cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.x67vpp
title: Occurrence Download

description: A dataset containing 30587 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lycaenidae",
 "Country is Austria",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 50",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is Human Observation"
 ]
}

 The dataset includes 30587 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032111-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yhevxh
title: Occurrence Download

description: A dataset containing 26 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Trichomycterus uisae",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 26 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032114-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18713246
title: Embeddings and benchmarks results for fusionAI dataset

description: Dataset Description for Genomic Foundation Model Benchmarking

This dataset accompanies the research article "Benchmarking Genomic Foundation Models for Binary Classification of Gene Fusion Breakpoints from DNA Sequences." It is designed to facilitate the reproduction and extension of the gene fusion detection experiments performed using various state-of-the-art genomic foundation models.

Included Files and Content

The dataset is organized into 4 archives: embeddings.zip, embeddings_augmented and two separate model archives (learned_models_svm.zip and learned_models_nn.zip).

embeddings.zip

This archive contains the calculated middle embeddings derived from raw DNA sequences published https://compbio.uth.edu/FusionGDB2/FusionAI/ . There are embeddings for two fusion sequences for training ( https://compbio.uth.edu/FusionGDB2/FusionAI/fg_newdata_train.txt )  and testing data ( https://compbio.uth.edu/FusionGDB2/FusionAI/fg_newdata_test.txt ) .

 These embeddings serve as the input features for the downstream classification models.





Embedding Types: For every sequence and model, two distinct pooling strategies are provided:



Middle Embedding: The hidden state extracted specifically from the central position of the sequence.



Mean Embedding: The average of all embeddings across the sequence length.






Data Splits: Includes embeddings for both training (fg_newdata_train.txt) and testing (fg_newdata_test.txt) datasets.




Models Included: Nucleotide Transformer, EVO2, Hyena, and BERTDNA.



embeddings_augmented.zip

This archive contains data used to evaluate model robustness against sequence perturbations.





embeddings_augmented/: Contains perturbed versions of both mean and middle embeddings for all four models.





Methodology: A subset of 800 samples was selected and randomly augmented.




Augmentation Parameters: Samples were modified by a random noise injection (1–32%) or a positional shift (1 to 64 units).






embeddings_augmented_results/: Contains the classification results and performance metrics of these augmented samples when processed by the pre-trained models.



learned_models_svm.zip

This archive contains the saved Support Vector Machine (SVM) classification models trained on the foundation model embeddings.

learned_models_nn.zip

This archive contains the saved DenseNet-based Neural Network (NN) classification models trained on the foundation model embeddings and FusionAI classifier.
DOI: 10.15468/dl.x7vjka
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cordylancistrus pijao",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 27 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032115-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15655666
title: Embeddings and benchmarks results for fusionAI dataset

description: Dataset Description for Genomic Foundation Model Benchmarking

This dataset accompanies the research article "Benchmarking Genomic Foundation Models for Binary Classification of Gene Fusion Breakpoints from DNA Sequences." It is designed to facilitate the reproduction and extension of the gene fusion detection experiments performed using various state-of-the-art genomic foundation models.

Included Files and Content

The dataset is organized into 4 archives: embeddings.zip, embeddings_augmented and two separate model archives (learned_models_svm.zip and learned_models_nn.zip).

embeddings.zip

This archive contains the calculated middle embeddings derived from raw DNA sequences published https://compbio.uth.edu/FusionGDB2/FusionAI/ . There are embeddings for two fusion sequences for training ( https://compbio.uth.edu/FusionGDB2/FusionAI/fg_newdata_train.txt )  and testing data ( https://compbio.uth.edu/FusionGDB2/FusionAI/fg_newdata_test.txt ) .

 These embeddings serve as the input features for the downstream classification models.





Embedding Types: For every sequence and model, two distinct pooling strategies are provided:



Middle Embedding: The hidden state extracted specifically from the central position of the sequence.



Mean Embedding: The average of all embeddings across the sequence length.






Data Splits: Includes embeddings for both training (fg_newdata_train.txt) and testing (fg_newdata_test.txt) datasets.




Models Included: Nucleotide Transformer, EVO2, Hyena, and BERTDNA.



embeddings_augmented.zip

This archive contains data used to evaluate model robustness against sequence perturbations.





embeddings_augmented/: Contains perturbed versions of both mean and middle embeddings for all four models.





