cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3535/29y-nnm-t39
title: Berteroa incana (L.) DC.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/29x-060-eb7
title: Juncus gerardi Loisel.

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/29x-6je-4zs
title: Dryopteris cristata (L.) A. Gray

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.15468/dl.pb59pe
title: Occurrence Download

description: A dataset containing 47670 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Herpetology Collection - Royal Ontario Museum"
 ]
}

 The dataset includes 47670 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014435-230828120925497/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bf63mb
title: Occurrence Download

description: A dataset containing 312040 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 2019-03-18",
 "EventDate is less than or equal to 2019-04-17",
 {
 "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)"
 ]
 }
 }
 ]
}

 The dataset includes 312040 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0265844-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y5xrtv
title: Occurrence Download

description: A dataset containing 1361 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Phyllostachys nigra (Lodd. ex Lindl.) Munro"
 ]
}

 The dataset includes 1361 records from 118 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016983-230828120925497/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d9br3p
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Vanda cristata Wall. ex Lindl."
 ]
}

 The dataset includes 27 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0131042-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ydng39
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001427-250914085247600/datasets/export for details.
DOI: 10.15468/dl.dtr2pq
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001430-250914085247600/datasets/export for details.
DOI: 10.15468/dl.3hmj9f
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001429-250914085247600/datasets/export for details.
DOI: 10.15468/dl.m2f263
title: Occurrence Download

description: A dataset containing 254 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gopherus berlandieri",
 "Year 2025-2025"
 ]
}

 The dataset includes 254 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001431-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3byypv
title: Occurrence Download

description: A dataset containing 115851 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "DatasetKey is Insect Species Occurrence Data from Multiple Projects Worldwide with Focus on Bees and Wasps in North America",
 "Geometry POLYGON((-74.31012 43.47968,-83.21752 39.51789,-82.7921 35.90175,-82.41985 35.0243,-74.09741 36.67283,-69.49746 40.84735,-69.63041 43.05426,-71.35871 43.66581,-74.31012 43.47968))",
 "OccurrenceStatus is Present",
 "PublishingOrg is c3ad790a-d426-4ac1-8e32-da61f81f0117",
 "TaxonKey is one of (Apidae, Andrenidae, Halictidae, Megachilidae, Colletidae, Melittidae)",
 "Year 2001-2010"
 ]
}

 The dataset includes 115851 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001418-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x9y7tg
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Solidago canadensis",
 "Country is India",
 "HasCoordinate is true"
 ]
}

 The dataset includes 4 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001436-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hgum5m
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001435-250914085247600/datasets/export for details.
DOI: 10.15468/dl.ttsfgp
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001434-250914085247600/datasets/export for details.
DOI: 10.15468/dl.femmx9
title: Occurrence Download

description: A dataset containing 18074 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Galium tricornutum"
 ]
}

 The dataset includes 18074 records from 435 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001433-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.53x4qq
title: Occurrence Download

description: A dataset containing 241869 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "DatasetKey is Insect Species Occurrence Data from Multiple Projects Worldwide with Focus on Bees and Wasps in North America",
 "Geometry POLYGON((-74.31012 43.47968,-83.21752 39.51789,-82.7921 35.90175,-82.41985 35.0243,-74.09741 36.67283,-69.49746 40.84735,-69.63041 43.05426,-71.35871 43.66581,-74.31012 43.47968))",
 "OccurrenceStatus is Present",
 "PublishingOrg is c3ad790a-d426-4ac1-8e32-da61f81f0117",
 "TaxonKey is one of (Apidae, Andrenidae, Halictidae, Megachilidae, Colletidae, Melittidae)",
 "Year 2010-2022"
 ]
}

 The dataset includes 241869 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001426-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9aeet2
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Solidago canadensis",
 "Country is Ireland",
 "HasCoordinate is true"
 ]
}

 The dataset includes 6 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001438-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9nfkj9
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Solidago canadensis",
 "Country is Japan",
 "HasCoordinate is true"
 ]
}

