cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.8021891
title: 3D reconstructions of semi-transparent submerged objects: Nanomia, Cystisoma, and validation object

description: These data were used to support the conclusions published in the article titled, "New method for rapid 3D reconstruction of semi-transparent underwater animals and structures", accepted for publication in Integrative Organismal Biology on May 9th, 2023. It focuses on three physical objects, two of which were live animals, collected under permit in the Monterey Bay NAtional MArine Sanctuary: A siphonophore of the species <em>Nanomia bijuga</em> An amphipod of the family <em>Cystisoma</em> A thin-walled plastic cylinder, for validation purposes. For each of these objects, we provide the original .cine file, as recorded by the Phantom 640S highspeed camera, and the derived high-quality .mov video file. We exported video frames as image stacks, included as ZIP files in this repository. We chose to either extract the red or green channel, or a balanced luminance value of each frame. Background subtraction was performed in some cases, by applying a minimum filter or median filter with a certain Z (time axis) extent, and subtracting this from the original frames. Furthermore, additional smoothing was performed in some cases as indicated by the filenames, in the form of a median filter with an X-by-Y-by-Z extent. 3D Slicer software was used for segmentation, and bundled .mrb files are included, which have been tested with 3D Slicer version 5.0.3. Derived .STL or .PLY model files are included as well.
DOI: 10.5281/zenodo.8021890
title: 3D reconstructions of semi-transparent submerged objects: Nanomia, Cystisoma, and validation object

description: These data were used to support the conclusions published in the article titled, "New method for rapid 3D reconstruction of semi-transparent underwater animals and structures", accepted for publication in Integrative Organismal Biology on May 9th, 2023. It focuses on three physical objects, two of which were live animals, collected under permit in the Monterey Bay NAtional MArine Sanctuary: A siphonophore of the species <em>Nanomia bijuga</em> An amphipod of the family <em>Cystisoma</em> A thin-walled plastic cylinder, for validation purposes. For each of these objects, we provide the original .cine file, as recorded by the Phantom 640S highspeed camera, and the derived high-quality .mov video file. We exported video frames as image stacks, included as ZIP files in this repository. We chose to either extract the red or green channel, or a balanced luminance value of each frame. Background subtraction was performed in some cases, by applying a minimum filter or median filter with a certain Z (time axis) extent, and subtracting this from the original frames. Furthermore, additional smoothing was performed in some cases as indicated by the filenames, in the form of a median filter with an X-by-Y-by-Z extent. 3D Slicer software was used for segmentation, and bundled .mrb files are included, which have been tested with 3D Slicer version 5.0.3. Derived .STL or .PLY model files are included as well.
DOI: 10.5281/zenodo.8022490
title: PYFOREST-ML-Predictions

description: Results data from the Master's Capstone project PYFOREST. Predictions of deforestation under different policy scenarios are provided. See attached metadata for additional information, or refer to the GitHub project repository. <br>
DOI: 10.5281/zenodo.8022489
title: PYFOREST-ML-Predictions

description: Results data from the Master's Capstone project PYFOREST. Predictions of deforestation under different policy scenarios are provided. See attached metadata for additional information, or refer to the GitHub project repository. <br>
DOI: 10.34740/kaggle/dsv/5890132
title: Elon Musk Tweets
DOI: 10.5281/zenodo.8022512
title: PYFOREST-Land-Use-Assessment-Statstics

description: Results data from the Master's Capstone project PYFOREST. Forest cover and deforestation statistical analysis by political boundary data sets are provided. See attached metadata for additional information, or refer to the GitHub project repository.
DOI: 10.5281/zenodo.8022511
title: PYFOREST-Land-Use-Assessment-Statstics

description: Results data from the Master's Capstone project PYFOREST. Forest cover and deforestation statistical analysis by political boundary data sets are provided. See attached metadata for additional information, or refer to the GitHub project repository.
DOI: 10.6084/m9.figshare.22637806.v1
title: Distinct neural mechanisms construct classical versus extraclassical inhibitory surrounds in an inhibitory nucleus in the midbrain attention network

description: This zipped file contains source data (excel files) for each of the main figures in the manuscript.
DOI: 10.6084/m9.figshare.22637806
title: Distinct neural mechanisms construct classical versus extraclassical inhibitory surrounds in an inhibitory nucleus in the midbrain attention network