Methodology: A subset of 800 samples was selected and randomly augmented.




Augmentation Parameters: Samples were modified by a random noise injection (1–32%) or a positional shift (1 to 64 units).






embeddings_augmented_results/: Contains the classification results and performance metrics of these augmented samples when processed by the pre-trained models.



learned_models_svm.zip

This archive contains the saved Support Vector Machine (SVM) classification models trained on the foundation model embeddings.

learned_models_nn.zip

This archive contains the saved DenseNet-based Neural Network (NN) classification models trained on the foundation model embeddings and FusionAI classifier.
DOI: 10.15468/dl.khg96j
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Brycon fowleri",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 28 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032117-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/iwpzxk
title: Churchyards for London

description: Surveys of churchyards in the London Diocese by several volunteers. Data provided by the Diocese of London, Church of England. With thanks to all recorders, and Brian Cuthbertson.
DOI: 10.5281/zenodo.18712842
title: SiMaT - ontology for Simulation of Material Testing

description: The Material Testing and Simulation Ontology, SiMaT ontology (simat) is a domain ontology in the field of material characterization through experimental testing and numerical simulation. It provides a common vocabulary for scientists and processes within the domain.
DOI: 10.5281/zenodo.18712841
title: SiMaT - ontology for Simulation of Material Testing

description: The Material Testing and Simulation Ontology, SiMaT ontology (simat) is a domain ontology in the field of material characterization through experimental testing and numerical simulation. It provides a common vocabulary for scientists and processes within the domain.
DOI: 10.15468/dl.ue5v3r
title: Occurrence Download

description: A dataset containing 772 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nesokia indica"
 ]
}

 The dataset includes 772 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032118-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.77mz9r
title: Occurrence Download

description: A dataset containing 348 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nilgiritragus hylocrius"
 ]
}

 The dataset includes 348 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032120-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zykabg
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paracloeodes aristotelesi",
 "DecimalLatitude is not null",
 "DecimalLongitude is not null"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032119-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48366/r1585436
title: Evaluation Setting of Merging Large Language Models with Heterogeneous Architecture

description: This comparison table presents the experimental evaluation settings used for merging large language models with heterogeneous architectures, including the datasets, tasks, architecture, evaluation metrics, model combinations, and baseline methods employed to assess merging performance.
DOI: 10.15468/bpbzjz
title: Bioblitz ConservES project 2023

description: This dataset comes from five participatory events (Bioblitzes) in agroecosystems that took place in spring 2023. These Bioblitzes were held as part of a research project called "ConservES" and brought together various stakeholders from the agricultural sector and the general public. The data results from opportunistic observations made by over 300 participants.
DOI: 10.5281/zenodo.18478672
title: Acoustic recording: Papetoai (Moorea Island) January 2021 part 1

description: Dataset

"Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring"

Status: non Marine Protected Area, coast: North-West, site: Papetoai, island: Moorea Island, depth:  10 m, position: external slope of the barrier reef, latitude: -17.4829, longitude: -149.8861 , year: 2021, month: January, format: wav. The files are named DDHHMMSS (DD = day, HH = hour, MM = minutes, SS = seconds). 

Sampling frequency: 44.1 kHz, type of recorder: SNAP, type of hydrophone: HTI-96, sensitivity: −169.9 dB re 1 V µPa^-1, gain: between 2 and 2.05 dB, acquisition: continuously.

This research is funded by two grants attributed to Xavier Raick. The first one is from the King Leopold III Fund for Nature Exploration and Conservation and the second one is from the University of Liège “financement mission scientifique”. This research is part of the project “Acoustics to Assess the Health Status of Reefs” hosted by the Ocean Decade Research Programme on the Maritime Acoustic Environment (OD-MAE) endorsed by the 2021-2030 United Nations Decade of Ocean Science for Sustainable Development (UNESCO).

More information can be found in the main text and in the Supplementary Materials of the related article by Raick et al. ""Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring".
DOI: 10.5281/zenodo.18478671
title: Acoustic recording: Papetoai (Moorea Island) January 2021 part 1

description: Dataset

"Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring"

Status: non Marine Protected Area, coast: North-West, site: Papetoai, island: Moorea Island, depth:  10 m, position: external slope of the barrier reef, latitude: -17.4829, longitude: -149.8861 , year: 2021, month: January, format: wav. The files are named DDHHMMSS (DD = day, HH = hour, MM = minutes, SS = seconds). 

