulfide in low-sulfur samples by alteration.Total sulfur content of some samples ranges between 960 and 1170 ppm, somewhat higher than expected for tholeiitic basalts. The isotope ratios of total sulfur in these samples are slightly shifted to values heavier than the generally assumed mantle ratio of zero, and this shift is thought to result from a secondary source of sulfur.
description: Blanks indicate that samples were too altered for determination of d34S and/or that the samples were too small for determining the three sulfur phases.
description: Supplement to: Hubberten, Hans-Wolfgang; Puchelt, Harald (1985): The sulfur content and isotopic composition in basalts from Holes 558, 559, 562, and 564. In: Bougault, H; Cande, SC; et al. (eds.), Initial Reports of the Deep Sea Drilling Project, Washington (U.S. Govt. Printing Office), 82, 519-522
DOI: 10.1594/pangaea.967043
title: Total nitrogen, total organic carbon, stable nitrogen isotopes, amino acids and hexosamines in suspended matter samples from the South China Sea collected on cruise of R/C SONNE 269

description: This set of suspended matter (SPM) samples and water samples were collected in the South China Sea on the cruise of R/V SONNE 269 between August 5th and 31st 2019. The aim of this study was to better understand sources and cycling processes of SPM (i) in a region influenced by a river draining a so-called megacity and (ii) at the shelf break. Samples were analysed for total nitrogen (N) and total organic carbon carbon (TOC) using a Carlo Erba nitrogen analyser 1500 after treatment of weighed samples with 1N HCl to remove carbonate. Stable nitrogen isotopes of total particulate nitrogen (δ15N-TPN) were analysed with the mass spectrometer Thermo Finnigan MAT 252. Stable nitrogen and oxygen isotopes of nitrate (δ15N-NO3, δ18O-NO3) were analysed by the denitrifier method with a Delta Plus XP mass spectrometer. AA and HA contents and their individual monomers were analysed by liquid chromatography using a Biochrom 30 amino acid analyzer. Contents of AA and HA are presented in µmol/g and µg/g. AAC, AAN, HAC, HAN are presented in µg/g and as percentages of TOC (AAC/C, HAC/C) or TN (AAN/N, HAN/N). AA monomers are presented in mol % and comprise cysteic acid (CYA), taurine (TAU), methionine sulfoximine (MSO), aspartic acid (ASP), glutamic acid (Glu), threonine (Thr), serine (Ser), glycine (Gly), alanine (Ala), valine (Val), methionine (Met), isoleucine (Ile), leucine (Leu), tyrosine (Tyr), phenylalanine (Phe), β-Alanine (β-Ala), γ-aminobutyric acid (γ-Aba), histidine (His), tryptophane (TRP), ornithine (Orn), lysine (Lys) and arginine (Arg). HA monomers are present in mol % of total HA and comprise glucosamine (GlcN) and galactosamine (GalN). Data gaps indicate that measurements were not carried out. The RI was calculated according to Jennerjahn and Ittekkot (1997; https://archimer.ifremer.fr/doc/00093/20403/) and the DI after Dauwe et al. (1999; doi:10.4319/lo.1999.44.7.1809). Definitions of biogeochemical indicators SDI, RTI and a detailed description of the methods can be found in Gaye et al. (2022; doi.org/10.5194/bg-19-807-2022).
DOI: 10.1594/pangaea.967045
title: Total nitrogen, total organic carbon, stable nitrogen isotopes, amino acids and hexosamines in surface sediments from six stations in the South China Sea sampled during cruise of R/V SONNE 269

