cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3535/pkn-526-ryx
title: Sesarma buettikoferi de Man 1883

description: Digital Specimen for the physical specimen hosted at Senckenberg Research Institute and Natural History Museum Frankfurt/M.
DOI: 10.3535/tzt-vb9-v4n
title: Cardisoma carnifex (Herbst 1794)

description: Digital Specimen for the physical specimen hosted at Senckenberg Research Institute and Natural History Museum Frankfurt/M.
DOI: 10.15468/dl.2asa3f
title: Occurrence Download

description: A dataset containing 40 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acridocarpus camerunensis Nied."
 ]
}

 The dataset includes 40 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0042333-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rmhc9w
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (×Hesperotropsis notabilis (A.F.Mitch.) Garland & Gerry Moore)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0042334-240626123714530/datasets/export for details.
DOI: 10.15468/dl.2avy4h
title: Occurrence Download

description: A dataset containing 52428434 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Larus marinus Linnaeus, 1758, Thalasseus sandvicensis (Latham, 1787), Mergus merganser Linnaeus, 1758, Ardea alba Linnaeus, 1758, Limosa limosa (Linnaeus, 1758), Psittacula krameri (Scopoli, 1769), Accipiter gentilis (Linnaeus, 1758), Columba oenas Linnaeus, 1758, Columba palumbus Linnaeus, 1758, Scolopax rusticola Linnaeus, 1758, Limosa limosa (Linnaeus, 1758), Alcedo atthis (Linnaeus, 1758), Coloeus monedula (Linnaeus, 1758), Calidris pugnax (Linnaeus, 1758), Tyto alba (Scopoli, 1769), Vanellus vanellus (Linnaeus, 1758), Dryobates minor (Linnaeus, 1758), Larus fuscus Linnaeus, 1758, Charadrius dubius Scopoli, 1786, Anser brachyrhynchus Baillon, 1834, Egretta garzetta (Linnaeus, 1766), Cygnus columbianus (Ord, 1815), Recurvirostra avosetta Linnaeus, 1758, Cygnus olor (J.F.Gmelin, 1789), Cuculus canorus Linnaeus, 1758, Bubulcus ibis (Linnaeus, 1758), Chroicocephalus ridibundus (Linnaeus, 1766), Anser albifrons (Scopoli, 1769), Parus major Linnaeus, 1758, Mareca strepera (Linnaeus, 1758), Aythya fuligula (Linnaeus, 1758))",
 "Geometry POLYGON((-19.5 34.1, 27.8 34.1, 35.9 68.1, -25.3 68.1, -19.5 34.1))",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Human Observation)",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2008"
 ]
}

 The dataset includes 52428434 records from 7950 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0042328-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13341769
title: Raw Data for Nachmias N.*, Dotan N*, Campos Rocha M* et al. Nature Microbiology 2024 (accepted)
DOI: 10.5281/zenodo.8143305
title: ASCII files of f_abc coefficients for Li to Si (Z=3-14) GCR species

description: Full ASCII tables of f_abc coefficients, ranking the most important reactions for the production of for Li to Si GCR species (one file per GCR element). These coefficients are defined and these files are used in the paper "Current status and desired accuracy of the isotopic production cross-sections relevant to astrophysics of cosmic rays - II. Fluorine to Silicon (and updated LiBeB)".
DOI: 10.6084/m9.figshare.24080472
title: Over-reliance on land for carbon dioxide removal in net-zero climate pledges

description: Data summary for land area quantification in national climate pledges.
DOI: 10.6084/m9.figshare.26213432.v1
title: ARRIVE guidelines author checklist

description: Mice were placed on a chronic food restriction protocol and their bodyweight and body temperature were continuously recorded to measure torpor bout characteristics.
DOI: 10.1285/i24212113v7i1p88
title: The "plantito/plantita" home gardening during the pandemic

description: The COVID-19 pandemic has affected every segment of life, including health, economy, education, and social ecologies. Quarantine measures have forced people to stay inside their homes, leading to the "new normal" of living and adaptation. One activity that has been among Filipinos during the onset of the lockdown until the present time is the increased engagement in gardening. Home gardening suddenly became a widespread activity in rural and urban areas. The use of the words "plantito" [male] and "plantita" [female] denote someone who enjoys taking care of plants. This qualitative study aims to explore and describe the rise of home gardening among Filipinos during the pandemic. A total of 104 participants answered an online survey containing open-ended questions. They described a "plantito/plantita" as a plant lover and nurturer and reported home gardening as a way of connecting with nature, a psychological experience, and an interest. The benefits include stress relief and improved mood. Further studies on home gardening and mental health and possible opportunities to incorporate this activity in communities are warranted.
DOI: 10.15139/s3/brle7l
title: MLE Nigeria Endline Data

