cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17617/3.kg33a1
title: Supplementary material: Machine learning based classification of vector field configurations

description: The data set contains the supplementary material to support the paper: Machine learning based classification of vector field configurations. The dataset contains simulation files, scripts for data generation and a notebook which shows the steps undertaken to perform the study. The study shows how to cluster magnetisation vector fields into meaningful classes, based on their magnetisation configuration, using an unsupervised machine learning approach.
description: Ubermag
description: tensorflow, 2.12.0
description: scikit-learn, 1.3.1
DOI: 10.17617/3.lfexyv
title: The Sun's differential rotation is controlled by high-latitude baroclinically unstable inertial modes

description: Submitted manuscript.
DOI: 10.17617/3.wsl8zp
title: Data for the manuscript entitled "Superconducting pairing symmetry in MoTe2"

description: This dataset contains the experimental data used in the manuscript entitled "Superconducting pairing symmetry in MoTe2". It is composed by longitudinal and Hall resistivity or conductivity curves as a function of temperature, magnetic field and/or external pressure.
DOI: 10.17617/3.gcilrp
title: State-dependent potentials for the 1S0 and 3P0 clock states of neutral ytterbium atoms

description: Data presented in the publication.
DOI: 10.15468/dl.6ret22
title: Occurrence Download

description: A dataset containing 2380 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Morchella elata Fr.)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Geometry POLYGON ((-20 20, -20 75, 45 75, 45 20, -20 20))"
 ]
}

 The dataset includes 2380 records from 115 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021481-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17617/3.kwanvf
title: Source data and code for "Controlling crystal electric field levels through symmetry-breaking uniaxial pressure in a cubic super heavy fermion"

description: Source data and code for "Controlling crystal electric field levels through symmetry-breaking uniaxial pressure in a cubic super heavy fermion". Source data are deposited in ASCII format. Code data requires Mathematica.
DOI: 10.17617/3.ifoiin
title: Data and Code Repository for Jacobson et al., 2023: The Importance of Representative Sampling for Home Range Estimation in Field Primatology

description: Supplemental Data and R code for the publication "The Importance of Representative Sampling for Home Range Estimation in Field Primatology" in the International Journal of Primatology. DOI: 10.1007/s10764-023-00398-z
DOI: 10.17617/3.oyuxds
title: Loxodes nuclei FACS separation detailed protocol

description: Detailed protocol for isolation of micro- and macronuclei from Loxodes ciliates with fluorescence activated cell sorting (FACS).
DOI: 10.17617/3.3tqwjx
title: FACS run data from Loxodes magnus nuclei separation for Western blots

description: Run data from fluorescence activated cell sorting (FACS) of micro- and macronuclei by FACS from cell lysate of Loxodes magnus ciliates. See README.md for details.
description: BD FACSChorus, v1.1.18.0
DOI: 10.17617/3.gznwoj
title: FACS run data from Loxodes striatus nuclei separation for Western blots

description: Run data from fluorescence activated cell sorting (FACS) of micro- and macronuclei by FACS from cell lysate of Loxodes striatus ciliates. See README.md for details.
description: BD FACSChorus, v1.1.18.0
DOI: 10.21233/tfty-d324
title: Au Train Bay testate amoebae surface sample dataset

description: Raw data for the Au Train Bay testate amoebae surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.17617/3.uibmjx
title: NeuroQuantify Dataset

description: The segmentation of cells and neurites in microscopy images of neuronal networks provides valuable quantitative information about neuron growth and neuronal differentiation, including the number of cells, neurites, neurite length and neurite orientation. This information is essential for assessing the development of neuronal networks in response to extracellular stimuli, which is useful for studying neuronal structures, for example, the study of neurodegenerative diseases and pharmaceuticals. However, automatic and accurate analysis of neuronal structures from phase contrast images has remained challenging. To address this, we have developed NeuroQuantify, an open-source software that uses deep learning to efficiently and quickly segment cells and neurites in phase contrast microscopy images. NeuroQuantify offers several key features: (i) automatic detection of cells and neurites; (ii) post-processing of the images for the quantitative neurite length measurement based on segmentation of phase contrast microscopy images, and (iii) identification of neurite orientations. The user-friendly NeuroQuantify software can be installed and freely downloaded from GitHub https://github.com/StanleyZ0528/neural-image-segmentation.
DOI: 10.17617/3.aeojbl
title: A pan-genome of 69 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species range