description: This zipped file contains source data (excel files) for each of the main figures in the manuscript.
DOI: 10.6084/m9.figshare.22800236.v1
title: Operator growth from global out-of-time-order correlators

description: Each spreadsheet in data_source.xlsx contains source data for figures in the main text and supplemental information of the companion publication.
DOI: 10.6084/m9.figshare.22800236
title: Operator growth from global out-of-time-order correlators

description: Each spreadsheet in data_source.xlsx contains source data for figures in the main text and supplemental information of the companion publication.
DOI: 10.6084/m9.figshare.22707463.v1
title: Inflationary theory of branching morphogenesis in the mouse salivary gland

description: Raw data for endbud proliferation and segmentations of all ductal trees used in the study.
DOI: 10.6084/m9.figshare.22707463
title: Inflationary theory of branching morphogenesis in the mouse salivary gland

description: Raw data for endbud proliferation and segmentations of all ductal trees used in the study.
DOI: 10.6084/m9.figshare.22573771.v1
title: Site-specific fabrication of a melanin-like pigment through spatially confined progressive assembly on an initiator-loaded template

description: All data needed to support the conclusions in the paper
DOI: 10.6084/m9.figshare.22573771
title: Site-specific fabrication of a melanin-like pigment through spatially confined progressive assembly on an initiator-loaded template

description: All data needed to support the conclusions in the paper
DOI: 10.6084/m9.figshare.22731011.v1
title: Asymptomatic immunodeficiency-associated vaccine-derived poliovirus (iVDPV) infections in two UK children

description: The dataset contains underlying source data for the above publication, including clinical data (immunoglobulin levels and poliovirus shedding), molecular clock analysis of poliovirus acquisition and assessment of neurovirulence in transgenic mice.
DOI: 10.6084/m9.figshare.22731011
title: Asymptomatic immunodeficiency-associated vaccine-derived poliovirus (iVDPV) infections in two UK children

description: The dataset contains underlying source data for the above publication, including clinical data (immunoglobulin levels and poliovirus shedding), molecular clock analysis of poliovirus acquisition and assessment of neurovirulence in transgenic mice.
DOI: 10.6084/m9.figshare.22722886
title: In-Situ Spectroscopic Probe of the Intrinsic Structure Feature of Single-Atom Center in Electrochemical CO/CO2 Reduction to Methanol

description: Single-Co-Atom catalysts for Electrochemical CO/CO2 Reduction to Methanol
DOI: 10.5519/qd.fkrsij4t
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (7291 records)
DOI: 10.5519/qd.gtz70p4n
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (8945 records)
DOI: 10.6084/m9.figshare.20453679
title: A Review of Determinants and Impacts for Spatio-Temporal Urban Growth in 100 Indian Class-I Cities

description: ....
DOI: 10.6084/m9.figshare.20453679.v3
title: A Review of Determinants and Impacts for Spatio-Temporal Urban Growth in 100 Indian Class-I Cities

description: ....
DOI: 10.6084/m9.figshare.20453679.v2
title: A Review of Determinants and Impacts for Spatio-Temporal Urban Growth in 100 Indian Class-I Cities

description: Supporting document for paper titled 'A Review of Determinants and Impacts for Spatio-Temporal Urban Growth in 100 Indian Class-I Cities'. <br> The document consists of two annexures: Annexure 1: Determinants and Impacts for Spatio-temporal urban growth in 100 Indian Class-I Cities. Annexure 2: References (Web links) of the Determinants and Impacts for Spatio-temporal urban growth in 100 Indian Class-I Cities. <br>
DOI: 10.5519/qd.067zjnos
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (666 records)
DOI: 10.6084/m9.figshare.20452128
title: A Review of Determinants and Impacts for Spatio-Temporal Urban Growth in 100 Indian Class-I Cities

description: ....
DOI: 10.6084/m9.figshare.20452128.v1
title: A Review of Determinants and Impacts for Spatio-Temporal Urban Growth in 100 Indian Class-I Cities

description: The supporting resource for paper titled ' A Review of Determinants and Impacts for Spatio-Temporal Urban Growth in 100 Indian Class-I Cities'
DOI: 10.6084/m9.figshare.20452128.v2
title: A Review of Determinants and Impacts for Spatio-Temporal Urban Growth in 100 Indian Class-I Cities