description: The MLE Nigeria Endline data includes Longitudinal data files covering all six cities - Abuja, Benin City, Ibadan, Ilorin, Kaduna, and Zaria - as well as Cross-Sectional data files covering four cities - Abuja, Ibadan, Ilorin, and Kaduna - and 2 states - Oyo and Kaduna. Longitudinal womanhousehold SDP Cross-Sectional womanhousehold
DOI: 10.26180/21687143
title: Table 2a Antecedents of embodiment in PE complete data set

description: Supplementary data to support Table 2 in paper
DOI: 10.26180/21687182
title: Table 3a Attributes of embodiment in PE complete data set

description: Supplementary data for Table 3 in the paper
DOI: 10.26180/21687191
title: Table 4a: Consequences of embodiment in physical education

description: Supplementary data for Table 4 in paper
DOI: 10.4121/137d1031-c1ee-40d5-9a36-fd4f4b8af554
title: Data underlying the publication: Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions - Roodmus_DESRES-Trajectory_sarscov2-13795965-no-water-movies

description: <strong>Introduction</strong>data underlying the publication Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions.Publication DOI: https://doi.org/10.1107/S2052252524009321Authors: M. Joosten, J. Greer, J. Parkhurst, T. Burnley, A.J. Jakobi<br><strong>Description</strong>SARS-CoV-2 replication transcription complex (RTC) synthetic cryo-EM micrographs and atomic structure models. 50100 particles in 167 .mrc movies and 10000 .pdb models. Each movie consists of 3 frames. Atomic models derived from molecular dynamics simulation adapted from "Molecular Dynamics Simulations Related to SARS-CoV-2," D. E. Shaw Research Technical Data, 2020.
DOI: 10.4121/2702bc54-def0-4daf-8cd0-7f8e85453616
title: Data underlying the publication: Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions - Roodmus_c3c3b

description: <strong>Introduction</strong>data underlying the publication Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions.Publication DOI: https://doi.org/10.1107/S2052252524009321Authors: M. Joosten, J. Greer, J. Parkhurst, T. Burnley, A.J. Jakobi<br><strong>Description</strong>human complement component C3 synthetic cryo-EM micrographs and atomic structure models. 200000 particles in 800 .mrc micrographs and 2000 .pdb models. Atomic models derived from steered molecular dynamics simulation performed in openMM using starting and target structures from a morphing trajectory between models with PDB id 2a73 and 2i07 respectively.
DOI: 10.4121/27ec37ba-2e8b-4c0d-ac9d-480bfb067d0d
title: Data underlying the publication: Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions - Roodmus_DESRES-Trajectory_sarscov2-11021566-11021571-mixed

description: <strong>Introduction</strong>data underlying the publication Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions.Publication DOI: https://doi.org/10.1107/S2052252524009321Authors: M. Joosten, J. Greer, J. Parkhurst, T. Burnley, A.J. Jakobi<br><strong>Description</strong>SARS-CoV-2 spike glycoprotein synthetic cryo-EM micrographs and atomic structure models. 120000 particles in 400 .mrc micrographs and 16668 .pdb models. The first 8334 atomic models are sampled from the closed state simulation DESRES-Trajectory_sarscov2-11021566. The last 8334 atomic models are sampled from the open state simulation DESRES-Trajectory_sarscov2-11021571. Atomic models derived from molecular dynamics simulation adapted from "Molecular Dynamics Simulations Related to SARS-CoV-2," D. E. Shaw Research Technical Data, 2020.
DOI: 10.4121/b28e84c9-7959-4299-9a69-279b10250257
title: Data underlying the publication: Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions - Roodmus_DESRES-Trajectory_sarscov2-11021571-all-glueCA

description: <strong>Introduction</strong>data underlying the publication Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions.Publication DOI: https://doi.org/10.1107/S2052252524009321Authors: M. Joosten, J. Greer, J. Parkhurst, T. Burnley, A.J. Jakobi<br><strong>Description</strong>SARS-CoV-2 spike glycoprotein synthetic cryo-EM micrographs and atomic structure models. 270000 particles in 900 .mrc micrographs and 8334 .pdb models. Atomic models derived from molecular dynamics simulation adapted from "Molecular Dynamics Simulations Related to SARS-CoV-2," D. E. Shaw Research Technical Data, 2020.
DOI: 10.5281/zenodo.10512153
title: A dataset of calculated seismic velocities and densities for the subducted continental crust