Sampling frequency: 44.1 kHz, type of recorder: SNAP, type of hydrophone: HTI-96, sensitivity: −169.9 dB re 1 V µPa^-1, gain: between 2 and 2.05 dB, acquisition: continuously.

This research is funded by two grants attributed to Xavier Raick. The first one is from the King Leopold III Fund for Nature Exploration and Conservation and the second one is from the University of Liège “financement mission scientifique”. This research is part of the project “Acoustics to Assess the Health Status of Reefs” hosted by the Ocean Decade Research Programme on the Maritime Acoustic Environment (OD-MAE) endorsed by the 2021-2030 United Nations Decade of Ocean Science for Sustainable Development (UNESCO).

More information can be found in the main text and in the Supplementary Materials of the related article by Raick et al. ""Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring".
DOI: 10.15468/dl.p4kxuk
title: Occurrence Download

description: A dataset containing 12086 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hesperiidae",
 "Country is Austria",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 50",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is Human Observation"
 ]
}

 The dataset includes 12086 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032121-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5519/qd.ipzobnz3
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (24 records)
DOI: 10.5281/zenodo.18482198
title: Acoustic recording: Papetoai (Moorea Island) January 2021 part 2

description: Dataset

"Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring"

Status: non Marine Protected Area, coast: North-West, site: Papetoai, island: Moorea Island, depth:  10 m, position: external slope of the barrier reef, latitude: -17.4829, longitude: -149.8861 , year: 2021, month: January, format: wav. The files are named DDHHMMSS (DD = day, HH = hour, MM = minutes, SS = seconds). 

Sampling frequency: 44.1 kHz, type of recorder: SNAP, type of hydrophone: HTI-96, sensitivity: −169.9 dB re 1 V µPa^-1, gain: between 2 and 2.05 dB, acquisition: continuously.

This research is funded by two grants attributed to Xavier Raick. The first one is from the King Leopold III Fund for Nature Exploration and Conservation and the second one is from the University of Liège “financement mission scientifique”. This research is part of the project “Acoustics to Assess the Health Status of Reefs” hosted by the Ocean Decade Research Programme on the Maritime Acoustic Environment (OD-MAE) endorsed by the 2021-2030 United Nations Decade of Ocean Science for Sustainable Development (UNESCO).

More information can be found in the main text and in the Supplementary Materials of the related article by Raick et al. ""Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring".
DOI: 10.5281/zenodo.18482199
title: Acoustic recording: Papetoai (Moorea Island) January 2021 part 2

description: Dataset

"Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring"

Status: non Marine Protected Area, coast: North-West, site: Papetoai, island: Moorea Island, depth:  10 m, position: external slope of the barrier reef, latitude: -17.4829, longitude: -149.8861 , year: 2021, month: January, format: wav. The files are named DDHHMMSS (DD = day, HH = hour, MM = minutes, SS = seconds). 

Sampling frequency: 44.1 kHz, type of recorder: SNAP, type of hydrophone: HTI-96, sensitivity: −169.9 dB re 1 V µPa^-1, gain: between 2 and 2.05 dB, acquisition: continuously.

This research is funded by two grants attributed to Xavier Raick. The first one is from the King Leopold III Fund for Nature Exploration and Conservation and the second one is from the University of Liège “financement mission scientifique”. This research is part of the project “Acoustics to Assess the Health Status of Reefs” hosted by the Ocean Decade Research Programme on the Maritime Acoustic Environment (OD-MAE) endorsed by the 2021-2030 United Nations Decade of Ocean Science for Sustainable Development (UNESCO).

