cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.30917615.v1
title: <b>NVivo-to-Excel query outputs and ethnobotanical index worksheets (UV, FL, ICF) for TMP responses in Okitipupa LGA venereal disease study</b>

description: This deposit contains the structured Excel outputs exported from NVivo and the derived calculation worksheets used to generate quantitative summaries and visualisations for the ethnobotanical study. Files include cross-tabulations and matrix coding query outputs (e.g., knowledge/perception nodes vs TMP classifications, preparation method vs administration mode), species citation matrices, plant-part use report matrices, and computed ethnobotanical indices (use value, fidelity level, and informant consensus factor). <b>Contents:</b><b>Dataset 2A_Nodes&CaseClassification_CrossTabulation2.xlsx:</b> thematic nodes × TMP demographic/case classifications cross-tabulation (used for knowledge/perception mapping). <b>Dataset 2B_PlantCitationAcrossTMPs_Evaluation.xlsx:</b> TMP × plant species citation matrix with totals (basis for citation dispersion and clustered column charts). <b>Dataset 2C_PotencyDeterminationAcrossTMPs_MatrixCodingQuery.xlsx:</b> matrix coding output capturing TMP-reported potency determination rationales (e.g., consulter feedback, personal experience). <b>Dataset 2D_PrepMethod&AdminModeRelationship_MatrixCodingQuery.xlsx:</b> preparation methods × administration modes matrix (e.g., oral, topical, incision, vaginal insertion). <b>Dataset 2E_UseValueEvaluation.xlsx:</b> UV computation worksheet (Nur, N and computed UV per species and VD categories). <b>Dataset 2F_FidelityLevelEvaluation.xlsx:</b> FL computation worksheet (percentage FL per species across VD categories with N). <b>Dataset 2G_UseReport(PartsUsed)ofPlantSpecies_MatrixCodingQuery.xlsx: </b>plant species × plant part use-report matrix. <b>Dataset 2H_FicEvaluation.xlsx:</b> Fic/ICF support sheet containing VD categories and supporting counts used in consensus computations/plots. <b>Reuse notes:</b>These worksheets allow full computational reproducibility of the figures/tables derived from NVivo exports and ethnobotanical index calculations, and can be adapted for comparable mixed-method ethnobotanical studies.
DOI: 10.15468/dl.xhdsvj
title: Occurrence Download

description: A dataset containing 3080 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ipomoea aquatica",
 "Year 2015-2025"
 ]
}

 The dataset includes 3080 records from 70 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059737-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r6ca8y
title: Occurrence Download

description: A dataset containing 90 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Capsicum",
 "Year 2015-2025"
 ]
}

 The dataset includes 90 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059738-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hn3q7q
title: Occurrence Download

description: A dataset containing 1233 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pinus caribaea",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 1233 records from 111 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059739-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3wv35e
title: Occurrence Download

description: A dataset containing 68 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Indonesia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Coffea",
 "Year 2015-2025"
 ]
}

 The dataset includes 68 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059740-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8yrvtn
title: Occurrence Download

description: A dataset containing 254 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Cannabis",
 "Year 2015-2025"
 ]
}

 The dataset includes 254 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059742-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4st2f6
title: Occurrence Download

description: A dataset containing 763 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pinus glabra",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 763 records from 66 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059743-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x5azb3
title: Occurrence Download

description: A dataset containing 603 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Indonesia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Solanum",
 "Year 2015-2025"
 ]
}

 The dataset includes 603 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059744-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fnsfmh
title: Occurrence Download

description: A dataset containing 83 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Indonesia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Arachis",
 "Year 2015-2025"
 ]
}

 The dataset includes 83 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059745-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17982522
title: scMicrobio
DOI: 10.15468/dl.8f9ssg
title: Occurrence Download

description: A dataset containing 72 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Indonesia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Pteridium",
 "Year 2015-2025"
 ]
}

 The dataset includes 72 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059746-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s37kbh
title: Occurrence Download

description: A dataset containing 800 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pinus maximinoi",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 800 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059748-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f5xvx5
title: Occurrence Download

description: A dataset containing 256 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is one of (China, Chinese Taipei)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Month is one of (January, February, March, April, May, June, July, August, September, October, November, December)",
 "OccurrenceStatus is Present",
 "TaxonKey is Cucumis",
 "Year 2015-2025"
 ]
}