description: This dataset documents calculated VP, VS, VP/VS, and ρ of the subducted continental crust and other subduction-related rocks and velocity difference from the ambient mantle (AK135 model) for the mixtures of continental crust and harzburgite under subduction-related geotherms.
DOI: 10.5281/zenodo.13150331
title: Salinity, temperature and oxygen distribution at Bornholm (IDEAL), Gdansk (P1) and Gotland (BY15) Deeps from September 2020 to September 2023

description: Salinity, temperature and oxygen distribution at Bornholm (IDEAL), Gdansk (P1) and Gotland (BY15) Deeps from September 2020 to September 2023.  Data were collected in-situ using a Sea-Bird Scientific SBE 911 Plus CTD profiler. Data were collected within the SONATA BIS project nr UMO-2019/34/E/ST10/00217 called IDEAL funded by National Science Center (NCN).
DOI: 10.5676/dwd_gpcc/fd_d_v2022_100
title: GPCC Full Data Daily Version 2022 at 1.0°: Daily Land-Surface Precipitation from Rain-Gauges built on GTS-based and Historic Data
title: Globally Gridded Daily Totals 

description: This is the GPCC Full Data Daily Product Version 2022 of daily global land-surface precipitation totals based on precipitation data provided by national meteorological and hydrological services, regional and global data collections as well as WMO GTS-data. It is provided at a regular latitude/longitude grid with a spatial resolution of 1.0 x 1.0 degree and covers the time period from January 1982 to December 2020 (one year per file). Relative precipitation anomalies at the stations (daily totals divided by monthly total) are interpolated by means of a modified SPHEREMAP scheme (Becker et al., 2013 (10.5194/essd-5-71-2013); Schamm et al., 2014 (10.5194/essd-6-49-2014); Schneider et al., 2018) and then superimposed on the GPCC Full Data Monthly Version 2022 (DOI: 10.5676/DWD_GPCC/FD_M_V2022_100) monthly precipitation totals with climatological infilling.
DOI: 10.17632/rd4v52p6ks.3
title: A systematic review of impact of spinal cord injury on costs and health related quality of life

description: To systematically reviews the QoL burden and costs of spinal cord injury on health services, patients, and wider society
DOI: 10.4121/eefcc341-250c-407c-a299-a4512df5f962
title: Data underlying the publication: Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions - Roodmus_6xm5_steered

description: <strong>Introduction</strong>data underlying the publication Roodmus: a toolkit for benchmarking heterogeneous electron cryo-microscopy reconstructions.Publication DOI: https://doi.org/10.1107/S2052252524009321Authors: M. Joosten, J. Greer, J. Parkhurst, T. Burnley, A.J. Jakobi<br><strong>Description</strong>SARS-CoV-2 spike glycoprotein monomer synthetic cryo-EM micrographs and atomic structure models. 20000 particles in 800 .mrc micrographs and 10000 .pdb models. Atomic models derived from steered molecular dynamics simulation performed in openMM using starting and target structures adapted from models with PDB id 6xm4 and 6xm5 respectively.
DOI: 10.5066/p90bnffl
title: Photographs and video clips of Clear Lake Hitch

description: This data release includes a collection of photographs and video clips. Above water observations were taken with with a Nikon D5300 digital camera and underwater observations were taken with a SOOCOO S100Pro digital camera. All observations were made on April 1, 2018 in Kelsey, Creek, Lake County, California. Further details can be found in: Feyrer, F. 2018. Rapid potamodromy into ephemeral streams: observations of the spawning ecology of the imperiled Clear Lake Hitch Lavinia exilicauda chi. (in review)
DOI: 10.5066/p93rxtkj
title: Predictions of PFAS in groundwater used as a source of drinking water and related data in the conterminous United States

