cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29310533
title: Supplementary Dataset D1: AlphaFold3-Predicted VHH–EGFR Complexes

description: README – AlphaFold3-Predicted VHH–EGFR Complexes This archive contains the AlphaFold3-predicted structural models of EGFR in complex with single-domain antibodies (VHHs) used in the study: "Allosteric Antibody Modulation of EGFR Activity: Bridging Experiment and In Silico Modeling" Fournier et al., 2025Description Each subdirectory corresponds to a VHH–EGFR modeling condition, named by VHH identity and the specific EGFR region used as input (a2_egfr_294_543, g9_egfr_1_294, e6_egfr_full, etc.). These were selected based on experimental epitope mapping (BLI) or used as control modeling conditions for assessing AlphaFold3 prediction quality. All models were generated using the AlphaFold3 webserver. For each VHH–EGFR input pair, five ranked models were produced. The folder includes the following files: Files per modeling condition:fold___model_0.cif – 3D structure of the top-ranked model...fold___model_4.cif – 3D structure of rank 5 modelfold__<i>summary_confidences</i>*.json – per-model confidence scores (pLDDT, ipTM, pae_cross)fold__<i>full_data</i>*.json – full model outputs from AlphaFold3NotesFor downstream allosteric modeling with SBSMMA, only one EGFR region per VHH was selected (indicated by the green highlighting in Supplementary Table S2).The EGFR regions used in modeling include:Full extracellular EGFR ("_full")Contiguous domain pairs (EGFR_I_II, EGFR_II_III, EGFR_III_IV)BLI-guided segmental constructs (EGFR_294_543, EGFR_1_294)All models were aligned to the full-length tethered EGFR conformation from Arkhipov et al., 2013. as showed in Figure 2 of the manuscript.
DOI: 10.6084/m9.figshare.29310533.v3
title: AlphaFold3-Predicted VHH–EGFR Complexes

description: README – AlphaFold3-Predicted VHH–EGFR Complexes This archive contains the AlphaFold3-predicted structural models of EGFR in complex with single-domain antibodies (VHHs) used in the study: "Allosteric Antibody Modulation of EGFR Activity: Bridging Experiment and In Silico Modeling" Fournier et al., 2025Description Each subdirectory corresponds to a VHH–EGFR modeling condition, named by VHH identity and the specific EGFR region used as input (a2_egfr_294_543, g9_egfr_1_294, e6_egfr_full, etc.). These were selected based on experimental epitope mapping (BLI) or used as control modeling conditions for assessing AlphaFold3 prediction quality. All models were generated using the AlphaFold3 webserver. For each VHH–EGFR input pair, five ranked models were produced. The folder includes the following files: Files per modeling condition:fold___model_0.cif – 3D structure of the top-ranked model...fold___model_4.cif – 3D structure of rank 5 modelfold__<i>summary_confidences</i>*.json – per-model confidence scores (pLDDT, ipTM, pae_cross)fold__<i>full_data</i>*.json – full model outputs from AlphaFold3NotesFor downstream allosteric modeling with SBSMMA, only one EGFR region per VHH was selected (indicated by the green highlighting in Supplementary Table S2).The EGFR regions used in modeling include:Full extracellular EGFR ("_full")Contiguous domain pairs (EGFR_I_II, EGFR_II_III, EGFR_III_IV)BLI-guided segmental constructs (EGFR_294_543, EGFR_1_294)All models were aligned to the full-length tethered EGFR conformation from Arkhipov et al., 2013. as showed in Figure 2 of the manuscript.
DOI: 10.6084/m9.figshare.29310533.v4
title: Supplementary Dataset D1: AlphaFold3-Predicted VHH–EGFR Complexes

description: README – AlphaFold3-Predicted VHH–EGFR Complexes This archive contains the AlphaFold3-predicted structural models of EGFR in complex with single-domain antibodies (VHHs) used in the study: "Allosteric Antibody Modulation of EGFR Activity: Bridging Experiment and In Silico Modeling" Fournier et al., 2025Description Each subdirectory corresponds to a VHH–EGFR modeling condition, named by VHH identity and the specific EGFR region used as input (a2_egfr_294_543, g9_egfr_1_294, e6_egfr_full, etc.). These were selected based on experimental epitope mapping (BLI) or used as control modeling conditions for assessing AlphaFold3 prediction quality. All models were generated using the AlphaFold3 webserver. For each VHH–EGFR input pair, five ranked models were produced. The folder includes the following files: Files per modeling condition:fold___model_0.cif – 3D structure of the top-ranked model...fold___model_4.cif – 3D structure of rank 5 modelfold__<i>summary_confidences</i>*.json – per-model confidence scores (pLDDT, ipTM, pae_cross)fold__<i>full_data</i>*.json – full model outputs from AlphaFold3NotesFor downstream allosteric modeling with SBSMMA, only one EGFR region per VHH was selected (indicated by the green highlighting in Supplementary Table S2).The EGFR regions used in modeling include:Full extracellular EGFR ("_full")Contiguous domain pairs (EGFR_I_II, EGFR_II_III, EGFR_III_IV)BLI-guided segmental constructs (EGFR_294_543, EGFR_1_294)All models were aligned to the full-length tethered EGFR conformation from Arkhipov et al., 2013. as showed in Figure 2 of the manuscript.
DOI: 10.5281/zenodo.15639872
title: A Relocated Earthquake Catalog (2016–2020) for Lefkada Island (Kefalonia Transform Fault Zone), Greece

description: This repository contains a relocated earthquake catalog of 6773 earthquakes recorded on Lefkada Island between 01/09/2016 and 31/12/2020. Phase arrivals for earthquakes with local magnitudes of M≥2.5 were obtained from the monthly bulletins of the Geophysics Department of the Aristotle University of Thessaloniki (doi:10.7914/SN/HT). For earthquakes with M<2.5, phase arrivals were manually picked by the authors.

