cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.17127394
title: Siberian wildfire smoke observations from space-based multi-angle imaging: A multi-year regional analysis of smoke particle properties, their evolution, and comparisons with North American boreal fire plumes

description: The physical and chemical properties of biomass burning (BB) smoke particles vary with fuel type and burning conditions, greatly affecting their impact on climate and air quality. However, the factors affecting smoke particle properties are not well characterized on a global scale, and the factors controlling their evolution during transport are not well constrained. From observations of the Multi-Angle Imaging Spectrometer (MISR) instrument aboard NASA’s Terra satellite, smoke aerosol optical depth (AOD) can be retrieved, along with constraints on near-source plume vertical extent, smoke age, and particle size, shape, light-absorption, and absorption spectral dependence. Previous work demonstrated the robust, statistical characterization of BB particles across Canada and Alaska using MISR and other remote sensing data. Here we expand upon this work, studying over 3,600 wildfire plumes across Siberia. We leverage the MISR Research Aerosol (RA) algorithm to retrieve smoke particle properties and the MISR Interactive Explorer (MINX) tool to retrieve plume heights and the associated wind vectors. These results are compared statistically to available observations of fire radiative power (FRP), land cover characteristics, and meteorological information. Correlations appear between the retrieved smoke particle properties, smoke age, local ambient conditions, and fuel type, allowing us in many cases to infer the dominant aging mechanisms and the timescales over which they occur. Specifically, we find that plumes located in areas with higher peat content are subject to less oxidation and condensation/hydration compared to other plume types (e.g., forest and grassland), and are predominantly affected by dilution instead.

 

This dataset corresponds to the following publication:

Junghenn Noyes, K. T. and Kahn, R. A.: Siberian wildfire smoke observations from space-based multi-angle imaging: A multi-year regional analysis of smoke particle properties, their evolution, and comparisons with North American boreal fire plumes, EGUsphere [preprint], https://doi.org/10.5194/egusphere-2025-395, 2025.
DOI: 10.5281/zenodo.17127395
title: Siberian wildfire smoke observations from space-based multi-angle imaging: A multi-year regional analysis of smoke particle properties, their evolution, and comparisons with North American boreal fire plumes

description: The physical and chemical properties of biomass burning (BB) smoke particles vary with fuel type and burning conditions, greatly affecting their impact on climate and air quality. However, the factors affecting smoke particle properties are not well characterized on a global scale, and the factors controlling their evolution during transport are not well constrained. From observations of the Multi-Angle Imaging Spectrometer (MISR) instrument aboard NASA’s Terra satellite, smoke aerosol optical depth (AOD) can be retrieved, along with constraints on near-source plume vertical extent, smoke age, and particle size, shape, light-absorption, and absorption spectral dependence. Previous work demonstrated the robust, statistical characterization of BB particles across Canada and Alaska using MISR and other remote sensing data. Here we expand upon this work, studying over 3,600 wildfire plumes across Siberia. We leverage the MISR Research Aerosol (RA) algorithm to retrieve smoke particle properties and the MISR Interactive Explorer (MINX) tool to retrieve plume heights and the associated wind vectors. These results are compared statistically to available observations of fire radiative power (FRP), land cover characteristics, and meteorological information. Correlations appear between the retrieved smoke particle properties, smoke age, local ambient conditions, and fuel type, allowing us in many cases to infer the dominant aging mechanisms and the timescales over which they occur. Specifically, we find that plumes located in areas with higher peat content are subject to less oxidation and condensation/hydration compared to other plume types (e.g., forest and grassland), and are predominantly affected by dilution instead.

