cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.14262869
title: Simulation data for benchmarking de novo long read transcriptome assembly software

description: Method of simulation of differentially expressed biological replicates

We first obtained a subset of transcripts that are widely expressed in the GTEx v9 dataset (92 samples) using Gencode comprehensive annotation (v44). We kept transcripts with more than 5 reads in at least 15 samples after Salmon quantification (18145 genes, 40509 transcripts), and stored their mean count per million (CPM) values as the control group’s baseline expression. We then generated a perturbed set of CPM values where transcript expression was changed by: (1) randomly selecting 1000 genes and changing all transcripts belonging to that gene concordantly (500 genes 2 fold up and 500 genes 2 fold down), (2) selected another 1000 genes randomly, and then select 2 random transcripts from the gene and swap their expression, (3) selected another 1000 genes randomly, and then select 1 random transcript to change its expression (500 transcripts 2 fold up and 500 transcripts 2 fold down). The updated CPM were stored as the perturbed group baseline expression. We then generated a count matrix and CPM matrix for 3 control replicates and 3 perturbed replicates with gamma distribution, followed by a Poisson distribution (Baldoni et al., 2024). Both long-read and short-read FASTQ files were simulated using SQANTI-SIM with default settings and ONT R9.4 cDNA error profile (v 0.2.1) (Mestre-Tomás et al., 2023). The long read data contained 6 million reads in total, and an average read length of 1085 bp, and short read data was 100 bp paired-end. We then subsampled the short-read data to match the total number of base pairs in the long read data (6.5 billion bases). The simulated data was non-stranded, and contains 2000 DE genes, 2000 genes with DTU, 5927 transcripts with DTU and 6933 DE transcripts.

The scripts to generate the simulation data are available on GitHub.
DOI: 10.15468/dl.wxu2aa
title: Occurrence Download

description: A dataset containing 5537 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Jasione montana, Jasione montana, Jasione montana)",
 "Year is greater than or equal to 1900",
 "Geometry POLYGON ((8.643 46.99, 14.1 46.92, 14.43 50.75, 8.534 50.83, 8.643 46.99))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation, Material sample)"
 ]
}

 The dataset includes 5537 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015683-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ppumv2
title: Occurrence Download

description: A dataset containing 626 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.2_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Periparus venustulus",
 "Year is 2022"
 ]
}

 The dataset includes 626 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015684-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.upcd2g
title: Occurrence Download

description: A dataset containing 614387 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tracheophyta",
 "HasCoordinate is true",
 "Year is greater than or equal to 2010",
 "Year is less than or equal to 2014",
 "Geometry POLYGON((-25.0 34.0, 45.0 34.0, 45.0 39.0, -25.0 39.0, -25.0 34.0))"
 ]
}

 The dataset includes 614387 records from 180 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015652-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e6zqqa
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "PublishingOrg is 8483a1f0-1032-11db-ae00-b8a03c50a862",
 "TaxonKey is Aristelliger reyesi"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015685-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ja8bht
title: Occurrence Download

description: A dataset containing 567 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Jovibarba globifera, Sempervivum globiferum, Sempervivum globiferum, Sempervivum globiferum, Sempervivum globiferum, Sempervivum globiferum, Jovibarba sobolifera)",
 "Year is greater than or equal to 1900",
 "Geometry POLYGON ((8.643 46.99, 14.1 46.92, 14.43 50.75, 8.534 50.83, 8.643 46.99))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation, Material sample)"
 ]
}

 The dataset includes 567 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015686-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18501515
title: Kinbank: A global database of kinship terminology

description: The data repository for the Kinbank dataset
DOI: 10.5281/zenodo.18501517
title: Literature Data Table TMCF soils DEF v.2

description: Literature Data Table related to the manuscript titled "Soil fertility constrains the tropical montane cloud forests (TMCFs)"
DOI: 10.5281/zenodo.18501516
title: Literature Data Table TMCF soils DEF v.2

description: Literature Data Table related to the manuscript titled "Soil fertility constrains the tropical montane cloud forests (TMCFs)"
DOI: 10.15468/dl.t6gjat
title: Occurrence Download

description: A dataset containing 53 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mwasumbia alba",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 53 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015688-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15588829
title: Kraak Porcelain Decotative Pattern

description: The data for "Kraak Porcelain Decotative Pattern Restoration Using Generative AI: a Piolt Study", including original image data and labels.

There are 307 basic images and their corresponding text labels in the folder "克拉克瓷" of version 1.0.0.

The image-text pairs in the remaining folders are further classified and summarized according to the image features of the files in the folder "克拉克瓷".