 The dataset includes 8 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001439-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6gfnst
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Solidago canadensis",
 "Country is South Africa",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001440-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vykcnu
title: Occurrence Download

description: A dataset containing 7609899 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "DatasetKey is EOD – eBird Observation Dataset",
 "Geometry POLYGON((-89.48326 36.9036,-87.75348 36.89491,-87.44924 39.69385,-90.56111 39.75469,-90.37857 38.00753,-89.48326 36.9036))"
 ]
}

 The dataset includes 7609899 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001411-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xn4kc7
title: Occurrence Download

description: A dataset containing 126982974 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is iNaturalist Research-grade Observations"
 ]
}

 The dataset includes 126982974 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001414-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t5n2zc
title: Occurrence Download

description: A dataset containing 36242 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Galium sylvaticum"
 ]
}

 The dataset includes 36242 records from 306 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001441-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tut7a5
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001443-250914085247600/datasets/export for details.
DOI: 10.15468/dl.9trwk6
title: Occurrence Download

description: A dataset containing 415366 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Galium mollugo"
 ]
}

 The dataset includes 415366 records from 2670 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001345-250914085247600/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.92hb4x
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Fungal atlas",
 "Country is Croatia"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039273-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wepc5j
title: Occurrence Download

description: A dataset containing 1593 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lasioglossum cupromicans (Pérez, 1903)"
 ]
}

 The dataset includes 1593 records from 68 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039272-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5h8p6v
title: Occurrence Download

description: A dataset containing 155 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lasioglossum euboeense (Strand, 1909)"
 ]
}

 The dataset includes 155 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039275-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15428116
title: Spatial Transcriptomics of the Striatum of Two Murine Parkinson's Disease Models.

description: This Zenodo deposit contains a publicly available description of the Dataset:

Title: "Spatial Transcriptomics of the Striatum of Two Murine Parkinson's Disease Models.".

Description: This dataset includes Spatial Transcriptomics (ST) data derived from mouse models of Parkinson's disease (PD), designed to capture both cell-type-specific and spatial gene expression changes across different stages and mechanisms of PD-like pathology. The Mild Neurotoxin Model (6-OHDA): Adult wild-type mice received unilateral injections of 6-hydroxydopamine (6-OHDA) at a low dose (0.6 µg/µL) into the medial forebrain bundle (MFB), selectively damaging nigrostriatal dopaminergic neurons and inducing mild Parkinsonian pathology. Untreated wild-type mice served as controls. Spatial gene expression profiling was conducted on the striata of mice from the mild 6-OHDA model to preserve anatomical context. Tissue sections were collected from six adult mice — three 6-OHDA-treated and three untreated controls. For each animal, four rostro-caudal levels of the striatum were analyzed, capturing regional heterogeneity in response to dopaminergic denervation. The 10X Genomics Visium platform was used to generate spatially resolved transcriptomic maps. This ST dataset allows for the visualization and quantification of spatial patterns in gene expression following mild dopaminergic injury, complementing the cell-type-specific insights gained from the snRNA-seq data.





This dataset is made available to researchers via the ASAP CRN Cloud: cloud.parkinsonsroadmap.org. Instructions for how to request access can be found in the User Manual.

This research was funded by the Aligning Science Across Parkinson's Collaborative Research Network (ASAP CRN), through the Michael J. Fox Foundation for Parkinson's Research (MJFF).

This Zenodo deposit was created by the ASAP CRN Cloud staff on behalf of the dataset authors. It provides a citable reference for a CRN Cloud Dataset
DOI: 10.15468/dl.7tytax
title: Occurrence Download

description: A dataset containing 61938 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Paepalanthus Mart."
 ]
}

 The dataset includes 61938 records from 567 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039256-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7e4qgy
title: Occurrence Download

description: A dataset containing 9422 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Orchis provincialis Balb. ex Lam. & DC."
 ]
}

 The dataset includes 9422 records from 227 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039276-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fsz8x8
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Nymphaea lotus L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((15.6372 -28.0032,16.2782 -28.5786,20.509 -28.5786,20.509 -24.0715,15.4933 -24.0715,15.4945 -24.1257,16.0509 -25.6631,15.6372 -28.0032))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039277-250525065834625/datasets/export for details.
DOI: 10.15468/dl.at92u5
title: Occurrence Download

description: A dataset containing 10225 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lasioglossum fratellum (Pérez, 1903)"
 ]
}

