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

description: A dataset containing 811 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Namibia",
 "OccurrenceStatus is Present",
 "TaxonKey is Chondrodactylus",
 "Year 2000-2026"
 ]
}

 The dataset includes 811 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007743-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.46wm5j
title: Occurrence Download

description: A dataset containing 303 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cerinthe alpina, Cerinthe alpina, Cerinthe alpina, Cerinthe glabra, Cerinthe glabra, Cerinthe glabra)",
 "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 303 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007744-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7y4ses
title: Occurrence Download

description: A dataset containing 1144 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Namibia",
 "OccurrenceStatus is Present",
 "TaxonKey is Pachydactylus",
 "Year 2000-2026"
 ]
}

 The dataset includes 1144 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007745-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vsrmaw
title: Occurrence Download

description: A dataset containing 6137 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cervaria rivini, Peucedanum cervaria)",
 "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 6137 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007746-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qp2tcx
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amphorocalyx latifolius",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 12 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007748-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18408782
title: Global M2 internal tide parameters for modes 1-10 derived from the World Ocean Atlas 2023 (WOA23)

description: This dataset will be updated as additional vertical modes and contributors are incorporated. All versions are archived on Zenodo; users should cite the concept DOI to refer to the dataset as a whole.
DOI: 10.5683/sp3/4bxdi9
title: Ontario feed grain prices, 2026 [Canada]

description: &lt;p&gt;This dataset contains Ontario feed grain prices collected by University of Guelph, Ridgetown Campus. The dataset includes daily prices of agricultural commodities at individual elevators in Ontario. Daily highs and lows are given for each commodity, as well as, daily Bank of Canada exchange rates.&lt;/p&gt;&lt;p&gt;This dataset includes data from January 1, 2026 to January 31, 2026. Data for February 1, 2026 to December 31, 2026 will be added as it becomes available.&lt;/p&gt;
description: Ontario Corn, Soybean, Wheat, Feed Grain Prices
DOI: 10.15468/dl.f9h8dw
title: Occurrence Download

description: A dataset containing 10723 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chaerophyllum aureum)",
 "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 10723 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007749-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18423546
title: Global M2 internal tide parameters for modes 1-10 derived from the World Ocean Atlas 2023 (WOA23)

description: This dataset will be updated as additional vertical modes and contributors are incorporated. All versions are archived on Zenodo; users should cite the concept DOI to refer to the dataset as a whole.
DOI: 10.15468/dl.v7z4pc
title: Occurrence Download

description: A dataset containing 3392 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Occurrence evidence, Human Observation)",
 "Continent is one of (Asia, Europe, Africa)",
 "Country is one of (France, Spain, Morocco, Monaco, Italy, Slovenia, Croatia, Bosnia and Herzegovina, Montenegro, Albania, Greece, Türkiye, Cyprus, Lebanon, Malta, Iraq, Iran (Islamic Republic of), Libya, Algeria, Tunisia, Syrian Arab Republic, Kuwait, Palestine, State of, Israel, Jordan)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Lathyrus ochrus"
 ]
}

 The dataset includes 3392 records from 76 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007750-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t4j23t
title: Occurrence Download

description: A dataset containing 9181 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chaerophyllum bulbosum)",
 "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 9181 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007751-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dd.kr8kfd
title: Dataset generated from Esri tool

description: Derived dataset generated by Esri geoprocessing tool using GBIF API
DOI: 10.5281/zenodo.17692057
title: Precise Mechanochemical Scission of DNA Guided by Secondary Structures

description: Original Data underpinning the Manuscript and Supplementary Information.
DOI: 10.5281/zenodo.18460218
title: Precise Mechanochemical Scission of DNA Guided by Secondary Structures

description: Original Data underpinning the Manuscript and Supplementary Information.
DOI: 10.15468/dl.4ftwqd
title: Occurrence Download

description: A dataset containing 23 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amphorocalyx rupestris",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 23 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007754-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zp32vd
title: Occurrence Download

description: A dataset containing 1274 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chamorchis alpina, Chamorchis alpina)",
 "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 1274 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007756-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jczkpt
title: Occurrence Download