There are 1530  images and their corresponding text labels in the file "Kraak main database" of version 1.1.0. The image-text pairs were divided into 12 categories based on their heritage origin, including:




A: Collection of City University of Macau;

B: Macao Museum;

C: The Palace Museum;

D: Shanghai Museum;

E: National Museum of the Netherlands;

F: Metropolitan Museum of Art, New York, USA;

G: Vietnam National Museum of History;

H: Zhangzhou Museum;

I: Cultural relics related to the Wanli shipwreck;

J: Some auction houses;

K: Other museums;

And some pictures of porcelain plates that didn't come from museums.
DOI: 10.5281/zenodo.15627587
title: Kraak Porcelain Decotative Pattern

description: The data for "Kraak Porcelain Decotative Pattern Restoration Using Generative AI: a Piolt Study", including original image data and labels.

There are 307 basic images and their corresponding text labels in the folder "克拉克瓷" of version 1.0.0.

The image-text pairs in the remaining folders are further classified and summarized according to the image features of the files in the folder "克拉克瓷".



There are 1530  images and their corresponding text labels in the file "Kraak main database" of version 1.1.0. The image-text pairs were divided into 12 categories based on their heritage origin, including:




A: Collection of City University of Macau;

B: Macao Museum;

C: The Palace Museum;

D: Shanghai Museum;

E: National Museum of the Netherlands;

F: Metropolitan Museum of Art, New York, USA;

G: Vietnam National Museum of History;

H: Zhangzhou Museum;

I: Cultural relics related to the Wanli shipwreck;

J: Some auction houses;

K: Other museums;

And some pictures of porcelain plates that didn't come from museums.
DOI: 10.15468/dl.j7e7br
title: Occurrence Download

description: A dataset containing 7115 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Juncus acutiflorus, Juncus acutiflorus, Juncus acutiflorus, Juncus acutiflorus, Juncus acutiflorus, Juncus acutiflorus, Juncus acutiflorus)",
 "Year is greater than or equal to 1900",
 "Geometry POLYGON ((8.643 46.99, 14.1 46.92, 14.43 50.75, 8.534 50.83, 8.643 46.99))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation, Material sample)"
 ]
}

 The dataset includes 7115 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015689-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18501518
title: Details information for healthy subjects
DOI: 10.5281/zenodo.18501519
title: Details information for healthy subjects
DOI: 10.15468/dl.3gmrzh
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.2_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Parus minor",
 "Year is 2022"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015692-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18501543
title: Kinbank: A global database of kinship terminology

description: The data repository for the Kinbank dataset
DOI: 10.5281/zenodo.4020441
title: Kinbank: A global database of kinship terminology

description: The data repository for the Kinbank dataset
DOI: 10.15468/dl.et6nvm
title: Occurrence Download

description: A dataset containing 7137 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Juncus alpinus, Juncus alpinus, Juncus alpinoarticulatus, Juncus alpinoarticulatus)",
 "Year is greater than or equal to 1900",
 "Geometry POLYGON ((8.643 46.99, 14.1 46.92, 14.43 50.75, 8.534 50.83, 8.643 46.99))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation, Material sample)"
 ]
}

 The dataset includes 7137 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015694-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gha4k2
title: Occurrence Download

description: A dataset containing 119 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Neo-Uvaria acuminatissima",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 119 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015693-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8hk6nn
title: Occurrence Download

description: A dataset containing 1433 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Material sample, Occurrence evidence)",
 "TaxonKey is Zeugodacus tau"
 ]
}

 The dataset includes 1433 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015696-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6zcqe6
title: Occurrence Download

description: A dataset containing 443 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Neostenanthera myristicifolia",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 443 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015698-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e67h4m
title: Occurrence Download

description: A dataset containing 795241 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Chionoecetes",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 795241 records from 102 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015666-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.22jpmg
title: Occurrence Download

description: A dataset containing 33536 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Juncus articulatus, Juncus articulatus, Juncus articulatus, Juncus lampocarpus, Juncus lampocarpus, Juncus lampocarpus)",
 "Year is greater than or equal to 1900",
 "Geometry POLYGON ((8.643 46.99, 14.1 46.92, 14.43 50.75, 8.534 50.83, 8.643 46.99))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation, Material sample)"
 ]
}

 The dataset includes 33536 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015697-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k76ccf
title: Occurrence Download

description: A dataset containing 69 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.2_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Periparus ater",
 "Year is 2022"
 ]
}