 The dataset includes 10225 records from 121 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039278-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ap9dw8
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Frustulia copulata Kützing, 1833",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((31.8862 -21.3285,30.5701 -20.3186,30.5701 -24.0715,35.5909 -24.0715,35.6007 -24.0157,35.6007 -23.8125,35.4969 -23.7035,35.6007 -23.165,35.6007 -22.9702,35.227 -22.2482,34.6862 -21.6944,34.013 -21.3095,33.5 -21.1593,32.9675 -21.1092,32.4352 -21.1612,31.8862 -21.3285))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039280-250525065834625/datasets/export for details.
DOI: 10.5281/zenodo.15472540
title: Multivariate modulation of Zr6 UiO-66 for enhanced cooperative CO2 adsorption through defect multi-functionalisation

description: Data for the article 

Multivariate modulation of Zr6 UiO-66 for enhanced cooperative CO2 adsorption through defect multi-functionalisation

https://doi.org/10.1039/D5MH00650C
DOI: 10.5281/zenodo.15472541
title: Multivariate modulation of Zr6 UiO-66 for enhanced cooperative CO2 adsorption through defect multi-functionalisation

description: Data for the article 

Multivariate modulation of Zr6 UiO-66 for enhanced cooperative CO2 adsorption through defect multi-functionalisation

https://doi.org/10.1039/D5MH00650C
DOI: 10.15468/dl.543a79
title: Occurrence Download

description: A dataset containing 59 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is University of Michigan Museum of Zoology, Division of Insects",
 "Country is Croatia"
 ]
}

 The dataset includes 59 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039281-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.my7ncq
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Museums Victoria provider for OZCAM",
 "Country is Croatia"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039279-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10684811
title: Improving antibody language models with native pairing

description: Motivation. Existing large language models designed to predict antibody structure and function have been trained exclusively with unpaired antibody sequences. This is a substantial drawback, as each antibody represents a unique pairing of heavy and light chains that both contribute to antigen recognition. The cost of generating large datasets of natively paired antibody sequences is orders of magnitude higher than the cost of unpaired sequences, and the paucity of available paired antibody sequence datasets precludes training a state-of-the-art language model using only paired training data. Here, we sought to determine whether and to what extent natively paired training data improves model performance.

Results. Using a unique and recently reported dataset of approximately 1.6 x 106 natively paired human antibody sequences, we trained two baseline antibody language model (BALM) variants: BALM-paired and BALM-unpaired. We quantify the superiority of BALM-paired over BALM-unpaired, and we show that BALM-paired's improved performance can be attributed at least in part to its ability to learn cross-chain features that span natively paired heavy and light chains. Additionally, we fine-tuned the general protein language model ESM-2 using these paired antibody sequences and report that the fine-tuned model, but not base ESM-2, demonstrates a similar understanding of cross-chain features.

Files. The following files are included in this repository:



BALM-paired.tar.gz: Model weights for the BALM-paired model.

BALM-unpaired.tar.gz: Model weights for the BALM-unpaired model.

BALM-shuffled.tar.gz: Model weights for the BALM-shuffled model.

ESM2-650M_paired-fine-tuned.tar.gz: Model weights for the 650M-parameter ESM-2 model after fine-tuning with natively paired antibody sequences.

jaffe-paired-dataset_airr-annotation.tar.gz: All natively paired antibody sequences from the Jaffe dataset were annotated with abstar and subsequently filtered to remove duplicates or unproductive sequences. The annotated sequences are provided in an AIRR-compliant format.

train-test-eval_paired.tar.gz: Datasets used to train, test, and evaluate the BALM-paired model. Compressed folder containing three files: train.txt, test.txt, and eval.txt. Each file has one input sequence per line. This dataset was also used to fine-tune the 650M-parameter ESM-2 variant.

train-test-eval_unpaired.tar.gz: Datasets used to train, test, and evaluate the BALM-unpaired model. Compressed folder containing three files: train.txt, test.txt, and eval.txt. Each file has one input sequence per line.


Code: All code used for model training, testing, and figure generation is available under the MIT license on GitHub. An archived version of the GitHub repository is included here as code-archive.zip.