 

This dataset corresponds to the following publication:

Junghenn Noyes, K. T. and Kahn, R. A.: Siberian wildfire smoke observations from space-based multi-angle imaging: A multi-year regional analysis of smoke particle properties, their evolution, and comparisons with North American boreal fire plumes, EGUsphere [preprint], https://doi.org/10.5194/egusphere-2025-395, 2025.
DOI: 10.15468/dl.drj8j4
title: Occurrence Download

description: A dataset containing 1990 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Notropis boops)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 1990 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007916-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j3fy8a
title: Occurrence Download

description: A dataset containing 70 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "not" : {
 "DatasetKey" : [
 "is iNaturalist Research-grade Observations"
 ]
 }
 },
 "TaxonKey is Proceratophrys cristiceps"
 ]
}

 The dataset includes 70 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007918-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g36xwx
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Beckmannia syzigachne",
 "Country is Ukraine",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007917-250914085247600/datasets/export for details.
DOI: 10.15468/dl.vjerns
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Beckmannia syzigachne",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "HasCoordinate is true"
 ]
}

 The dataset includes 8 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007919-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5066/p9coo865
title: Two-way Travel Time (TWTT) In Snowpack, Derived from Software-defined Radar Data Collected by Small, Uncrewed Aircraft Systems (sUAS) in Colorado, 2022-25.

description: These datasets were collected by a ground penetrating radar unit installed on small Uncrewed Aircraft Systems (sUAS). Data include the two-way travel time (TWTT) for the ground surface (distance between the snow-ground interface and sUAS) and the calculated snow depth. The snow depth TWTT is defined as the time duration in nanoseconds that the electromagnetic wave takes to travel from the air-snow interface, reflect from the snow-ground surface, and then reach the air-snow interface again. The snow-ground and snow-air interfaces were identified by the magnitude of returns through a surface detection algorithm. The TWTT value provided in the dataset is a function of the snow depth and the radar wave velocity in the snow, which can be calculated from the snowpack density and the volumetric liquid water content in the snowpack. The sUAS based Software-defined Radar (SDRadar) data were collected during the snow-on-field campaigns in tandem with manual discrete snowpack measurements at Berthoud and Coal Bank Passes in Colorado, 2022-25. More information regarding the sUAS system used and data collection methods can be found in each metadata file Supplemental Information section for each data collection effort.
DOI: 10.6084/m9.figshare.30141574
title: raw dataset.zip

description: weevils dataset
DOI: 10.6084/m9.figshare.30141574.v1
title: raw dataset.zip

description: weevils dataset
DOI: 10.15468/dl.qpb2bz
title: Occurrence Download

description: A dataset containing 139 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Living Specimen, Specimen, Fossil, Material citation, Material sample, Machine Observation)"
 ]
 }
 },
 "TaxonKey is Chenopodium quinoa",
 "Year is greater than or equal to 1981",
 "Year is less than or equal to 2010"
 ]
}

 The dataset includes 139 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007920-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.btgs7n
title: Occurrence Download

description: A dataset containing 1430 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acanthocardia aculeata",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Occurrence evidence)",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is one of (Absent)"
 ]
 }
 }
 ]
}

 The dataset includes 1430 records from 64 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007921-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5ew7ss
title: Occurrence Download

description: A dataset containing 11933 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Bittium reticulatum"
 ]
}

 The dataset includes 11933 records from 211 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007923-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qu2kgg
title: Occurrence Download

description: A dataset containing 21524 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "Year is 1998",
 "DecimalLatitude is not null",
 "DecimalLongitude is not null"
 ]
}

 The dataset includes 21524 records from 152 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007924-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2nb0xy
title: CCDC 2452500: Experimental Crystal Structure Determination

description: Related Article: Huaqi Zhang, Yongbin Zou, Xue Hao, Ruijun Wang, Guoran Cao, Zhen Dong, Zhiwen Ye|2025|Cryst.Growth Des.|25|7300|doi:10.1021/acs.cgd.5c00961
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2nb0yz
title: CCDC 2452501: Experimental Crystal Structure Determination

description: Related Article: Huaqi Zhang, Yongbin Zou, Xue Hao, Ruijun Wang, Guoran Cao, Zhen Dong, Zhiwen Ye|2025|Cryst.Growth Des.|25|7300|doi:10.1021/acs.cgd.5c00961
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.15468/dl.p4au58
title: Occurrence Download

description: A dataset containing 2823 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is South America",
 "Country is Colombia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Oxypogon guerinii",
 "Year 2010-2025"
 ]
}

