cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.p84p72
title: Occurrence Download

description: A dataset containing 39 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Nibea mitsukurii (Jordan & Snyder, 1900)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 39 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036311-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c3w4j8
title: Occurrence Download

description: A dataset containing 2286203 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Epilobium L."
 ]
}

 The dataset includes 2286203 records from 3982 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036256-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34810/data1768
title: Source code for "Designing Routes for a Fleet of Drones under Dynamic Conditions: Combining heuristics with reinforcement learning"

description: This code addresses the Dynamic Team Orienteering Problem. This problem considers a limited fleet of drones, and aims to design efficient routes, maximizing the total reward obtained from visiting a set of nodes while considering battery constraints and dynamic rewards that depend upon the contextual conditions. To solve this problem, a learnheuristic algorithm combining a constructive heuristic with a reinforcement learning method is presented.
description: Python, 3.8
DOI: 10.5281/zenodo.17311472
title: Data for: Environmental Life Cycle Assessment of the SpiralG Biorefinery

description: This repository contains the life cycle inventory (LCI) datasets and supplementary documents associated with the following two scientific articles:

1) Braud, L., McDonnell, K., & Murphy, F. (2025). Beyond phycocyanin: Environmental life cycle assessment of a European pilot scale Spirulina biorefinery. Bioresource Technology Reports, 29, 102027. https://doi.org/10.1016/j.biteb.2025.102027

2) Braud, L., McDonnell, K., & Murphy, F. (2025). Integrating a pilot scale Spirulina biorefinery into a local bioeconomy: A comparative life cycle assessment of environmental mitigation strategies. Under review.

 

The LCI for the Spirulina biorefinery is based on real pilot-scale data collected between 2019 and 2022 in industrial facilities located in Italy and France, as part of the Circular Bio-Based Europe Joint Undertaking (CBE-JU) project "SpiralG" (https://www.cbe.europa.eu/projects/spiralg), under grant agreement No. 792257.

These materials are shared to support the reproducibility of the findings and to enable further research in the field of Spirulina biorefining and life cycle assessment.

All materials are shared under the [Creative Commons Attribution 4.0 International (CC BY 4.0)] licence.

The scripts used to perform the two LCA studies are available in the linked GitHub repository: https://github.com/leabrd/spiralgorithm.

If you use these materials, please cite the relevant article(s) and this Zenodo repository.

 

⚠️ Last modifications (october 2025): 

1) Corrections in inventory_data_SpiralG.xlsx:



Tab "S1_period2": Fixed values for "S1.A1.Cultivation" for four inputs/outputs (monoammonium phosphate production, market for electricity, tap water production, market for waste plastic). Corrected values are highlighted in yellow in the updated file: inventory_data_SpiralG_v2.xlsx.

Tab "S3_period2": Corrected the unit for tap water in activity "S3.A2.Diafiltration" from "kWh" to "L" (highlighted in yellow).


Note: The corrected values were accurate in the databases used for LCA calculations. The errors in the uploaded files were typographical only and do not affect the results or outcomes of the two case studies.

2) Additions: Added three supplementary documents describing the SpiralG biorefinery, covering data collection to modelling for both scientific articles listed above (these documents were previously uploaded on the GitHub repository).
DOI: 10.5281/zenodo.14718128
title: Data for: Environmental Life Cycle Assessment of the SpiralG Biorefinery

description: This repository contains the life cycle inventory (LCI) datasets and supplementary documents associated with the following two scientific articles:

1) Braud, L., McDonnell, K., & Murphy, F. (2025). Beyond phycocyanin: Environmental life cycle assessment of a European pilot scale Spirulina biorefinery. Bioresource Technology Reports, 29, 102027. https://doi.org/10.1016/j.biteb.2025.102027

2) Braud, L., McDonnell, K., & Murphy, F. (2025). Integrating a pilot scale Spirulina biorefinery into a local bioeconomy: A comparative life cycle assessment of environmental mitigation strategies. Under review.