description: A dataset containing 46779 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chaerophyllum hirsutum, Chaerophyllum hirsutum, Chaerophyllum hirsutum, Chaerophyllum hirsutum, Chaerophyllum cicutaria)",
 "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 46779 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007755-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kfy2nf
title: Occurrence Download

description: A dataset containing 1084 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Andesanthus lepidotus",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 1084 records from 53 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007757-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/5wne5z
title: Albion R. Hodgdon Herbarium, University of New Hampshire

description: The NHA herbarium comprises approximately 200,000 specimens (120,000 vascular plants, 80,000 marine algae, and 550 bryophytes and lichens). The collection contains a combination of historic and recently collected specimens, including 97 nomenclatural type specimens and voucher specimens supporting taxonomic, ecological, and biogeographic research. While our specimens represent plant species worldwide, the collections emphasize northeastern North America and are especially strong in representing freshwater and marine habitats. An additional strength is our extensive collection of Neotropical aquatic species.
DOI: 10.15468/dl.2ebenq
title: Occurrence Download

description: A dataset containing 1001 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Occurrence evidence, Human Observation)",
 "Continent is one of (Asia, Europe, Africa)",
 "Country is one of (France, Spain, Morocco, Monaco, Italy, Slovenia, Croatia, Bosnia and Herzegovina, Montenegro, Albania, Greece, Türkiye, Cyprus, Lebanon, Malta, Iraq, Iran (Islamic Republic of), Libya, Algeria, Tunisia, Syrian Arab Republic, Kuwait, Palestine, State of, Israel, Jordan)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Lathyrus sativus"
 ]
}

 The dataset includes 1001 records from 80 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007758-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25345/c57h1f140
title: MassIVE MSV000100691 - Top-Down Proteomics in the Assessment of Kidney Donor Quality: a novel approach to increased organ utilization
title: Kidney transplantation faces a critical paradox: while thousands await organs, approximately 30% of potential deceased donor kidneys are discarded for various reasons, including subjective assessments due to the lack of an objective molecular biomarker of preservation quality. Here, we applied novel top-down proteoform imaging mass spectrometry across living donor (LD), deceased donor (brain death or cardiac death), and discarded human kidneys to quantify proteoforms correlating with post-transplant kidney function. This approach preserves post-translational modifications and splice variants, revealing molecular tissue variability beyond protein presence. LD kidneys displayed robust metabolic signatures, including L-xylulose reductase and cytochrome oxidase subunits, whereas deceased donor and discarded organs showed elevated cellular stress markers such as alpha-B-crystallin and peroxiredoxin 1. Post-transplant blood proteoform analysis validated tissue findings, demonstrating persistent cellular stress and immune activation in deceased donor recipients compared with physiologic wound healing in LD recipients. Consistent with these molecular predictions, serum creatinine levels were highest in DCD, intermediate in DBD, and lowest in LD recipients. The intersection of tissue proteoform signatures across all marginal tissues identified four proteoforms consistently elevated in deceased and discarded kidneys: ACTG1, acetylated CRYAB, PARK7, and S100A4. Collectively, these proteoforms capture key molecular indicators of graft quality, reflecting oxidative stress, cellular injury, and immune activation pathways. As such, they represent promising point-of-care (POC) biomarker candidates for objective kidney classification, potentially improving donor kidney utilization.
DOI: 10.15468/due49x
title: George R. Cooley Herbarium

description: Specialty: Northeastern U.S., especially Madison County, New York; Jamaica; West Indies; Europe; southern Florida. Date Founded: 1971.
DOI: 10.15468/dl.p7qwsa
title: Occurrence Download

description: A dataset containing 6031 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chenopodium bonus-henricus, Blitum bonus-henricus, Blitum bonus-henricus)",
 "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 6031 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007760-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8weu4y
title: Occurrence Download

description: A dataset containing 16595 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chenopodium album, Chenopodium album, Chenopodium album)",
 "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 16595 records from 51 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007759-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/87ejg7
title: Herbarium SUNY Oswego

description: The Oswego Herbarium is comprised of approximately 40,000 specimens with global distribution, dating from the early 1800s through the present. The greatest coverage is from upstate New York and the Lake Ontario region. The collection includes primarily vascular plants with a small bryophyte collection. A large portion of this collection is the orphaned Syracuse University Herbarium.
The OSW is in the process of being fully curated and digitized as part of NSF award #2204516.
DOI: 10.15468/dl.f53cac
title: Occurrence Download