description: Surface sediment samples were collected in the South China Sea on the cruise of R/V SONNE 269 between August 6th and 20th 2019. The aim of the study was to investigate the impact of the Pearl River on sedimentary organic matter on the shelf and continental slope of the Pearl River mouth. Furthermore, amino acid and hexosamine contents and spectra are used to track resuspension processes on the shelf break. Samples were analysed for total nitrogen (N) and total carbon (TC) using a Carlo Erba nitrogen analyser 1500. Total organic carbon (TOC) was measured with the same instrument after treatment of weighed samples with 1N HCl to remove carbonate. Stable nitrogen isotopes of total particulate nitrogen (δ15N-TPN) were analysed with the mass spectrometer Thermo Finnigan MAT 252. AA and HA contents and their individual monomers were analysed by liquid chromatography using a Biochrom 30 amino acid analyzer. Contents of AA and HA are presented in µmol/g and µg/g. AAC, AAN, HAC, HAN are presented in µg/g and as percentages of TOC (AAC/C, HAC/C) or TN (AAN/N, HAN/N). AA monomers are presented in mol % of total AA and comprise cysteic acid (CYA), taurine (TAU), methionine sulfoximine (MSO), aspartic acid (ASP), glutamic acid (Glu), threonine (Thr), serine (Ser), glycine (Gly), alanine (Ala), valine (Val), methionine (Met), isoleucine (Ile), leucine (Leu), tyrosine (Tyr), phenylalanine (Phe), β-Alanine (β-Ala), γ-aminobutyric acid (γ-Aba), histidine (His), tryptophane (TRP), ornithine (Orn), lysine (Lys) and arginine (Arg). HA mononmers are presented in mol % of total HA and comprise glucosamine (GlcN) and galactosamine (GalN). The RI was calculated according to Jennerjahn and Ittekkot (1997; https://archimer.ifremer.fr/doc/00093/20403/) and the DI after Dauwe et al. (1999; doi:10.4319/lo.1999.44.7.1809). Definitions of biogeochemical indicators SDI, RTI, ox/anox and a detailed description of the methods can be found in Gaye et al. (2022, doi.org/10.5194/bg-19-807-2022).
DOI: 10.1594/pangaea.957191
title: Lead isotope ratios for manganese nodules

description: The authors have selected manganese nodules broadly representative of world oceanic areas. Approximately 1 gram of each manganese nodules was leached with 25-mi 6N HC1. Lead was extracted from the supernate by conventional anion exchange techniques, followed by a single dithizone extraction. Lead-isotope ratios were determined by mass spectrometry.
description: From 1983 until 1989 NOAA-NCEI compiled the NOAA-MMS Marine Minerals Geochemical Database from journal articles, technical reports and unpublished sources from other institutions. At the time it was the most extended data compilation on ferromanganese deposits world wide. Initially published in a proprietary format incompatible with present day standards it was jointly decided by AWI and NOAA to transcribe this legacy data into PANGAEA. This transfer is augmented by a careful checking of the original sources when available and the encoding of ancillary information (sample description, method of analysis...) not present in the NOAA-MMS database.This dataset represents the digitized Table 1, pp. 5125 of the related publication.
DOI: 10.1594/pangaea.898087
title: Dynamic storage of glacial CO2 in the Atlantic Ocean revealed by boron [CO32-] and pH records from IODP Hole 306-1313A, 306-1313C and 306-1313D
DOI: 10.1594/pangaea.948853
title: Ecological measurements from radiation station 2019R8

description: Solar radiation over and under sea ice was measured by radiation station 2019R8, an autonomous platform, installed on drifting First-Year-Ice (FYI) in the Arctic Ocean during MOSAiC (Leg 1) 2019/20. The resulting time series describes radiation measurements as a function of place and time between 05 October 2019 and 31 July 2020 in sample intervals of 3 hours. The radiation measurements have been performed with spectral radiometers. All data are given in full spectral resolution interpolated to 1.0 nm, and integrated over the entire wavelength range (broadband, total: 320 to 950 nm). Two sensors, solar irradiance and upward reflected solar irradiance, were mounted on a on a platform about 1 m above the sea ice surface. The third sensor was mounted 0.5 m underneath the sea ice measuring the downward transmitted irradiance. Along with the radiation measurements, this autonomous platform consisted of a 5 m long thermistor chain with sensor spacing of 0.02 m and several other sensor packages, which measured water temperature, pressure and conductivity at hourly intervals. Ecology sensors measured backscatter strength, chlorophyll a and fluorescence of dissolved organic matter at hourly intervals. Oxygen sensors measured relative oxygen air saturation, and water temperature at hourly intervals. In addition, relative snow height was measured at hourly intervals. All times are given in UTC.
description: The data set has been processed and contains quality flags for different kinds for erroneous data. Flag values are the sum of individual error codes. The value of 0 refers to no error. Quality flag, position: The geographic position is flagged +1 if the drift velocity, as derived from the GPS longitude and latitude, exceeds a threshold of 10 deg latitude or 50 deg longitude per time step; +2 if the position exceeds extreme values, such as longitude &gt; 360 deg; +4 if the position is exactly 0.0.
DOI: 10.1594/pangaea.779118
title: (Table 2) K-Ag age of volcanites from underwater rises of the Sea of Okhotsk
DOI: 10.1594/pangaea.785055
title: (Table T2) Stable isotopic ratios and concentrations of carbon in wood, plant fragments, and humic extracts of ODP Leg 184 sites
DOI: 10.15468/dl.k4kwu5
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hydrotriche mayacoides A.Raynal"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025551-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8zfs72
title: Occurrence Download

description: A dataset containing 106486 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is AlgaCAT, Banco de datos de las algas de Cataluña"
 ]
}