 The dataset includes 256 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059749-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.crve4a
title: Occurrence Download

description: A dataset containing 16965 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Carica",
 "Year 2016-2025"
 ]
}

 The dataset includes 16965 records from 206 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059750-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x9wxvf
title: Occurrence Download

description: A dataset containing 758 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Uzbekistan",
 "OccurrenceStatus is Present",
 "TaxonKey is Rosa",
 "Year 2015-2025"
 ]
}

 The dataset includes 758 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059751-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e2ppt3
title: Occurrence Download

description: A dataset containing 8300 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pinus taeda",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 8300 records from 176 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059752-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57760/sciencedb.33637
title: Community characteristics of temperate steppe under factorial nitrogen addition and mowing
title: Community characteristics of temperate steppe under factorial nitrogen addition and mowing

description: In a field experiment with factorial treatments of nitrogen addition and mowing, we collected data by monitoring species composition and aboveground biomass in plant communities.
description: In a field experiment with factorial treatments of nitrogen addition and mowing, we collected data by monitoring species composition and aboveground biomass in plant communities.
DOI: 10.6084/m9.figshare.27166473
title: Foundational Mechanisms of Visual-Perception Control in Cyborg Insects Using UV Stimulation

description: <br>This dataset presents experimental data collected from three cyborg cockroaches using non-invasive UV stimulation. The dataset includes 15 trials in total, with 5 trials for each cockroach.<br>The UV stimulation was applied as a means to manipulate the cockroach's compound eyes, effectively directing their trajectories. The dataset provides detailed recordings of the insects' responses to UV stimulation, offering valuable insights into the effectiveness of this sensory manipulation for bio-hybrid systems. This study represents the <b>first successful demonstration</b> of using UV stimulation to control cyborg insect locomotion, and the data contained here can serve as a critical resource for advancing research in the field of biohybrid robotics and insect-based control mechanisms.
DOI: 10.6084/m9.figshare.27166473.v3
title: Manipulating Visual Perception to Control Cyborg Insect Locomotion via Ultraviolet (UV) Stimulation Dataset

description: <br>This dataset presents experimental data collected from three cyborg cockroaches using non-invasive UV stimulation. The dataset includes 15 trials in total, with 5 trials for each cockroach.<br>The UV stimulation was applied as a means to manipulate the cockroach's compound eyes, effectively directing their trajectories. The dataset provides detailed recordings of the insects' responses to UV stimulation, offering valuable insights into the effectiveness of this sensory manipulation for bio-hybrid systems. This study represents the <b>first successful demonstration</b> of using UV stimulation to control cyborg insect locomotion, and the data contained here can serve as a critical resource for advancing research in the field of biohybrid robotics and insect-based control mechanisms.
DOI: 10.6084/m9.figshare.27166473.v4
title: Foundational Mechanisms of Visual-Perception Control in Cyborg Insects Using UV Stimulation

description: <br>This dataset presents experimental data collected from three cyborg cockroaches using non-invasive UV stimulation. The dataset includes 15 trials in total, with 5 trials for each cockroach.<br>The UV stimulation was applied as a means to manipulate the cockroach's compound eyes, effectively directing their trajectories. The dataset provides detailed recordings of the insects' responses to UV stimulation, offering valuable insights into the effectiveness of this sensory manipulation for bio-hybrid systems. This study represents the <b>first successful demonstration</b> of using UV stimulation to control cyborg insect locomotion, and the data contained here can serve as a critical resource for advancing research in the field of biohybrid robotics and insect-based control mechanisms.
DOI: 10.15468/dl.8nfyfa
title: Occurrence Download

description: A dataset containing 44715 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cinnyris jugularis",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Geometry POLYGON((-180 -90, 180 -90, 180 90, -180 90, -180 -90))"
 ]
}

 The dataset includes 44715 records from 76 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059753-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v73ehc
title: Occurrence Download

description: A dataset containing 1715 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Belgium",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Pyrus",
 "Year 2015-2025"
 ]
}

 The dataset includes 1715 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059755-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fzsznc
title: Occurrence Download

description: A dataset containing 2323 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Coffea canephora",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 2323 records from 99 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059754-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zg365e
title: Occurrence Download

description: A dataset containing 360 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Indonesia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Manihot",
 "Year 2015-2025"
 ]
}