description: A dataset containing 529 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Antherotoma naudinii",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 529 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007761-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/6drndg
title: Keene State College Herbarium

description: Specialty: Mainly New England. Date Founded: 1969. This collection is now housed at the University of New Hampshire with the Albion Hodgdon Herbarium (NHA).
DOI: 10.15468/dl.2vcufn
title: Occurrence Download

description: A dataset containing 879 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Argentina",
 "Geometry POLYGON((-425.51961 -24.12123,-425.45587 -24.12123,-425.45587 -24.07707,-425.51961 -24.07707,-425.51961 -24.12123))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 879 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007762-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15677048
title: BRAKER3 annotated genomes for 50 smut fungi with orthogroups

description: See the forthcoming publication presently titled "A chromosome-level genome assembly of Thecaphora frezzii, cause of peanut smut, reveals a repetitive genome and the largest of the true smut fungi". As part of a comparative genomics analysis comparing T. frezzii with Mycosarcoma maydis (prev. Ustilago maydis) and 48 other true smut fungi for which genomes are available, all genomes were annotated by the same pathway, employing EDTA and BRAKER3 with protein data from the Basidiomycota_odb12 dataset and with Augustus trained on M. maydis. The longest isoforms were retained with AGAT. While for some species, an annotation was available in NCBI at the time of writing, for many others, none was available. All were annotated by the same pipeline for consistency. This dataset consists of: 1, a sample table with genome references for annotations; 2 annotations for 50 smut fungi; and 3: results from an orthofinder run showing orthology between predicted proteins. In the orthofinder results, annotations from the published T. frezzii genome from our paper is used in place of the BRAKER3 annotated genome. In addition, we used the REFSeq annotation for M. maydis, and an unpublished annotation for T. thlaspeos acquired by personal communication with Vera Gohre in place of hte BRAKER3 annotations for the species. 

NOTE: the T. frezzii annotation included here is not the annotation in NCBI, which was achieved through FunAnnotate. This one was used in the paper to compare some genomic features (e.g number of genes, introns, etc.).  It is included for reproducibility, but for all other purposes, please prefer the published annotation referenced in the paper. 

Please reach out to nicholasgreatens@gmail.com with questions.
DOI: 10.5281/zenodo.15677049
title: BRAKER3 annotated genomes for 50 smut fungi with orthogroups

description: See the forthcoming publication presently titled "A chromosome-level genome assembly of Thecaphora frezzii, cause of peanut smut, reveals a repetitive genome and the largest of the true smut fungi". As part of a comparative genomics analysis comparing T. frezzii with Mycosarcoma maydis (prev. Ustilago maydis) and 48 other true smut fungi for which genomes are available, all genomes were annotated by the same pathway, employing EDTA and BRAKER3 with protein data from the Basidiomycota_odb12 dataset and with Augustus trained on M. maydis. The longest isoforms were retained with AGAT. While for some species, an annotation was available in NCBI at the time of writing, for many others, none was available. All were annotated by the same pipeline for consistency. This dataset consists of: 1, a sample table with genome references for annotations; 2 annotations for 50 smut fungi; and 3: results from an orthofinder run showing orthology between predicted proteins. In the orthofinder results, annotations from the published T. frezzii genome from our paper is used in place of the BRAKER3 annotated genome. In addition, we used the REFSeq annotation for M. maydis, and an unpublished annotation for T. thlaspeos acquired by personal communication with Vera Gohre in place of hte BRAKER3 annotations for the species. 

NOTE: the T. frezzii annotation included here is not the annotation in NCBI, which was achieved through FunAnnotate. This one was used in the paper to compare some genomic features (e.g number of genes, introns, etc.).  It is included for reproducibility, but for all other purposes, please prefer the published annotation referenced in the paper. 

Please reach out to nicholasgreatens@gmail.com with questions.
DOI: 10.15468/dl.ht4q95
title: Occurrence Download

description: A dataset containing 8213 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Chenopodium polyspermum)",
 "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 8213 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007764-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gswcpw
title: Occurrence Download

description: A dataset containing 4713 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cicerbita alpina, Mulgedium alpinum)",
 "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 4713 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007765-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.