 The dataset includes 2823 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007925-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2nb0z0
title: CCDC 2452502: Experimental Crystal Structure Determination

description: Related Article: Huaqi Zhang, Yongbin Zou, Xue Hao, Ruijun Wang, Guoran Cao, Zhen Dong, Zhiwen Ye|2025|Cryst.Growth Des.|25|7300|doi:10.1021/acs.cgd.5c00961
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2nb113
title: CCDC 2452504: Experimental Crystal Structure Determination

description: Related Article: Huaqi Zhang, Yongbin Zou, Xue Hao, Ruijun Wang, Guoran Cao, Zhen Dong, Zhiwen Ye|2025|Cryst.Growth Des.|25|7300|doi:10.1021/acs.cgd.5c00961
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.15468/dl.u65rss
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Parosphromenus alfredi)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007926-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h7x2nu
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bromus briziformis",
 "Country is Belgium",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007928-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z33g82
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bromus briziformis",
 "Country is Austria",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007927-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16903614
title: original data

description: PurposeProvides supporting data for the study "Machine Learning and Experimental Validation Reveal Autophagy-Linked Biomarkers in Microvascular Injury after Cardiac Ischemia/Reperfusion", facilitating reproducibility of results.

Content Structure1. Bioinformatic Analysis

•Directory: /01_Bioinformatics_Analysis/

•Contents: This directory contains the complete results of the bioinformatic pipeline for identifying and validating autophagy-linked biomarkers. It includes:

    •Differential Expression Analysis: Results from identifying Differentially Expressed Genes (DEGs/).

    •Functional Enrichment: Results from Gene Ontology (GO/), KEGG pathway (KEGG/), and Gene Set Enrichment Analysis (GSEA/).

    •Machine Learning for Feature Selection: Code and results from multiple algorithms used to refine biomarker signatures, including Support Vector Machine (SVM-REF/), Random Forest (randomForest/), and LASSO regression (lasso/, lasso-venn/).

    •Diagnostic Model Building & Validation: Files related to constructing a clinical predictive model, including a Nomogram (nomogram diagram/) and Receiver Operating Characteristic curve analysis (ROC/).

    •Additional Analyses: Results from immune infiltration analysis (immune/), disease association (disease/), and clustering analysis (cluster/).

    •Validation Sets: Data and results from the test and validation cohorts (test validation/).

    •Various Intersection Analyses: Venn diagram results (venn/) comparing gene lists from different methods.

2. Experimental Validation

•Directory: /02_Experimental_Validation/

•Contents: Myocardial tissue section staining images (jpg/png), qPCR quantitative data (xlsx), Western blot raw images (TIFF), tunel (TIF), TEM (TIFF).

Methodology

Data Collection•Bioinformatic Data: RNA-seq data from mouse models sourced from the GEO database (GSE108940, GSE115568, GSE4105, GSE58486, GSE61592, GSE83472)

•Experimental Data: C57bl/6J I/R model, sampling time points: ischemia 45minutes and reperfusion 2h (n=4/group); Cardiac Microvascular Endothelial Cells (CMECs) H/R model, sampling time points: hypoxia induction 24h and reoxygenation 24h (n=3/group).

Software Requirements






Tool



Version



Purpose







R



v4.3.3



bioinformatic analysis





ImageJ



Fiji-2.3.0



Image analysis





GraphPad Prism

 8.0
 quantitative analysis




Abbreviations








Abbreviation



Full Term







I/R



Ischemia/Reperfusion





H/R



Hypoxia/reoxygenation





DEGs



Differentially Expressed Genes





TEM



Transmission Electron Microscopy (for autophagosome verification)





GSEA



Gene Set Enrichment Analysis





TTC



Evans blue and 2,3,5-triphenyltetrazolium chloride
DOI: 10.15468/dl.w5t39m
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bromus briziformis",
 "Country is Canada",
 "HasCoordinate is true"
 ]
}

 The dataset includes 15 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007929-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zdkerd
title: Occurrence Download

description: A dataset containing 519 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Plumbago pulchella"
 ]
}