description: An extreme gradient boosting ensemble tree model predicting per- and polyfluoroalkyl substances (PFAS) occurrence in groundwater at the depths typical of the bottom of public and domestic drinking water supplies across the conterminous United States was developed. PFAS data used to train the model were collected between 2019 and 2022 by the U.S. Geological Survey National Water Quality Network, Groundwater and the California Groundwater Ambient Monitoring and Assessment Program – Priority Basin Project. This dataset contains concentrations of PFAS, volatile organic compounds (VOCs), pharmaceuticals, and tritium in groundwater, along with associated quality assurance and quality control data. Concentrations of VOCs and pharmaceuticals were measured at the U.S. Geological Survey (USGS) National Water Quality Laboratory in Lakewood, Colorado. Concentrations of PFAS were measured at SGS North America Inc. - Environment Health & Safety in Orlando, Florida. Concentrations of tritium were measured at the USGS Tritium Laboratory in Menlo Park, California. PFAS concentrations were converted to a binary (either detected or not detected) for modeling. Model predictor variables used for training the final model were urban land use, well depth, average soil clay content, nitrogen loading from septic systems, recharge, population density, depth to water, and distance to the nearest potential PFAS source (fire training areas, airports, waste facility, etc.). Model predictions were at 1x1 kilometer resolution. All model inputs (model training dataset and rasters for prediction), the model object, model outputs, and source code to generate final model predictions are provided. Model outputs are the rasters for the predicted occurrence of PFAS at the depths typical for (1) public drinking water supply, and (2) domestic (private well) drinking water supply.
DOI: 10.5281/zenodo.10405106
title: Data for "Profiling the transcriptomic age of single-cells in humans"

description: This is a supplementary data for the article titled "Profiling transcriptomic age of human single-cells". Data created in this project is shared here for the scientific community. 

Here we used available scRNA-seq data of 1,058,909 blood cells of 508 healthy, human donors, for developing cell-type-specific single-cell transcriptomic clocks and predicting the age of human blood cells.  We also applied our clocks to different external datasets and evaluated the age of single cells originated from COVID-19 patients and human embryos.

For the description of the content of the dataset see the ReadMe file.
DOI: 10.5281/zenodo.11124117
title: Replication package for the paper "What Makes Programmers Laugh? Exploring the Submissions of the Subreddit r/ProgrammerHumor.".

description: Replication package for the paper "What Makes Programmers Laugh? Exploring the Submissions of the Subreddit r/ProgrammerHumor." Accepted to ESEM '24.
DOI: 10.5281/zenodo.7905294
title: Discrete Feature Representations of CHO Reaction Mechanisms as Quasireaction Subgraphs

description: This data set contains 194778 quasireaction subgraphs extracted from CHO transition networks with 2-6 non-hydrogen atoms (CxHyOz, 2 &lt;= x + z &lt;= 6). The complete table of subgraphs (including file locations) is in CHO-6-atoms-subgraphs.csv file. The subgraphs are in GraphML format (http://graphml.graphdrawing.org) and are compressed using bzip2. All subgraphs are undirected and unweighted. The reactant and product nodes (initial and final) are labeled in the "type" node attribute. The nodes are represented as multi-molecule SMILES strings. The edges are labeled by the reaction rules in SMARTS representation. The forward and backward reading of the SMARTS string should be considered equivalent. The generation and analysis of this data set is described in<br> D. Rappoport, Statistics and Bias-Free Sampling of Reaction Mechanisms from Reaction Network Models, 2023, submitted. Preprint at ChemrXiv, DOI: 10.26434/chemrxiv-2023-wltcr Simulation parameters<br> - CHO networks constructed using polar bond break/bond formation rule set for CHO.<br> - High-energy nodes were excluded using the following rules:<br> (i) more than 3 rings, (ii) triple and allene bonds in rings, (iii) double bonds at<br> bridge atoms,(iv) double bonds in fused 3-membered rings.<br> - Neutral nodes were defined as containing only neutral molecules.<br> - Shortest path lengths were determined for all pairs of neutral nodes.<br> - Pairs of neutral nodes with shortest-path length &gt; 8 were excluded.<br> - Additionally, pairs of neutral nodes connected only by shortest paths passing through<br> additional neutral nodes (reducible paths) were excluded. For background and additional details, see paper above.
description: This work was supported in part by the National Science Foundation under Grant No. CHE-2227112.
DOI: 10.6084/m9.figshare.27330609
title: Dataset: force plate-based outcomes and trunk angular velocity in response to single leg perturbations in a group of healthy subjects

description: Eighteen healthy participants participated in this study. During measurements, participants were standing on one leg while mediolateral position-controlled platform perturbations were used to evoke and measure balance responses. Mean trunk angular velocity assessed with an inertial measurement unit and time-to-stability and mean center of pressure speed measured with a force plate were calculated over a five-second time window after each perturbation.
DOI: 10.5281/zenodo.11277368
title: Data archive for: Chain forming diatoms use different strategies to avoid diffusion limited N assimilation

description: Data archive for: “Chain forming diatoms use different strategies to avoid diffusion limited N assimilation” published in Limnology and Oceanography (L&O), https://doi.org/10.1002/lno.12677.