description: ....
DOI: 10.6067/xcv8kd20gd
title: 2014 Southeastern Archaeology Publication Survey Data

description: These data are the results of a survey disseminated to the Southeastern Archaeology (SEAC) membership in March 2014. The survey was designed to to better understand authorial behavior (i.e., what factors contribute to decisions about manuscript submission and publication rates among southeastern archaeologists). Our goal was to solicit feedback from SEAC members in all job settings (students, academics, CRM, government, museum, etc.), including those who have never published research or do not publish regularly. We designed a survey with 24 questions (some of which had subsidiary questions), which covered demographic information, conference presentation rates, journal submission and publication rates, resubmission patterns, hypothetical publication strategies, and limiting factors on writing/producing manuscripts. A results of the survey are published in Bardolph and VanDerwarker (2016) and are available here.
DOI: 10.6084/m9.figshare.19609350
title: Source Data for "Cubic singularities in binary linear electromechanical oscillators"

description: This is a source data fileset for a work titled "Cubic singularities in binary linear electromechanical oscillators".
DOI: 10.6084/m9.figshare.19609350.v2
title: Source Data for "Singularity arc in phase-locked Coriolis coupling"

description: This is a source data fileset for a work titled "Singularity arc in phase-locked Coriolis coupling".
DOI: 10.6084/m9.figshare.21971231
title: data.csv

description: Litter and herbivore grazing
DOI: 10.6084/m9.figshare.21971231.v2
title: data.csv

description: Litter and herbivore grazing
DOI: 10.6084/m9.figshare.21971231.v3
title: data.csv

description: Litter and herbivore grazing
DOI: 10.5281/zenodo.8010463
title: Dataset on simulations of Kinetic of Fe(II) oxidation

description: This upload contains simulation and fitting data matching figures in the publication "Kinetic constraints for the formation of microniches for microaerophilic Fe(II) oxidation”, Peiffer et al, submitted to GCA. It further contains the matlab code used for the simulations (micro_n_iteration_v1.m) <br>
DOI: 10.5281/zenodo.8010462
title: Dataset on simulations of Kinetic of Fe(II) oxidation

description: This upload contains simulation and fitting data matching figures in the publication "Kinetic constraints for the formation of microniches for microaerophilic Fe(II) oxidation”, Peiffer et al, submitted to GCA. It further contains the matlab code used for the simulations (micro_n_iteration_v1.m) <br>
DOI: 10.6084/m9.figshare.16587311.v24
title: AREAdata updating output files

description: AREAdata output files for automatically updating climate averages. These are daily climate estimates based on the CDS ERA-5 reanalysis, see pearselab.github.io/areadata/.<br>File names begin with the climate variable given:temp = Temperaturespechumid = Specific Humidityrelhumid = Relative Humidityprecip = Precipiationuv = Ultraviolet<br>File names contain the administrative division level:<br>countries - highest administrative division<br>GID1 - lower administrative division, equivalent to states<br>GID2 - lower administrative division, equivalent to counties<br>Files downloadable as RDS files for direct use in the R statistical programming environment (appended .RDS), or as zip-compressed tab delimited files for other applications (appended .zip).<br>
DOI: 10.6084/m9.figshare.23496800
title: Source code

description: code
DOI: 10.6084/m9.figshare.23496806
title: Distribution points of the host plants of Cicadella viridis

description: Distribution points of the host plants of Cicadella viridis.
DOI: 10.6084/m9.figshare.23496806.v1
title: Distribution points of the host plants of Cicadella viridis

description: Distribution points of the host plants of Cicadella viridis.
DOI: 10.5281/zenodo.6143561
title: Spatio-temporal, optogenetic control of gene expression in organoids

description: Organoids derived from stem cells become increasingly important to study human development and to model disease. However, methods are needed to control and study spatio-temporal patterns of gene expression in organoids. To this aim, we combined optogenetics and gene perturbation technologies to activate or knock-down RNA of target genes, at single-cell resolution and in programmable spatio-temporal patterns. To illustrate the usefulness of our approach, we locally activated Sonic Hedgehog (<em>SHH</em>) signaling in an organoid model for human neurodevelopment. High-resolution spatial transcriptomic and single-cell analyses showed that this local induction was sufficient to generate stereotypically patterned organoids in three dimensions and revealed new insights into <em>SHH</em>’s contribution to gene regulation in neurodevelopment. With this study, we propose optogenetic perturbations in combination with spatial transcriptomics as a powerful technology to reprogram and study cell fates and tissue patterning in organoids.
description: This dataset contains raw images and detected transcripts data from the Molecular Cartography assay described in the associated publication.
DOI: 10.5281/zenodo.8022726
title: Spatio-temporal, optogenetic control of gene expression in organoids

