cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.14767972
title: WoodChip-MC: Wood Chip Image Dataset for Moisture Content Prediction

description: The dataset WoodChip-MC consists of 1,600 RGB images of wood chips collected from two different sources. The dataset has images from 2 sources: each source has 10 moisture levels. One of the sources is subdivided into two batches. These images were acquired by an industrial camera (Hotpet 8MP USB Industrial Camera with Sony IMX179 Sensor) while keeping the wood chips in an aluminum container. The images were manually labeled through the oven-drying process. The wet wood chips were kept in an oven dryer (set at 105 ◦C) for 24 hours, and then moisture content was calculated from the weight difference. 

The dataset, at the time of publication, is the largest publicly available data for wood chip moisture content determination through computer vision. With the WoodChip-MC dataset, a performance benchmark of deep learning models has been developed for moisture content class prediction. Detailed model benchmarking and performance results are given in an accompanying journal paper: Rahman, A., Street, J., Wooten, J., Marufuzzaman, M., Gude, V. G., Buchanan, R., & Wang, H. (2025). MoistNet: Machine vision-based deep learning models for wood chip moisture content measurement. Expert Systems with Applications, 259, 125363. https://doi.org/10.1016/j.eswa.2024.125363

Other studies related to the dataset are as follows:



Rahman, A., Marufuzzaman, M., Street, J., Wooten, J., Gude, V. G., Buchanan, R., & Wang, H. (2024). A comprehensive review on wood chip moisture content assessment and prediction. Renewable and Sustainable Energy Reviews, 189, 113843. https://doi.org/10.1016/j.rser.2023.113843

Rahman, A., Marufuzzaman, M., Street, J. T., Wooten, J., Gude, V. G., & Wang, H. (2023). An Interpretable Deep Learning Model forWood Chip Moisture Content Prediction. In IISE Annual Conference. Proceedings (pp. 1-6). Institute of Industrial and Systems Engineers (IISE).

Rahman, A., Street, J., Wooten, J., Marufuzzaman, M., Wang, H., Gude, V.G., Buchanan, R., 2025. Interpretable wood chip moisture content prediction through texture analysis. Expert Systems with Applications , 126989. doi:https://doi.org/10.1016/j.eswa.2025.126989.


If you use the dataset, please cite the dataset or the journal article above. Thank you.

 

Funding Support: This work is supported by the Sustainable Bioeconomy through Biobased Products and Engineering for Agricultural Production and Processing programs, project award no. 2020-67019-30772 and 2022-67022-37861, from the U.S. Department of Agriculture’s National Institute of Food and Agriculture. Any opinions, findings, conclusions, or recommendations expressed in this publication are those of the author(s) and should not be construed to represent any official USDA or U.S. Government determination or policy.
DOI: 10.15468/dl.kukm5q
title: Occurrence Download

description: A dataset containing 324 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Dianthidium heterulkei H.F.Schwarz, 1940"
 ]
}

 The dataset includes 324 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006366-250227182430271/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.28543679
title: <b>Key Studies Investigating L1 in Endocrine-Related Cancers</b>

description: Context: Long Interspersed Nuclear Element-1 (L1) retrotransposons, constituting 17% of the human genome, have emerged as key contributors to endocrine tumor biology. Deregulation of L1 in several cancers has been linked to tumor progression, genomic instability, and potential therapeutic vulnerabilities. Understanding the role of L1 in endocrine malignancies is crucial for improving diagnostic and therapeutic strategies.Evidence Acquisition: We conducted a systematic literature review of studies published through December 2024. Articles were screened based on L1 expression, methylation status, protein translation, and genomic integration events in endocrine-related cancers. Studies on L1-associated biomarker potential and therapeutic targeting were also evaluated.Evidence Synthesis: L1 expression and hypomethylation are consistently observed across multiple endocrine malignancies, with the highest prevalence in ovarian and prostate cancers. L1 deregulation contributes to tumorigenesis by promoting genomic instability and interacting with key oncogenic pathways, such as TP53. Emerging evidence highlights the potential of L1-based biomarkers, for early cancer detection and prognosis. Therapeutic interventions targeting L1 have demonstrated promising preclinical and early clinical trial results. Advanced bioinformatic tools have facilitated the identification of L1 insertions and expression profiles, enhancing our understanding of L1's impact on endocrine tumor biology.
DOI: 10.6084/m9.figshare.28543679.v1
title: <b>Key Studies Investigating L1 in Endocrine-Related Cancers</b>