description: Although originally primarily a system for functional biology, the thale cress Arabidopsis thaliana has, owing to its broad geographical distribution and adaptation to diverse abiotic and biotic environments, developed into a powerful model in population genomics. Here, we present chromosome-level genome assemblies of 69 diverse accessions located across the global species range. We found that genomic co-linearity is very conserved, even among geographically and genetically distant accessions. Along chromosome arms, megabase-scale rearrangements are rare, typically present only in a single accession. This indicates that the highly re-arranged karyotype of Arabidopsis thaliana (as compared to other Brassicaceae species), is quasi-fixed and that rearrangements in chromosome arms are counter-selected. In contrast, centromeric regions show much higher structural dynamics, and divergences in core centromeres account for most of the variation in genome size. Pan-genome analyses of the gene space uncovered 32,986 distinct gene families, 60% being present in all accessions and 40% appearing to be dispensable, including 18% private to a single accession, indicating unexplored genic diversity. The availability of 69 new Arabidopsis thaliana high-quality genome assemblies will empower future genetic research.
DOI: 10.15493/dea.mims.10000013
title: Northern Benguela shelf total cumulative upwelling index, 1997 to 2018

description: Northern Benguela shelf total cumulative upwelling index, 1997 to 2018
description: Seasonal mean total cumulative upwelling in the Northern Benguela (15-29°S;8-16.8°E) shelf region during austral summer, autumn, winter, and spring.
description: Daily-averaged NCEP-DOE Reanalysis 2 wind vectors were used to compute daily values of cumulative Ekman Transport (m3 s-1) per 100m of coastline (Lamont et al. 2018. JMS 188: 3-16). Monthly values were then computed by summing the daily values per month. Seasonal means were computed by averaging data over a three-month period for each season, defined as austral summer (December, January, February), autumn (March, April, May), winter (June, July, August), and spring (September, October, November).
DOI: 10.17617/3.q0jaoz
title: The Lorenz ratio as a guide to scattering contributions to transport in strongly correlated metals

description: The data for the paper 'The Lorenz ratio as a guide to scattering contributions to transport in strongly correlated metals'.
DOI: 10.17617/3.llwrwr
title: Videos for honey bee lifetime tracking data 2019

description: Videos associated with barcode-based tracking of honeybees during summer of 2019, taken in an observation hive located at University of Konstanz, Germany.&lt;br&gt;&lt;br&gt;

The observation hive was filmed using 4 cameras, with two on each side (see Cameras-ObserationHive-Diagram.png). Original videos were taken at resolution of 3296x3008 for each camera. Saved in this repository are downsampled versions of the original videos, downsampled to 1648x1504 with 25Mbps bitrate.&lt;br&gt;&lt;br&gt;

File naming is denoted sequentially (e.g. start00 denotes the first recording), with the start date specific in the filename using the convention YYYYMMDD_HHMMSS. For the 4 cameras, the filename denotes the side of the observation hive, and whether the video is for the top or bottom camera (see Cameras-ObserationHive-Diagram.png). Video recordings were originally taken at 3fps, but here the videos are sped up to 25fps for playback (i.e. 8.333 times actual speed)..&lt;br&gt;&lt;br&gt;