 The dataset includes 360 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059756-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17982539
title: Testable Deviations from the Born Rule Induced by Modular Nonequilibrium

description: ina

The Born rule is a cornerstone of quantum mechanics, yet it is introduced as

a postulate rather than derived from underlying dynamics. Here we show that

Born probabilities arise as an equilibrium condition associated with modular

(KMS) balance in quantum systems. When this balance is weakly violated, we

predict small but controlled deviations from the Born rule governed by mod-

ular nonequilibrium and entropy production. We derive a universal first-order

correction to measurement probabilities that vanishes exactly at equilibrium

while preserving normalization. Importantly, we identify experimentally ac-

cessible non-KMS protocols in current quantum platforms where the predicted

deviations can be statistically detected as a purely statistical bias in large-N

data (and is invisible at the level of individual events). We further show that

the correction is compatible with relativistic causality: for bipartite systems it

depends only on local modular data of the measured subsystem and therefore

does not enable superluminal signalling. Our results provide a falsifiable test of

the dynamical origin of quantum probabilities beyond the standard postulate.
DOI: 10.5281/zenodo.17982538
title: Testable Deviations from the Born Rule Induced by Modular Nonequilibrium

description: ina

The Born rule is a cornerstone of quantum mechanics, yet it is introduced as

a postulate rather than derived from underlying dynamics. Here we show that

Born probabilities arise as an equilibrium condition associated with modular

(KMS) balance in quantum systems. When this balance is weakly violated, we

predict small but controlled deviations from the Born rule governed by mod-

ular nonequilibrium and entropy production. We derive a universal first-order

correction to measurement probabilities that vanishes exactly at equilibrium

while preserving normalization. Importantly, we identify experimentally ac-

cessible non-KMS protocols in current quantum platforms where the predicted

deviations can be statistically detected as a purely statistical bias in large-N

data (and is invisible at the level of individual events). We further show that

the correction is compatible with relativistic causality: for bipartite systems it

depends only on local modular data of the measured subsystem and therefore

does not enable superluminal signalling. Our results provide a falsifiable test of

the dynamical origin of quantum probabilities beyond the standard postulate.
DOI: 10.15468/dl.hsmkpz
title: Occurrence Download

description: A dataset containing 11749 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Coffea arabica",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 11749 records from 361 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059758-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17957033
title: Horizyn-1 Development Dataset: Dual-encoder contrastive learning accelerates enzyme discovery

description: Overview This repository contains the development dataset used to train and evaluate the Horizyn-1 development model, as described in the paper "Dual-encoder contrastive learning accelerates enzyme discovery."

The dataset includes the full set of reaction SMILES, protein-reaction pairs, and pre-computed ProtT5 protein embeddings. The accompanying code for training and evaluation is available at: https://github.com/dayhofflabs/horizyn. A model checkpoint produced using the data and code is also included.

Methodology & Splits The training and test sets were created by splitting on reactions to prevent data leakage. The test set was strictly filtered to exclude any reactions with high similarity to any reactions in the training set (see manuscript).

For evaluation, the test setup involves identifying the correct enzyme for each test reaction from a total screening pool of 216,132 proteins contained in this dataset.

Dataset Statistics





Reactions: 10,785 (Train) / 1,012 (Test)




Enzymes: 192,769 (Train) / 32,100 (Test)




Reaction-Enzyme Pairs: 257,733 (Train) / 33,996 (Test)



File Manifest The archive contains the following standardized files:





train_rxns.csv & test_rxns.csv





Contains reaction SMILES strings.




Columns: rs_id, reaction_id, reaction_smiles






train_pairs.csv & test_pairs.csv





Defines the positive training and testing pairs.




Columns: pr_id, reaction_id, protein_id






prots_t5.h5





HDF5 file containing pre-computed protein embeddings (ProtT5-XL).




Structure:





/ids: Dataset of protein IDs (strings)




/vectors: Dataset of embeddings (float32, shape: [N, 1024])








prots.fasta (Reference)





FASTA file containing protein sequences corresponding to the embeddings in the HDF5 file.






horizyn-v1.ckpt





Model checkpoint created using this dataset and the official implementation.




Code repository: https://github.com/dayhofflabs/horizyn





Citation If you use this dataset, please cite the associated preprint:



Rocks, J. W., Truong, D. P., Rappoport, D., Maddrell-Mander, S., Martin-Alarcon, D. A., Lee, T., Crossan, S., & Goldford, J. E. (2025). Dual-encoder contrastive learning accelerates enzyme discovery. bioRxiv. DOI: 10.1101/2025.08.21.671639