 The dataset includes 106486 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025538-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pcmesn
title: Occurrence Download

description: A dataset containing 8997 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Trochidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 8997 records from 82 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025550-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5as3hy
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Butumia marginalis G.Taylor"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025552-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/9970451
title: Health Workforce Shortage Areas
DOI: 10.34740/kaggle/dsv/9970473
title: OnlineFree
DOI: 10.15468/dl.uubxc9
title: Occurrence Download

description: A dataset containing 3539 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Naticidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3539 records from 68 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025553-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3gnw85
title: Occurrence Download

description: A dataset containing 128 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dicraeanthus africanus Engl."
 ]
}

 The dataset includes 128 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025554-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8zyp32
title: Occurrence Download

description: A dataset containing 128 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dicraeanthus africanus Engl."
 ]
}

 The dataset includes 128 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025555-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t54hd4
title: Occurrence Download

description: A dataset containing 4716 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Conidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 4716 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025557-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r2ucyp
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dicraeanthus taylorii J.J.de Wilde & Guillaumet"
 ]
}

 The dataset includes 9 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025558-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.25541005
title: A novel long non-coding RNA connects obesity to impaired adipocyte function

description: We present comprehensive lipidomic data from human adipocytes and preadipocytes engineered to express a novel long non-coding RNA, linc GALNTL6-4. The study involved multiple experimental conditions: human mature adipocytes (MA) and preadipocytes (PA) overexpressed (OE) with their respective controls (Ctrl); MA silenced (SIR) compared against a non-targeting control (NTC); and MA exposed to macrophage-conditioned media (MCM) with untreated MA as the reference control. Lipid analysis was conducted via direct flow injection analysis (FIA) using a triple quadrupole mass spectrometer (FIA-MS/MS) and a high-resolution hybrid quadrupole-Orbitrap mass spectrometer (FIA-FTMS). FIA-MS/MS was carried out in positive ion mode, following the analytical setup and methodology detailed in Liebisch et al. (2004, 2006).
DOI: 10.15468/dl.tvs8wj
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Butumia marginalis G.Taylor"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025560-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hsxkq9
title: Occurrence Download

description: A dataset containing 6674 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Littorinidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 6674 records from 72 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025559-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tw7f3c
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Locality is 昆明",
 "StateProvince is yunnan",
 "TaxonKey is Passeriformes",
 "Year 2014-2024"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025561-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z2ccar
title: Occurrence Download

description: A dataset containing 109 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Luxembourg",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Eliomys quercinus (Linnaeus, 1766)",
 "Year 2010-2024"
 ]
}

 The dataset includes 109 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025562-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7zzw5t
title: Occurrence Download

description: A dataset containing 809 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Philinidae",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 809 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025565-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.12656467
title: Cellpose training data and scripts from "Machine learning for histological annotation and quantification of cortical layers"

description: This Workflow contains all the material necessary to reproduce the cells detection, thanks to the QuPath performed in the paper

 "Machine learning for histological annotation and quantification of cortical layers"

Inside this workflow and dataset, you will find the following folders



QuPath Training Project: A QuPath 0.5.0 project containing all the manual annotations (ground truths) used to train the cellpose model, as well as the script to start the training

Training Images and Demo Images: The raw whole slide scanner images needed by the above QuPath project

Model: The fodler containing the trained cellpose model

cellpose-training Folder: The exported raw and ground truth images that the above cellpose model was trained on

Scripts: The QuPath scripts, also located in their respective QuPath projects, that were created for this whole workflow

QC: A Jupyter notebook, based on ZeroCostDL4Mic that computes quality metrics in order to assess the performance of the trained cellpose model. The folder also contains the resulting metrics.


Installation and Use

If you are going to use the QuPath projects, you need a local QuPath Installation https://qupath.github.io/ that is configured to run the QuPath Cellpose Extension https://github.com/BIOP/qupath-extension-cellpose as well as a working Cellpose installation https://github.com/MouseLand/cellpose

Instructions for installation are available from the links above.

After that, you should be able to open the QuPath project, navigate to the "Automate > Project scripts" menu and locate the script you wish to run.

1. train a cell segmentation algorithm in the context of the rat brain Layer Boundaries project 

2. trigger cell segmentation from a QuPath project in a semi-automated pipeline