 The dataset includes 69 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015699-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18501566
title: FIShBOT Archive 2026-02-06

description: This dataset is a static snapshot of the FIShBOT data product before new data are aggregated. This version of fishbot is archived for reproducibility and is not updated. The data are aggregated from the FIShBOT system, which collects and processes oceanographic from fishery dependent and independent sources.
DOI: 10.5281/zenodo.18501567
title: FIShBOT Archive 2026-02-06

description: This dataset is a static snapshot of the FIShBOT data product before new data are aggregated. This version of fishbot is archived for reproducibility and is not updated. The data are aggregated from the FIShBOT system, which collects and processes oceanographic from fishery dependent and independent sources.
DOI: 10.15468/dl.4mps6a
title: Occurrence Download

description: A dataset containing 296 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Onychopetalum periquino",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 296 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015700-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cqvp89
title: Occurrence Download

description: A dataset containing 6461 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Juncus bufonius)",
 "Year is greater than or equal to 1900",
 "Geometry POLYGON ((8.643 46.99, 14.1 46.92, 14.43 50.75, 8.534 50.83, 8.643 46.99))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation, Material sample)"
 ]
}

 The dataset includes 6461 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015701-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18501570
title: Organization of literature included in the meta-analysis
DOI: 10.5281/zenodo.18501571
title: Organization of literature included in the meta-analysis
DOI: 10.15468/dl.ksakva
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aristelliger reyesi"
 ]
}

 The dataset includes 7 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015705-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kjkedy
title: Occurrence Download

description: A dataset containing 100 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Orophea myriantha",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 100 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015706-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.28tjxq
title: Occurrence Download

description: A dataset containing 4822 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Juncus compressus, Juncus compressus, Juncus compressus, Juncus compressus, Juncus compressus, Juncus compressus)",
 "Year is greater than or equal to 1900",
 "Geometry POLYGON ((8.643 46.99, 14.1 46.92, 14.43 50.75, 8.534 50.83, 8.643 46.99))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation, Material sample)"
 ]
}

 The dataset includes 4822 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015704-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jnax7a
title: Occurrence Download

description: A dataset containing 358127 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, Mexico, United States of America)",
 "EventDate is greater than or equal to 2025-12-11",
 "EventDate is less than or equal to 2026-01-10",
 {
 "not" : {
 "Issue" : [
 "is one of (Basis of record invalid, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate precision invalid, Coordinate uncertainty meters invalid, Country mismatch, Country invalid, Geodetic datum invalid, Presumed swapped coordinate, Presumed negated longitude, Presumed negated latitude, Country coordinate mismatch)"
 ]
 }
 },
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 358127 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015691-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18501547
title: TOE Complete Derivation Code

description: Computational verification code for "The Theory of Everything: Complete Derivation from Pure Logic" by Jacob Lavin (DOI: 10.5281/zenodo.18501484). 

This repository contains all Python code for deriving physics from the fundamental equation dx/dt = -(x - ⟨x⟩). Includes:

- Complete mathematical derivations from first principles- Proof of exactly 2 quantum states- Derivation of 3+1 spacetime dimensions  - Calculation of fine structure constant α = 1/137.036- Derivation of Schrödinger equation- All visualization code- Zero free parameters

All derivations use only original mathematics with no borrowed assumptions from existing physics.
DOI: 10.5281/zenodo.18501548
title: TOE Complete Derivation Code

description: Computational verification code for "The Theory of Everything: Complete Derivation from Pure Logic" by Jacob Lavin (DOI: 10.5281/zenodo.18501484). 

This repository contains all Python code for deriving physics from the fundamental equation dx/dt = -(x - ⟨x⟩). Includes:

- Complete mathematical derivations from first principles- Proof of exactly 2 quantum states- Derivation of 3+1 spacetime dimensions  - Calculation of fine structure constant α = 1/137.036- Derivation of Schrödinger equation- All visualization code- Zero free parameters

All derivations use only original mathematics with no borrowed assumptions from existing physics.
DOI: 10.5281/zenodo.17403768
title: Supplementary Materials R1 for "Application of K-Means Clustering for Job Applicant Analysis in Construction Firms Using R"

description: This repository contains both underlying data and extended data accompanying the article “Application of K-Means Clustering for Job Applicant Analysis in Construction Firms Using R.”

Underlying data: anonymized applicant dataset (Dataset_K-Means.xlsx), R scripts, and analysis report.Extended data: clustering figures (2D, 3D, hierarchical visualizations), data usage agreement, and README documentation.

Underlying data are released under the Creative Commons Zero v1.0 Universal (CC0 1.0) license, and extended data are released under the Creative Commons Attribution 4.0 International (CC BY 4.0) license.
DOI: 10.5281/zenodo.18501546
title: Supplementary Materials R1 for "Application of K-Means Clustering for Job Applicant Analysis in Construction Firms Using R"
DOI: 10.15468/dl.5jmuxr
title: Occurrence Download

description: A dataset containing 13652 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Juncus conglomeratus)",
 "Year is greater than or equal to 1900",
 "Geometry POLYGON ((8.643 46.99, 14.1 46.92, 14.43 50.75, 8.534 50.83, 8.643 46.99))",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation, Material sample)"
 ]
}

 The dataset includes 13652 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015708-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.