description: Organoids derived from stem cells become increasingly important to study human development and to model disease. However, methods are needed to control and study spatio-temporal patterns of gene expression in organoids. To this aim, we combined optogenetics and gene perturbation technologies to activate or knock-down RNA of target genes, at single-cell resolution and in programmable spatio-temporal patterns. To illustrate the usefulness of our approach, we locally activated Sonic Hedgehog (<em>SHH</em>) signaling in an organoid model for human neurodevelopment. High-resolution spatial transcriptomic and single-cell analyses showed that this local induction was sufficient to generate stereotypically patterned organoids in three dimensions and revealed new insights into <em>SHH</em>’s contribution to gene regulation in neurodevelopment. With this study, we propose optogenetic perturbations in combination with spatial transcriptomics as a powerful technology to reprogram and study cell fates and tissue patterning in organoids.
description: This dataset contains raw images and detected transcripts data from the Molecular Cartography assay described in the associated publication. Version 2 contains additional data and notebooks describing the data analysis in the associated manuscript.
DOI: 10.5281/zenodo.6143560
title: Spatio-temporal, optogenetic control of gene expression in organoids

description: Organoids derived from stem cells become increasingly important to study human development and to model disease. However, methods are needed to control and study spatio-temporal patterns of gene expression in organoids. To this aim, we combined optogenetics and gene perturbation technologies to activate or knock-down RNA of target genes, at single-cell resolution and in programmable spatio-temporal patterns. To illustrate the usefulness of our approach, we locally activated Sonic Hedgehog (<em>SHH</em>) signaling in an organoid model for human neurodevelopment. High-resolution spatial transcriptomic and single-cell analyses showed that this local induction was sufficient to generate stereotypically patterned organoids in three dimensions and revealed new insights into <em>SHH</em>’s contribution to gene regulation in neurodevelopment. With this study, we propose optogenetic perturbations in combination with spatial transcriptomics as a powerful technology to reprogram and study cell fates and tissue patterning in organoids.
description: This dataset contains raw images and detected transcripts data from the Molecular Cartography assay described in the associated publication. Version 2 contains additional data and notebooks describing the data analysis in the associated manuscript.
DOI: 10.5281/zenodo.7664527
title: Data for "Measurement report: A one-year study to estimate maritime contributions to PM10 in a coastal area in Northern France."

description: The characterization and the source apportionment of PM10 data have been used for the article "<strong>Measurement report: A one-year study to estimate maritime contributions to PM<sub>10</sub> in a coastal area in Northern France</strong>," which is under revision in the journal <em>Atmospheric Chemistry and Physic</em><em>s. </em>
description: This project corresponds to a scientific contribution included in the Atmosphere Protection Plan funded by the Environment, Planning and Housing Regional Agency (Hauts-de-France) as well as by the French ministry of environment. The "Unité de Chimie Environnementale et Interactions sur le Vivant", UCEIV UR4492, participates in the CLIMIBIO project, which is financially supported by the Hauts-de-France Region Council, the Ministry of Higher Education and Research, the European Regional Development Funds. Cloé Roche is grateful to the "Pôle Métropolitain Côte d'Opale" (PMCO) for the funding of her PhD.
DOI: 10.5281/zenodo.7664528
title: Data for "Measurement report: A one-year study to estimate maritime contributions to PM10 in a coastal area in Northern France."

description: The characterization and the source apportionment of PM10 data have been used for the article "<strong>Measurement report: A one-year study to estimate maritime contributions to PM<sub>10</sub> in a coastal area in Northern France</strong>," which is under revision in the journal <em>Atmospheric Chemistry and Physic</em><em>s. </em>
description: This project corresponds to a scientific contribution included in the Atmosphere Protection Plan funded by the Environment, Planning and Housing Regional Agency (Hauts-de-France) as well as by the French ministry of environment. The "Unité de Chimie Environnementale et Interactions sur le Vivant", UCEIV UR4492, participates in the CLIMIBIO project, which is financially supported by the Hauts-de-France Region Council, the Ministry of Higher Education and Research, the European Regional Development Funds. Cloé Roche is grateful to the "Pôle Métropolitain Côte d'Opale" (PMCO) for the funding of her PhD.
DOI: 10.5281/zenodo.8020388
title: Data for "Measurement report: A one-year study to estimate maritime contributions to PM10 in a coastal area in Northern France."