 

Dataset of single cell assimilation of DIC and NO3- by Skeletonema marinoi in the exponential and stationary growth phase captured using secondary ion mass spectrometry (SIMS) and stable isotopic tracers. The data set contains the data used in the study and the outliers excluded from further analysis.

 

Two strains (Strain 1 and Strain 2) were incubated during either the exponential or stationary growth phase over 24h with 15N enriched NO3- and 13C enriched DIC. The cell specific DIC and NO3- assimilation was measured using SIMS.

See the main manuscript for a extensive experimental setup and more details.

Each file is uploaded as both a .CSV and .XLSX, so that you can choose which you prefer.

 

Row description:

Each row represents one Skeletonema marinoi cell.

Column description: 

Single.cell: if the cell was a solitary cell (y) or not (n)

End.cell: if the cell was located at the end of a chain (y) or not (n)

Chain_position: a number assigned to identify every cell in a chain starting with 1 at one end of the chain

Chain_length_numeric: the total number of cells in the chain

Chain_length_max_6: the total number of cell in the chain, all numbers larger than 6 are pooled together and labelled >6

Two_chain: if the cell was in a chain consisting of only 2 cells (y) or not (n)

Cell_information: whether the cell was a solitary cell (Single cell), found in a two cell chain (Two cell chain), found at the end of a chain longer than 2 cell (End cell), or in the middle of a chain longer than 3 cells (Middle cell).

Chain: a identifying number assigned to differentiate the different chains

C_fmol_per_cell_day: DIC assimilated in fmol cell-1 day-1

N_fmol_per_cell_day: NO3- assimilated in fmol cell-1 day-1
DOI: 10.15151/esrf-es-1917458960
title: Swiss consortium in macromolecular X-ray crystallography structure determination for academic researchers: EPFL, UNIL, UNIGE and SLS-MX joi

description: This proposal is a joined application by major swiss academic universities; EPFL, UNIL, UNIGE and SLS-MX; and lead by Dr. Florence Pojer, head of the protein Production and Structure core facility at EPFL, an expert in X-ray crystallography with over 20 years experience. The applicants are regular users of the MX beamlines at the Swiss Light Source at PSI. As SLS-PSI will close its door in summer 2023 for 2 years, It is now essential for our community to collect data at ESRF. Moreover, the access to the automated MASSIF-1 beamline, managed by Didier Nurizzo and colleagues, will be an amazing value to our current pipeline. A non exhaustive list of projects by the applicants is presented below. The consortium will need around 14 shifts per 6 months, similar to what they currently are allocated at PSI-SLS. Important note; no application was sent to other synchrotron sources.
DOI: 10.5066/p96exo3v
title: Environmental DNA metabarcoding results of fish prey DNA in common loon (Gavia immer) fecal and cloacal swab samples from the Whitefish Chain of Lakes, Crow Wing County, Minnesota

description: The dataset contains sequencing read counts of fish prey eDNA metabarcoding (using primers targeting the 16S rRNA mitochondrial gene) that were extracted from fecal and cloacal swab samples collected from common loons (Gavia immer) captured on the Whitefish Chain of Lakes, Crow Wing County, Minnesota during 2015-2106. Sample type (cloacal or fecal); loon identification, age, and sex; capture date and location; and prey detections for each sample are provided.
DOI: 10.15151/esrf-es-1896444839
title: Italian CryoEM Bag (ICB)

description: This BAG application builds on the development of single particle cryoEM in the Italian Structural Biology community, as in Italy there is no top-end instrument is open to rhe structural biology community.
The groups in this application have acquired know-how in cryoEM through international collaborations or by acquiring medium-level in-house equipment. Access to
the CM01 beamline at the ESRF since August 2020 has allowed the development of projects from groups that do not have in-house equipment that resulted in paper in publication on Nucleic Acid Research NAR.
We now have four screening microscopes in Italy and three more are being funded, making the access to CM01 more demanded and relevant for high-resolution data and, consequently high profile publications.