description: Context: Long Interspersed Nuclear Element-1 (L1) retrotransposons, constituting 17% of the human genome, have emerged as key contributors to endocrine tumor biology. Deregulation of L1 in several cancers has been linked to tumor progression, genomic instability, and potential therapeutic vulnerabilities. Understanding the role of L1 in endocrine malignancies is crucial for improving diagnostic and therapeutic strategies.Evidence Acquisition: We conducted a systematic literature review of studies published through December 2024. Articles were screened based on L1 expression, methylation status, protein translation, and genomic integration events in endocrine-related cancers. Studies on L1-associated biomarker potential and therapeutic targeting were also evaluated.Evidence Synthesis: L1 expression and hypomethylation are consistently observed across multiple endocrine malignancies, with the highest prevalence in ovarian and prostate cancers. L1 deregulation contributes to tumorigenesis by promoting genomic instability and interacting with key oncogenic pathways, such as TP53. Emerging evidence highlights the potential of L1-based biomarkers, for early cancer detection and prognosis. Therapeutic interventions targeting L1 have demonstrated promising preclinical and early clinical trial results. Advanced bioinformatic tools have facilitated the identification of L1 insertions and expression profiles, enhancing our understanding of L1's impact on endocrine tumor biology.
DOI: 10.15468/dl.tbcpgd
title: Occurrence Download

description: A dataset containing 4564 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Calliandra houstoniana (Mill.) Standl.)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1945"
 ]
}

 The dataset includes 4564 records from 127 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006368-250227182430271/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2vzkzb
title: Occurrence Download

description: A dataset containing 4090 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Agrilus planipennis Fairmaire, 1888"
 ]
}

 The dataset includes 4090 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006366-250227182400228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13023/2024.alum.100
title: Desserts, Custard, Gelatin Desserts, Pudding, Pie

description: Includes data on the aluminum content of desserts, custard, gelatin desserts, pudding, pie
DOI: 10.15468/dl.ubd34p
title: Occurrence Download

description: A dataset containing 1900 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Italy",
 "OccurrenceStatus is Present",
 "TaxonKey is Canis lupus Linnaeus, 1758"
 ]
}

 The dataset includes 1900 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006369-250227182430271/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u2ngpc
title: Occurrence Download

description: A dataset containing 17886 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Arion subfuscus (Draparnaud, 1805)"
 ]
}

 The dataset includes 17886 records from 250 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006370-250227182430271/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60656/613afda9745e41a3
title: Custom collection of Doppler lidar, and Doppler lidar wind data from Chilbolton between 1 Jan and 31 Dec 2020
DOI: 10.26275/l1gx-jv5c
title: Spatially tracked single-neuron transcriptomics of a male porcine right atrial ganglionic plexus (RAGP)

description: Spatially Tracked Single Neuron Anatomical and Molecular Profiling of the Pig Right Atrial Ganglionic Plexus
description: Single neurons and regional neuronal samples were collected from a male porcine RAGP through laser capture microdissection with preserved spatial tracking.
DOI: 10.15468/dl.5z35ax
title: Occurrence Download

description: A dataset containing 38929 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Misgurnus anguillicaudatus (Cantor, 1842)"
 ]
}

 The dataset includes 38929 records from 160 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003879-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/snhjxh5gt6.1
title: Supplementary data for: Extending the utility of the Tl isotope paleoredox proxy to carbonates

description: Supplementary data for: Extending the utility of the Tl isotope paleoredox proxy to carbonates
DOI: 10.5281/zenodo.14876710
title: Combined antibiogram dataset from NCBI, ENA, and BV-BRC

description: This dataset collects antibiograms found in NCBI, ENA and BV-BRC. Each row corresponds to an antibiotic susceptibility test (AST) for a given sample against a specific antibiotic. The dataset is a table with 13 columns:



biosample. A unique identifier for the sample from the NCBI BioSample database.

species. The species the sample belongs to, and, in some cases, with subspecies information.

antibiotic. The name of the antibiotic against which the sample is tested.

phenotype. The interpreted phenotype from the AST standard used during testing.

measurement_sign. If given, corresponds to the sign of the raw result from the AST. Its interpretation depends on the typing method.

measurement_value. If given, corresponds to the value of the raw result from the AST. Its interpretation depends on the typing method.

measurement_units. If given, corresponds to the units of the raw result from the AST.

typing_method. Name of the technique used for AST.

typing_platform. Name of the platform used for AST.

standard. Testing standard used for the interpretation of the phenotype.

genomes. Space-separated list of genome identifiers from the NCBI Genome database.

reads. Space-separated list of read run identifiers from the NCBI SRA database.