 

The LCI for the Spirulina biorefinery is based on real pilot-scale data collected between 2019 and 2022 in industrial facilities located in Italy and France, as part of the Circular Bio-Based Europe Joint Undertaking (CBE-JU) project "SpiralG" (https://www.cbe.europa.eu/projects/spiralg), under grant agreement No. 792257.

These materials are shared to support the reproducibility of the findings and to enable further research in the field of Spirulina biorefining and life cycle assessment.

All materials are shared under the [Creative Commons Attribution 4.0 International (CC BY 4.0)] licence.

The scripts used to perform the two LCA studies are available in the linked GitHub repository: https://github.com/leabrd/spiralgorithm.

If you use these materials, please cite the relevant article(s) and this Zenodo repository.

 

⚠️ Last modifications (october 2025): 

1) Corrections in inventory_data_SpiralG.xlsx:



Tab "S1_period2": Fixed values for "S1.A1.Cultivation" for four inputs/outputs (monoammonium phosphate production, market for electricity, tap water production, market for waste plastic). Corrected values are highlighted in yellow in the updated file: inventory_data_SpiralG_v2.xlsx.

Tab "S3_period2": Corrected the unit for tap water in activity "S3.A2.Diafiltration" from "kWh" to "L" (highlighted in yellow).


Note: The corrected values were accurate in the databases used for LCA calculations. The errors in the uploaded files were typographical only and do not affect the results or outcomes of the two case studies.

2) Additions: Added three supplementary documents describing the SpiralG biorefinery, covering data collection to modelling for both scientific articles listed above (these documents were previously uploaded on the GitHub repository).
DOI: 10.57761/v1jx-qr56
title: INSPECT EHR

description: Jason Fries (jfries@stanford.edu) Frazier Zepeng Huo (zphuo@stanford.edu)
description: The INSPECT dataset (Integrating Numerous Sources for Prognostic Evaluation of Clinical Timelines) contains de-identified longitudinal electronic health records (EHRs) from a large cohort of pulmonary embolism (PE) patients, along with ground truth labels for multiple outcomes. It includes 19,390 patients EHRs linked to 23,248 CTPA studies with paired radiology impressions.
description: 

![inspect-logo.png](<https://redivis.com/fileUploads/282601b3-2c4b-4de2-a84c-742037a916cd>)

**1\. Overview**

INSPECT is a large-scale 3D multimodal medical imaging dataset:

- **19,390** patients
- **23,248** CT scans
- **225+ million** clinical events
- **3** linked modalities

<!-- -->



**2\. CT Scans + Radiology Impression Notes**

Imaging data are [available for download](<https://aimi.stanford.edu/datasets/inspect-Multimodal-Dataset-for-Pulmonary-Embolism-Diagnosis-and-Prognosis>) from the Stanford AIMI Center.



**3\. EHR Data**

EHR data is sourced from [Stanford’s STARR-OMOP database. ](<https://academic.oup.com/jamiaopen/article/6/3/ooad054/7236015>)Data are standardized in the [OMOP CDM](<https://www.ohdsi.org/data-standardization/>) schema and are fully de-identified. Complete technical details are included in the paper, but key highlights:



- Dates are jittered within patient to conceal real dates (but preserve deltas between dates)
- Data for patients >= 90 years old are removed
- Data for minors <18 are removed
- Unstructured text fields not mappable to OMOP standard concepts are redacted
- All clinical note text is redacted
- HIV test result are redacted.
- Provider names and NPIs are redacted

<!-- -->





Please see our Github repo to obtain code for loading the dataset, including a full data preprocessing pipeline for reproducibility, and running a set of pretrained baseline models




description: Access to the INSPECT dataset requires the following:

- Verified Affiliation (Academic, Government, Industry Research Lab). Please use your **verified email address** when applying, **do not use gmail or personal emails.**
- Encryption Verification / Attestation for Data Storage
- Signing the terms of the INSPECT Data Set License 1.0
- Providing a short description of your intended research use of INSPECT
- CITI Training

<!-- -->

**These data must remain on your encrypted machine. Redistribution of data is FORBIDDEN and will result in immediate termination of access privileges. **