More information can be found in the main text and in the Supplementary Materials of the related article by Raick et al. ""Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring".
DOI: 10.34740/kaggle/dsv/14900353
title: 10 Most Popular Bachelor's Degrees Worldwide 2024
DOI: 10.5281/zenodo.18713658
title: DVIGATELLARNI QISMLARGA AJRATISH VA YIG'ISH

description: Maqolada ta’mirdan keying dvigatelni chiniqtirish jarayoni, mavzuga oid ko‘plab tadqiqotlar natijalari, kapital ta’mirdan chiqqan dvigatelning resursiga boshqa omillar ham ta’siri, dvigatelni chiniqtirish usullari va texnologik yechimlarini ko’rib chiqilgan va tahlil qilingan.
DOI: 10.15468/dl.mnhr9b
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hemibrycon plutarcoi",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 28 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032122-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18713657
title: DVIGATELLARNI QISMLARGA AJRATISH VA YIG'ISH

description: Maqolada ta’mirdan keying dvigatelni chiniqtirish jarayoni, mavzuga oid ko‘plab tadqiqotlar natijalari, kapital ta’mirdan chiqqan dvigatelning resursiga boshqa omillar ham ta’siri, dvigatelni chiniqtirish usullari va texnologik yechimlarini ko’rib chiqilgan va tahlil qilingan.
DOI: 10.15468/pym872
title: 2025_Citizen_Participation_Observation_information_NSMK_SP_525

description: These records are provided by the National Science Museum of Korea through the National Natural History Research Information System.
The dataset contains curated biodiversity occurrence records generated through a citizen-participatory monitoring project, in which citizen participants contribute biodiversity observations from their local regions.
Citizen-contributed observation records were subsequently taxonomically identified and validated under institutional data curation workflows.
DOI: 10.48366/r1585438
title: Evaluation Setting of Merging Large Language Models with Heterogeneous Architecture

description: This comparison table presents the experimental evaluation settings used for merging large language models with heterogeneous architectures, including the datasets, tasks, architecture, evaluation metrics, model combinations, and baseline methods employed to assess merging performance.
DOI: 10.15468/dl.ny3yae
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Imparfinis timana",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 28 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032123-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18482208
title: Acoustic recording: Tiahura (Moorea Island) January 2021 part 2

description: Dataset

"Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring"

Status: Marine Protected Area, coast: North-West, site: Tiahura, island: Moorea Island, depth:  10 m, position: external slope of the barrier reef, latitude: -17.4830, longitude: -149.8998 , year: 2021, month: January, format: wav. The files are named DDHHMMSS (DD = day, HH = hour, MM = minutes, SS = seconds). 

Sampling frequency: 44.1 kHz, type of recorder: SNAP, type of hydrophone: HTI-96, sensitivity: −170.0 dB re 1 V µPa^-1, gain: between 2 and 2.05 dB, acquisition: continuously.

This research is funded by two grants attributed to Xavier Raick. The first one is from the King Leopold III Fund for Nature Exploration and Conservation and the second one is from the University of Liège “financement mission scientifique”. This research is part of the project “Acoustics to Assess the Health Status of Reefs” hosted by the Ocean Decade Research Programme on the Maritime Acoustic Environment (OD-MAE) endorsed by the 2021-2030 United Nations Decade of Ocean Science for Sustainable Development (UNESCO).

More information can be found in the main text and in the Supplementary Materials of the related article by Raick et al. ""Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring".
DOI: 10.5281/zenodo.18482207
title: Acoustic recording: Tiahura (Moorea Island) January 2021 part 2

description: Dataset

"Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring"

Status: Marine Protected Area, coast: North-West, site: Tiahura, island: Moorea Island, depth:  10 m, position: external slope of the barrier reef, latitude: -17.4830, longitude: -149.8998 , year: 2021, month: January, format: wav. The files are named DDHHMMSS (DD = day, HH = hour, MM = minutes, SS = seconds). 

Sampling frequency: 44.1 kHz, type of recorder: SNAP, type of hydrophone: HTI-96, sensitivity: −170.0 dB re 1 V µPa^-1, gain: between 2 and 2.05 dB, acquisition: continuously.

This research is funded by two grants attributed to Xavier Raick. The first one is from the King Leopold III Fund for Nature Exploration and Conservation and the second one is from the University of Liège “financement mission scientifique”. This research is part of the project “Acoustics to Assess the Health Status of Reefs” hosted by the Ocean Decade Research Programme on the Maritime Acoustic Environment (OD-MAE) endorsed by the 2021-2030 United Nations Decade of Ocean Science for Sustainable Development (UNESCO).

More information can be found in the main text and in the Supplementary Materials of the related article by Raick et al. ""Highlighting the resilience potential of marine protected areas in the face of coral bleaching with passive acoustic monitoring".
DOI: 10.15468/dl.dat9ey
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rachovia brevis",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 28 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032124-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.