read_type. Space-separated list with the same length as the reads column, storing the type of read of each corresponding read run.
DOI: 10.5281/zenodo.14920422
title: Combined antibiogram dataset from NCBI, ENA, and BV-BRC

description: This dataset collects antibiograms found in NCBI, ENA and BV-BRC. Each row corresponds to an antibiotic susceptibility test (AST) for a given sample against a specific antibiotic. The dataset is a table with 13 columns:



biosample. A unique identifier for the sample from the NCBI BioSample database.

species. The species the sample belongs to, and, in some cases, with subspecies information.

antibiotic. The name of the antibiotic against which the sample is tested.

phenotype. The interpreted phenotype from the AST standard used during testing.

measurement_sign. If given, corresponds to the sign of the raw result from the AST. Its interpretation depends on the typing method.

measurement_value. If given, corresponds to the value of the raw result from the AST. Its interpretation depends on the typing method.

measurement_units. If given, corresponds to the units of the raw result from the AST.

typing_method. Name of the technique used for AST.

typing_platform. Name of the platform used for AST.

standard. Testing standard used for the interpretation of the phenotype.

genomes. Space-separated list of genome identifiers from the NCBI Genome database.

reads. Space-separated list of read run identifiers from the NCBI SRA database.

read_type. Space-separated list with the same length as the reads column, storing the type of read of each corresponding read run.
DOI: 10.5281/zenodo.14920612
title: Combined antibiogram dataset from NCBI, ENA, BV-BRC, and more

description: The antibiograms.tsv.zip dataset collects antibiograms found in NCBI, ENA and BV-BRC. Each row corresponds to an antibiotic susceptibility test (AST) for a given sample against a specific antibiotic. The dataset is a table with 13 columns:



biosample. A unique identifier for the sample from the NCBI BioSample database.

species. The species the sample belongs to, and, in some cases, with subspecies information.

antibiotic. The name of the antibiotic against which the sample is tested.

phenotype. The interpreted phenotype from the AST standard used during testing.

measurement_sign. If given, corresponds to the sign of the raw result from the AST. Its interpretation depends on the typing method.

measurement_value. If given, corresponds to the value of the raw result from the AST. Its interpretation depends on the typing method.

measurement_units. If given, corresponds to the units of the raw result from the AST.

typing_method. Name of the technique used for AST.

typing_platform. Name of the platform used for AST.

standard. Testing standard used for the interpretation of the phenotype.

genomes. Space-separated list of genome identifiers from the NCBI Genome database.

reads. Space-separated list of read run identifiers from the NCBI SRA database.

read_type. Space-separated list with the same length as the reads column, storing the type of read of each corresponding read run.


The gn-genomes.zip file contains some extra genomes with associated AST metadata found in metadata.xlsx file within it.
DOI: 10.26275/qgja-q7zd
title: Quantified morphology of the human vagus nerve with anti-claudin-1

description: Quantified vagus nerve morphology across species
description: Immunohistochemistry micrographs of human vagus nerves labeled with anti-claudin-1. Binary traces from segmentation to quantify effective nerve diameter, effective fascicle diameter, number of fascicles, and perineurium thickness.
DOI: 10.5281/zenodo.14912364
title: Annotated datasets for cell segmentation from the RNA2seg study

description: Annotations from the RNA2seg study

# Annotation

This folder contains the manual annotation along the corresponding staining and RNA positionof the different datasets used in the RNA2seg paper.the bounds.json indicate the coordiante of the crop in the original dataset.