&lt;b&gt;See also:&lt;/b&gt;&lt;br&gt;
Associated data set at Zenodo: &lt;a href="https://doi.org/10.5281/zenodo.7298798"&gt;&lt;img src="https://zenodo.org/badge/DOI/10.5281/zenodo.7298798.svg" alt="DOI"&gt;&lt;/a&gt;
&lt;br&gt;&lt;br&gt;
Table of experiments and manipulations performed:&lt;br&gt;
&lt;a href="https://github.com/jacobdavidson/bees_lifetimetracking_2019data"&gt;https://github.com/jacobdavidson/bees_lifetimetracking_2019data&lt;/a&gt;&lt;br&gt;
Associated GitHub repositories:&lt;br&gt;
&lt;a href="https://github.com/jacobdavidson/bees_lifetimetracking_2019data"&gt;https://github.com/jacobdavidson/bees_lifetimetracking_2019data&lt;/a&gt;&lt;br&gt;
&lt;a href="https://github.com/jacobdavidson/bees_drones_2019data"&gt;https://github.com/jacobdavidson/bees_drones_2019data&lt;/a&gt;
DOI: 10.17617/3.5kyyhk
title: The COMBO window: A chronic cranial implant for multiscale circuit interrogation in mice

description: This dataset contains the raw data associated with the following preprint : https://www.biorxiv.org/content/10.1101/2023.10.02.560470v1
DOI: 10.17617/3.41duib
title: Mosquito metabolism shapes life-history strategies of Plasmodium parasites

description: This project simulates mosquito population dynamics and malaria transmission as described in the research paper "Mosquito metabolism shapes Plasmodium life-history traits". The modelling framework consists of an individual-based model with an extensive description of mosquito biology. Specifically, this is the first model that includes a description of nutrient allocation inside female mosquitoes and their interactions with growing malaria parasites.

Description of the data and file structure

The data from our simulations is organized with variations based on different initial Tsp values and whether the model excluded (control) or included mosquito metabolism (metabolism).

The directories are organized as follows:

1. Control simulations
You will find three directories named "control_11", "control_12", and "control_13", where all results from the simulations excluding mosquito metabolism (control model), and with different starting conditions for Tsp, i.e., Tsp(0) = 11 - 13 days.

2. Metabolism simulations
Similarly, you will find three directories named "metabolism_11", "metabolism_12", "metabolism_13", where results from simulations including the description of mosquito metabolism are stored.

3. Evolutionary simulations
You will find four directories that follow a structure for both conditions (control and metabolism) and initial Tsp values (Tsp(0))
"condition_evo_TSP(0)".

In every directory, you will find a subdirectory with all the simulated and analyzed data. Every simulation produces the following files:

femaleParameters.csv
humanParameters.csv
IncubationPeriod.csv
larvaParameters.csv
PopulationSize.csv
TransmissionProfileMosquitoes.csv

Code/Software

The individual-based model was implemented in the C++ programming language. All analysis were performed using R version 3.5.
The code is available under: https://gitlab.mpcdf.mpg.de/vectorbiology/mosquito_metabolism/vectorbornemodel_release
DOI: 10.17617/3.dcndph
title: Codes for the manuscript Enhanced global carbon cycle sensitivity to tropical temperature linked to internal climate variability

description: This dataset is the code for the manuscript "Enhanced global carbon cycle sensitivity to tropical temperature linked to internal climate variability", Na Li, Sebastian Sippel, Nora Linscheid, Christian Rödenbeck, Alexander J. Winkler, Markus Reichstein, Miguel D. Mahecha, and Ana Bastos.
Na Li created this code dataset, Ana Bastos helped with some codings.
DOI: 10.15468/dl.9cmzxw
title: Occurrence Download

description: A dataset containing 1897 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Morchella conica Pers.)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Geometry POLYGON ((-20 20, -20 75, 45 75, 45 20, -20 20))"
 ]
}

 The dataset includes 1897 records from 82 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021482-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17617/3.bxtd5k
title: Workflow for Line-of-Sight (LOS) analysis in GIS

description: Workflow for Line-of-Sight (LOS) analysis in GIS (ArcGIS Desktop/PRO software release): the video shows the setup of hypothetical observing points, evenly distributed through the space of the virtually reconstructed house of &lt;italic&gt;Caecilius Iucundus&lt;/italic&gt; (height on the ground floor 1.65 m, space interval 0.2 m). LOS algorithm enabled us to generate a vertical map featuring the percentage of visual exposure of the fresco’s surface and a horizontal map of cumulative visibility of the fresco from each observing location
DOI: 10.17617/3.uczkf4
title: Sant’Agnese fuori le mura, 3d model