Please allow 7-10 business days to process applications.
DOI: 10.13145/bacdive113627.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113627.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0105283.10fu
title: SH0105283.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.13145/bacdive113628.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113628.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0105284.10fu
title: SH0105284.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.13145/bacdive113629.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113629.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113630.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113630.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113631.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113631.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113632.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113632.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113633.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113633.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113634.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113634.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113635.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113635.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive113636.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0105285.10fu
title: SH0105285.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15468/dl.6kb3re
title: Occurrence Download

description: A dataset containing 130 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Calystegia silvatica (Kit.) Griseb.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 130 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0174547-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2p5zem
title: Occurrence Download

description: A dataset containing 1149 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Saguinus oedipus (Linnaeus, 1758)"
 ]
}

 The dataset includes 1149 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028815-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5d2tzr
title: Occurrence Download

description: A dataset containing 3105306 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-160.3335 21.79427,-155.41399 18.69144,-154.44032 19.92325,-155.04468 20.29386,-158.78207 22.41431,-160.00499 22.14992,-160.3335 21.79427))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3105306 records from 747 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007531-240202131308920/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bk0i87
title: Occurrence Download

description: A dataset containing 282 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gilchristella aestuaria (Gilchrist, 1913)"
 ]
}

 The dataset includes 282 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028815-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zr4fhd
title: Occurrence Download

description: A dataset containing 896 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Insectos del municipio Santa Bárbara, Santander - Proyecto Santander BIO"
 ]
}

 The dataset includes 896 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006011-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.88k8mh
title: Occurrence Download

description: A dataset containing 487148 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Haliastur indus (Boddaert, 1783)"
 ]
}

 The dataset includes 487148 records from 127 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007534-240202131308920/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c794bq
title: Occurrence Download

description: A dataset containing 2218157 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Specimen"
 ]
 },
 "Country is Colombia",
 "TaxonKey is Tracheophyta"
 ]
}

 The dataset includes 2218157 records from 569 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0174529-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e1kpoa
title: Occurrence Download

description: A dataset containing 188 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hilsa kelee (Cuvier, 1829)"
 ]
}

 The dataset includes 188 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028817-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yjuue4
title: Occurrence Download

description: A dataset listing the 10790 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-156.02147 19.67595,-155.8762 19.35236,-155.91721 19.18602,-155.91721 19.18602,-155.90009 19.04548,-155.78062 18.99126,-155.68601 18.91488,-155.61295 18.95375,-155.54903 19.03146,-155.54447 19.08325,-155.45315 19.15658,-155.29792 19.25144,-155.2203 19.25144,-155.0331 19.30746,-154.87697 19.4236,-154.79569 19.48404,-154.81851 19.53138,-154.8733 19.54859,-154.97832 19.65612,-154.96918 19.7206,-155.02397 19.73779,-155.08333 19.75068,-155.08333 19.84949,-155.22863 19.99871,-155.48511 20.11552,-155.59469 20.12409,-155.69947 20.18112,-155.73166 20.24837,-155.86407 20.2655,-155.91633 20.20005,-155.82958 19.98995,-156.06537 19.7314,-156.02147 19.67595))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset's 10790 records were derived from 376 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007538-240202131308920/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.28623659
title: Curso Genética de Conservacion

description: Sequence data and presentation used for the course Curso Genética de Conservacion, for the class on DNA barcoding and RADseq.
DOI: 10.15468/dl.emz4pw
title: Occurrence Download

description: A dataset containing 2119 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ceanothus caeruleus Lag."
 ]
}

 The dataset includes 2119 records from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020732-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h6ppd5
title: Occurrence Download

description: A dataset containing 442 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen)",
 "CoordinateUncertaintyInMeters 0.0-1000.0",
 "Geometry POLYGON((-97.16057 48.97712,-96.78895 42.80778,-92.03028 42.7677,-92.124 46.6612,-89.56075 48.02152,-94.88962 48.99961,-97.16057 48.97712))",
 "OccurrenceStatus is Present",
 "TaxonKey is Phragmites australis (Cav.) Trin. ex Steud."
 ]
}

 The dataset includes 442 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020734-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5067/snwg/opl3disps1-v1
title: OPERA Surface Displacement from Sentinel-1 validated product (Version 1)