the shape folders contain the annotation in a "geopandas shape" format to be integrated in a spataildata. Each segmentation shape can be load with :

```    import geopandas as gpd    gdf = gpd.read_file(path2save_shape_organ / "shape.shp")```

All datasets staining images and transcripts come from https://vizgen.com/data-release-program/ (MERSCOPE FFPE Human Immuno-Oncology Data Release) except the mouse ileum dataset that come from :Petukhov, V., Xu, R.J., Soldatov, R.A. et al.Cell segmentation in imaging-based spatial transcriptomics.Nat Biotechnol 40, 345–354 (2022). https://doi.org/10.1038/s41587-021-01044-w

contact : alice.blondel@minesparis.psl.eu, thomas.defard@minesparis.psl.eu

 

RNA2seg Code : https://github.com/fish-quant/rna2seg
DOI: 10.15468/dl.7ruaba
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Botanical Collections of the Åbo Akademi (TUR-A)",
 "Country is Croatia"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003857-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14920623
title: Core-Shell Hydrogel System to Protect the Enzyme Activity of Phytase from Environmental Stress
DOI: 10.5281/zenodo.14920624
title: Core-Shell Hydrogel System to Protect the Enzyme Activity of Phytase from Environmental Stress
DOI: 10.15468/dl.bxyp7g
title: Occurrence Download

description: A dataset listing the 48862 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Japan",
 "TaxonKey is Arthropoda"
 ]
}

 The dataset's 48862 records were derived from 1051 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003878-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j2p3g4
title: Occurrence Download

description: A dataset containing 9033 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Panthera onca (Linnaeus, 1758)"
 ]
}

 The dataset includes 9033 records from 284 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003880-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6073/pasta/e9c81aada8a849590bc7d619489f4b7c
title: Microbial Sampling from Shark River Slough and Taylor Slough, Everglades National Park, South Florida, USA (FCE LTER), January 2001 - ongoing

description: We collected monthly observations of water microbial characteristics from each of the FCE LTER sites beginning in February 2001. Bacteria counts using DAPI epifluorescence, heterotrophic bacteria production with tritiated Thymidine uptake, and algal energetics and chl a using the PAM fluorometer were determined from each of the water samples. Bacteria counts in Shark River Slough in the freshwater end of the transect revealed highest bacteria numbers upon marsh rewetting after the dry down. The highest overall count of bacteria was found at the most freshwater point adjacent to the perimeter of the water conservation area but only in March of 2001. Peak numbers of bacteria in the saline end of Shark River transect occurred in December and July. There is some evidence that these higher bacteria numbers in the SR transect are associated with higher salinities. Highest bacteria counts along the Taylor slough transect were observed at the mouth of the Taylor River with peak counts in the wet season in October. Bacteria densities also increased from the eastern to western end of the transect in Florida Bay. Heterotrophic bacterial production did not relate closely bacteria numbers and exhibited highest numbers in the dry season. There was no discernible relationship between salinity and bacteria production as seen in bacteria numbers. Monthly observations using PAM fluorometry revealed that brown algae was the greatest contribution to the algal chal a pool and this relationship was consistent across all FCE LTER sites. Converse to the pattern of bacteria abundance along the Shark River transect, there was evidence that algal biomass decreases from freshwater to estuary. In the Shark River, algal energetics increased from marsh to estuary as well as in the panhandle region of the Taylor River transect. From these observations we conclude the behavior of the microbial loop and interactions generated between functional guilds is highly variable along individual transects and between the Shark River and Taylor River transect. Wet dry season dynamics partially explain temporal variability in microbial dynamics along the individual transects yet responses were unique for each section of the transect as freshwater versus estuarine versus Bay. Relationships between salinity and microbial parameters in this case, were not easily discerned but were more consistent within the two river transects than between river transects. As of 2020-06-05, PAM is no longer considered accurate and pigment data are no longer reported.
DOI: 10.15468/dl.q6grav
title: Occurrence Download

description: A dataset containing 3051 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is one of (VU, EN, CR)",
 "OccurrenceStatus is Present",
 "TaxonKey is Panthera pardus (Linnaeus, 1758)"
 ]
}

 The dataset includes 3051 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003881-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/10844949
title: Michigan Consumer Surveys Microdata 1978-2025
DOI: 10.6084/m9.figshare.27299922
title: <b>Assessment of the virulence and biocontrol potential of entomopathogenic nematodes against soil-dwelling stages of the small hive beetle</b>

description: We conducted comprehensive laboratory experiments to evaluate the biocontrol potential of 32 Australian strains of five EPN species (<i>Heterorhabditis bacteriophora</i>, <i>H. indica</i>, <i>H. zealandica</i>, <i>Steinernema carpocapsae</i> and <i>S. feltiae</i>) against SHB. In a glasshouse experiment, the efficacy of nine EPN strains were tested in soil mesocosms that simulated field conditions.
DOI: 10.15468/dl.gvtd84
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((30.07371 -23.86169,30.16951 -23.86169,30.24929 -23.86169,30.24929 -23.69389,30.07371 -23.69389,30.07371 -23.86169))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is NE",
 "OccurrenceStatus is Present",
 "TaxonKey is Lantana camara L.",
 "Year 1980-2025"
 ]
}

 The dataset includes 20 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003882-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dy8u4b
title: Occurrence Download

description: A dataset containing 1126595 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "TaxonKey is Strix varia Barton, 1799"
 ]
}

 The dataset includes 1126595 records from 128 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003877-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.btiznn
title: Occurrence Download

description: A dataset containing 1864 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Year 1990-2005",
 "Geometry POLYGON((27.79816 -25.86417,27.44659 -26.62291,28.61664 -26.60326,28.74298 -25.85922,27.79816 -25.86417))",
 "TaxonKey is Bostrychia hagedash (Latham, 1790)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1864 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019959-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.