description: The characterization and the source apportionment of PM10 data have been used for the article "<strong>Measurement report: A one-year study to estimate maritime contributions to PM<sub>10</sub> in a coastal area in Northern France</strong>," which is under revision in the journal <em>Atmospheric Chemistry and Physic</em><em>s. </em>
description: This project corresponds to a scientific contribution included in the Atmosphere Protection Plan funded by the Environment, Planning and Housing Regional Agency (Hauts-de-France) as well as by the French ministry of environment. The "Unité de Chimie Environnementale et Interactions sur le Vivant", UCEIV UR4492, participates in the CLIMIBIO project, which is financially supported by the Hauts-de-France Region Council, the Ministry of Higher Education and Research, the European Regional Development Funds. Cloé Roche is grateful to the "Pôle Métropolitain Côte d'Opale" (PMCO) for the funding of her PhD.
DOI: 10.5281/zenodo.8022729
title: Data for "Measurement report: A one-year study to estimate maritime contributions to PM10 in a coastal area in Northern France."

description: The characterization and the source apportionment of PM10 data have been used for the article "<strong>Measurement report: A one-year study to estimate maritime contributions to PM<sub>10</sub> in a coastal area in Northern France</strong>," which is under revision in the journal <em>Atmospheric Chemistry and Physic</em><em>s. </em>
description: This project corresponds to a scientific contribution included in the Atmosphere Protection Plan funded by the Environment, Planning and Housing Regional Agency (Hauts-de-France) as well as by the French ministry of environment. The "Unité de Chimie Environnementale et Interactions sur le Vivant", UCEIV UR4492, participates in the CLIMIBIO project, which is financially supported by the Hauts-de-France Region Council, the Ministry of Higher Education and Research, the European Regional Development Funds. Cloé Roche is grateful to the "Pôle Métropolitain Côte d'Opale" (PMCO) for the funding of her PhD.
DOI: 10.34740/kaggle/dsv/5890867
title: AutoXGB
DOI: 10.34740/kaggle/dsv/5890868
title: Health Workforce Shortage Areas
DOI: 10.5281/zenodo.8022654
title: Identification-of-interference-sources-dataset

description: This is the air traffic data near a certain airport in China, collected at four sampling points in different directions and at different distances.
DOI: 10.17632/k6jnkjbd8k.1
title: Centromere/kinetochore is assembled through CENP-C oligomerization. Hara et al

description: The kinetochore is an essential protein complex required for accurate chromosome segregation. The constitutive centromere-associated network (CCAN), a subcomplex of the kinetochore, associates with centromeric chromatin and provides a platform for the kinetochore assembly. The CCAN protein CENP-C is thought to be a central hub for the centromere/kinetochore organization. However, the role of CENP-C in CCAN assembly needs to be elucidated. Here, we demonstrate that both the CCAN-binding domain and the C-terminal region that includes the Cupin domain of CENP-C are necessary and sufficient for chicken CENP-C function. Structural and biochemical analyses reveal self-oligomerization of the Cupin domains of chicken and human CENP-C. We find that the CENP-C Cupin domain oligomerization is vital for CENP-C function, centromeric localization of CCAN, and centromeric chromatin organization. These results suggest that CENP-C facilitates the centromere/kinetochore assembly through its oligomerization.
DOI: 10.5281/zenodo.7476600
title: Code for manuscript "Accurate and efficient dynamic susceptibility contrast perfusion MRI analysis with physics-informed neural networks"

description: This is the processing code and in vivo statistics for the manuscript "Accurate and efficient dynamic susceptibility contrast perfusion MRI analysis with physics-informed neural networks".
DOI: 10.5281/zenodo.8022764
title: Code for manuscript "Analysis of dynamic susceptibility contrast perfusion MRI using physics-informed deep learning"

description: This is the processing code and in vivo statistics for the manuscript "Analysis of dynamic susceptibility contrast perfusion MRI using physics-informed deep learning".