description: 3D model of Sant'Agnese fuori le mura
DOI: 10.21233/g0xd-w458
title: Chlebowo testate amoebae surface sample dataset

description: Raw data for the Chlebowo testate amoebae surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.17617/3.oyi3t9
title: Lab-source µCT quantitative imaging of silica aerogels during evaporative drying

description: This repository contains the raw data, processed data and python scripts related to the quantitative imaging and modeling of in-operando X-ray micro-computed tomography (µCT) measurements applied to the evaporative drying of silica aerogels. The dataset are linked to two publications (see repository metadata). It also contains the raw data, processed data and python scripts related to the phase composition modeling by wide-angle X-ray scattering (WAXS) measurements reported in the Langmuir publication.

The readers are referred to the multiple "README.txt" files for information on the structure of the dataset.

Users willing to download the complete dataset should do so by using automated download tools. The reason for that is that Edmond caps any single download at 46.6 GB, and the complete dataset is ~2 TB. This can be done for example with pyDataverse (https://pydataverse.readthedocs.io/en/latest/user/basic-usage.html#download-and-save-a-dataset-to-disk) or using an API (https://guides.dataverse.org/en/latest/api/dataaccess.html#basic-download-by-dataset).
description: Python, 3.9
description: Dragonfly (Object Research Systems), 2022.2
DOI: 10.17617/3.ybpfg2
title: Zotino Tall Tower Observatory (ZOTTO) hourly CO2 measurement dataset

description: This dataset contains the quality controlled, calibrated (X2019 scale) continuous half-minute measurements of atmospheric CO2 concentration at Zotino Tall Tower Observatory (ZOTTO) (60.8 N, 89.35 E). The dataset currently contains the observations from May 2009 until the end of Jan 2022.
DOI: 10.15493/dea.mims.10000015
title: Agulhas Bank shelf total cumulative upwelling index, 1997 to 2018

description: Agulhas Bank shelf total cumulative upwelling index, 1997 to 2018
description: Seasonal mean total cumulative upwelling in the Agulhas Bank (33.3-37.5°S;18.5-27°E) shelf region during austral summer, autumn, winter, and spring.
description: Daily-averaged NCEP-DOE Reanalysis 2 wind vectors were used to compute daily values of cumulative Ekman Transport (m3 s-1) per 100m of coastline (Lamont et al. 2018. JMS 188: 3-16). Monthly values were then computed by summing the daily values per month. Seasonal means were computed by averaging data over a three-month period for each season, defined as austral summer (December, January, February), autumn (March, April, May), winter (June, July, August), and spring (September, October, November). This data has been processed and published as Lamont et al. (2019) JGR Oceans, 124, 1170-1195 (https://doi.org/10.1029/2018JC014334) - please see this paper for a more detailed methodology.
DOI: 10.17617/3.oix8rz
title: Data repository for "Neural circuit mechanisms underlying context-specific halting in Drosophila"

description: "Neural circuit mechanisms underlying context-specific halting in Drosophila" by Neha Sapkal, Nino Mancini, Divya Sthanu Kumar, Nico Spiller, Kazuma Murakami, Gianna Vitelli, Benjamin Bargeron, Kate Maier, Katharina Eichler, Gregory S.X.E. Jefferis, Philip K. Shiu, Gabriella R. Sterne and Salil S. Bidaye.
DOI: 10.15493/dea.mims.10000014
title: Southern Benguela shelf total cumulative upwelling index, 1997 to 2018