 The dataset includes 519 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007931-250914085247600/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.28872536
title: Deschner D. and Hill J. E. 2025 Genomic Differentiation of <i>Mannheimia haemolytica</i> genotypes

description: Supplementary data for Deschner D. & Hill J.E. 2025 (Genomic Differentiation of <i>Mannheimia haemolytica</i> genotypes)<br>Pantools file consists of all output files from all analyses conducted utilizing PanTools (Jonkheer, E. M., van Workum, D. J. M., Sheikhizadeh Anari, S., Brankovics, B., de Haan, J. R., Berke, L., van der Lee, T. A. J., de Ridder, D., & Smit, S. (2022). PanTools v3: functional annotation, classification and phylogenomics. <i>Bioinformatics</i>, <i>38</i>(18), 4403–4405. https://doi.org/10.1093/BIOINFORMATICS/BTAC506)<br>CaZyme Analysis Files consist of all output files from dbCAN3 annotation (Zheng, J., Ge, Q., Yan, Y., Zhang, X., Huang, L., & Yin, Y. (2023). dbCAN3: automated carbohydrate-active enzyme and substrate annotation. <i>Nucleic Acids Research</i>, <i>51</i>(W1), W115–W121. https://doi.org/10.1093/NAR/GKAD328)<br>The run scripts consist of custom BASH scripts for executing the listed annotation software (interproscan, dbcan, and emapper) on a large number of files rather than individually
DOI: 10.6084/m9.figshare.28872536.v2
title: Deschner D. and Hill J. E. 2025 Genomic Differentiation of <i>Mannheimia haemolytica</i> genotypes

description: Supplementary data for Deschner D. & Hill J.E. 2025 (Genomic Differentiation of <i>Mannheimia haemolytica</i> genotypes)<br>Pantools file consists of all output files from all analyses conducted utilizing PanTools (Jonkheer, E. M., van Workum, D. J. M., Sheikhizadeh Anari, S., Brankovics, B., de Haan, J. R., Berke, L., van der Lee, T. A. J., de Ridder, D., & Smit, S. (2022). PanTools v3: functional annotation, classification and phylogenomics. <i>Bioinformatics</i>, <i>38</i>(18), 4403–4405. https://doi.org/10.1093/BIOINFORMATICS/BTAC506)<br>CaZyme Analysis Files consist of all output files from dbCAN3 annotation (Zheng, J., Ge, Q., Yan, Y., Zhang, X., Huang, L., & Yin, Y. (2023). dbCAN3: automated carbohydrate-active enzyme and substrate annotation. <i>Nucleic Acids Research</i>, <i>51</i>(W1), W115–W121. https://doi.org/10.1093/NAR/GKAD328)<br>The run scripts consist of custom BASH scripts for executing the listed annotation software (interproscan, dbcan, and emapper) on a large number of files rather than individually
DOI: 10.6084/m9.figshare.28872536.v1
title: Deschner D. and Hill J. E. 2025 Genomic Differentiation of <i>Mannheimia haemolytica</i> genotypes

description: Supplementary data for Deschner D. & Hill J.E. 2025 (Genomic Differentiation of <i>Mannheimia haemolytica</i> genotypes)<br>Pantools file consists of all output files from all analyses conducted utilizing PanTools (Jonkheer, E. M., van Workum, D. J. M., Sheikhizadeh Anari, S., Brankovics, B., de Haan, J. R., Berke, L., van der Lee, T. A. J., de Ridder, D., & Smit, S. (2022). PanTools v3: functional annotation, classification and phylogenomics. <i>Bioinformatics</i>, <i>38</i>(18), 4403–4405. https://doi.org/10.1093/BIOINFORMATICS/BTAC506)<br>CaZyme Analysis Files consist of all output files from dbCAN3 annotation (Zheng, J., Ge, Q., Yan, Y., Zhang, X., Huang, L., & Yin, Y. (2023). dbCAN3: automated carbohydrate-active enzyme and substrate annotation. <i>Nucleic Acids Research</i>, <i>51</i>(W1), W115–W121. https://doi.org/10.1093/NAR/GKAD328)<br>The run scripts consist of custom BASH scripts for executing the listed annotation software (interproscan, dbcan, and emapper) on a large number of files rather than individually
DOI: 10.15468/dl.g2bcwa
title: Occurrence Download

description: A dataset containing 10232 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "Year is 1999",
 "DecimalLatitude is not null",
 "DecimalLongitude is not null"
 ]
}

 The dataset includes 10232 records from 157 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007932-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.