description: Southern Benguela shelf total cumulative upwelling index, 1997 to 2018
description: Seasonal mean total cumulative upwelling in the Southern Benguela (29-34.3°S;12-18.5°E) shelf region during austral summer, autumn, winter, and spring.
description: Daily-averaged NCEP-DOE Reanalysis 2 wind vectors were used to compute daily values of cumulative Ekman Transport (m3 s-1) per 100m of coastline (Lamont et al. 2018. JMS 188: 3-16). Monthly values were then computed by summing the daily values per month. Seasonal means were computed by averaging data over a three-month period for each season, defined as austral summer (December, January, February), autumn (March, April, May), winter (June, July, August), and spring (September, October, November). This data has been processed and published as Lamont et al. (2019) JGR Oceans, 124, 1170-1195 (https://doi.org/10.1029/2018JC014334) - please see this paper for a more detailed methodology.
DOI: 10.17617/3.n7fnca
title: Virtual St. Paul’s Basilica 2.0

description: Preview of digital model of St. Paul’s basilica with interactive annotations.
DOI: 10.17617/3.yax5ou
title: Data for the article "Near-ultraviolet photon-counting dual-comb spectroscopy" by Bingxin Xu, Zaijun Chen, Theodor W. Hänsch and Nathalie Picqué

description: Data supporting the plots in the article "Near-ultraviolet photon-counting dual-comb spectroscopy" by Bingxin Xu, Zaijun Chen, Theodor W. Hänsch and Nathalie Picqué"
DOI: 10.17617/3.ioliel
title: Artistic and architectural transformations to the church of Santa Maria degli Innocenti over the centuries

description: Video describing the artistic and architectural transformations to the church of Santa Maria degli Innocenti that have taken place over the centuries.
DOI: 10.15468/dl.prdamf
title: Occurrence Download

description: A dataset containing 1658 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is The ground beetles (Coleoptera: Carabidae) of the Strandzha Mountain and adjacent coastal territories (Bulgaria and Turkey)"
 ]
}

 The dataset includes 1658 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021483-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17617/3.ol0fhh
title: Data and code for publication Visually-guided and context-dependent spatial navigation in the translucent fish Danionella cerebrum

description: Contains all data reported in the paper "Visually-guided and context-dependent spatial navigation in the translucent fish Danionella cerebrum" as well as all code for controlling behavioral experiments, data preprocessing, data analysis, and figure generation. Raw behavioral videos are not included in this dataset due to size limitations but can be made available upon request. Any additional information required to reanalyze the data reported in this paper will be made available from the lead contact upon request.
DOI: 10.17617/3.zcgfcc
title: Source data for "Dissecting the conformational stability of a glycan hairpin"

description: experimental; simulation/modelling
DOI: 10.21233/kkp7-wf04
title: Wheelock Lake diatom bottom sample dataset

description: Raw data for the Wheelock Lake diatom bottom sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.17617/3.zx0yae
title: Implantable nanophotonic neural probes for integrated patterned photostimulation and electrophysiology recording

description: This data repository includes the data and codes used for the analysis presented in the manuscript 'Implantable nanophotonic neural probes for integrated patterned photostimulation and electrophysiology recording'. Supplementary Video 1 is also included in this data repository,
DOI: 10.17617/3.t7xaxh
title: Fossil fuel-attributable air pollution deaths

description: OBJECTIVES
To estimate all-cause and cause-specific deaths attributable to fossil fuel-related air pollution and to assess potential health benefits from policies that replace fossil fuels with clean, renewable energy sources. 
METHODS
An updated atmospheric composition model, a newly developed relative risk model and recent satellite-based data were used to determine exposure to ambient air pollution, estimate all-cause and disease-specific mortality, and attribute them to emission categories.
DATA SOURCES
Data of the Global Burden of Disease 2019, NASA satellite-based fine particulate matter and population data, and atmospheric chemistry, aerosol and relative risk modelling for 2019.
description: EMAC (www.messy-interface.org), #65116d1f9
DOI: 10.25500/edata.bham.00001273
title: Transcriptions of selected Coptic manuscripts of the Pauline Epistles
DOI: 10.21233/ytwg-2q21
title: Oak Lake ostracode surface sample dataset

description: Raw data for the Oak Lake ostracode surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/dx9f-0m75
title: Gull South Lake pollen surface sample dataset

description: Raw data for the Gull South Lake pollen surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.21233/39mk-w894
title: Railway testate amoebae surface sample dataset

description: Raw data for the Railway testate amoebae surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.