The earthquakes were initially relocated using the HYPOINVERSE program (Klein, 2000) and subsequently refined with the hypoDD algorithm (Waldhauser, 2001), incorporating both catalog and waveform cross-correlation differential times (Schaff et al., 2004). A local velocity model from Papadimitriou et al. (2017) was used throughout the relocation process.

The catalog is provided as an 11-column CSV file with the following fields: year, month, day, hour, minute, second, latitude [°N], longitude [°E], depth [km], local magnitude (ML), and event ID. A separate text file lists the sixteen seismic stations used in the relocation.
DOI: 10.5281/zenodo.15639873
title: A Relocated Earthquake Catalog (2016–2020) for Lefkada Island (Kefalonia Transform Fault Zone), Greece

description: This repository contains a relocated earthquake catalog of 6773 earthquakes recorded on Lefkada Island between 01/09/2016 and 31/12/2020. Phase arrivals for earthquakes with local magnitudes of M≥2.5 were obtained from the monthly bulletins of the Geophysics Department of the Aristotle University of Thessaloniki (doi:10.7914/SN/HT). For earthquakes with M<2.5, phase arrivals were manually picked by the authors.

The earthquakes were initially relocated using the HYPOINVERSE program (Klein, 2000) and subsequently refined with the hypoDD algorithm (Waldhauser, 2001), incorporating both catalog and waveform cross-correlation differential times (Schaff et al., 2004). A local velocity model from Papadimitriou et al. (2017) was used throughout the relocation process.

The catalog is provided as an 11-column CSV file with the following fields: year, month, day, hour, minute, second, latitude [°N], longitude [°E], depth [km], local magnitude (ML), and event ID. A separate text file lists the sixteen seismic stations used in the relocation.
DOI: 10.15468/dl.ucsky3
title: Occurrence Download

description: A dataset containing 246 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 {
 "or" : [
 "InstitutionKey is not null",
 "CollectionKey is not null"
 ]
 },
 "BasisOfRecord is one of (Specimen, Fossil, Material sample, Living Specimen, Material citation)"
 ]
 },
 {
 "and" : [
 "InstitutionKey is one of (442fa096-b2bf-4ecc-b513-ae0958eeec25)",
 "BasisOfRecord is one of (Specimen)",
 "TaxonKey is one of (Canis lupus dingo Meyer, 1793, Canis lupus Linnaeus, 1758, Canis Linnaeus, 1758)",
 "Preparations is one of (skull, skeleton)"
 ]
 }
 ]
}

 The dataset includes 246 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040764-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8e4gj2
title: Occurrence Download

description: A dataset containing 87 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eumerus clavatus Becker, 1921"
 ]
}

 The dataset includes 87 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040763-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7btj9m
title: Occurrence Download

description: A dataset containing 488 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eumerus flavitarsis Zetterstedt, 1843"
 ]
}

 The dataset includes 488 records from 50 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040765-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bv3gb5
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Potamogeton nodosus Poir.",
 "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 ((35.6306 -23.844,35.6007 -23.8125,35.6007 -24.0157,35.6306 -23.844))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040768-250525065834625/datasets/export for details.
DOI: 10.15468/dl.wmehqr
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Asterionella formosa Hassall, 1850",
 "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 ((35.628 -23.023,35.6007 -22.9702,35.6007 -23.165,35.628 -23.023))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040767-250525065834625/datasets/export for details.
DOI: 10.15468/dl.68wvgf
title: Occurrence Download

description: A dataset containing 13490 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bairdiella chrysoura (Lacepède, 1802)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is Human Observation",
 "Year is greater than or equal to 2005"
 ]
}

 The dataset includes 13490 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040769-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cugybf
title: Occurrence Download

description: A dataset containing 187 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eumerus grandis Meigen, 1822"
 ]
}

 The dataset includes 187 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040770-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hkjswg
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eumerus longicornis Loew, 1855"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040771-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eaz6va
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Asterionella formosa Hassall, 1850",
 "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 ((35.6306 -23.844,35.6007 -23.8125,35.6007 -24.0157,35.6306 -23.844))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040772-250525065834625/datasets/export for details.
DOI: 10.15468/dl.8rd3ja
title: Occurrence Download

description: A dataset containing 287336 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eristalis tenax (Linnaeus, 1758)"
 ]
}

 The dataset includes 287336 records from 712 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040751-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d3faek
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Liparia laevigata (L.) Thunb.",
 "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 ((30.0251 -31.3959,30.5701 -30.7329,30.5701 -28.5786,25.5395 -28.5786,25.5395 -32.9007,28.2048 -32.9007,28.5753 -32.6569,29.4902 -31.7517,30.0251 -31.3959))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040774-250525065834625/datasets/export for details.
DOI: 10.15468/dl.yggyq6
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Angostura quinquefolia Kallunki"
 ]
}

 The dataset includes 27 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040773-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.avxzna
title: Occurrence Download

description: A dataset containing 102801 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Geranium rotundifolium L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 102801 records from 1437 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040757-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j2yq5g
title: Occurrence Download

description: A dataset containing 792 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carpinus fangiana Hu"
 ]
}

 The dataset includes 792 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032376-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26347501
title: A comprehensive dataset for digital restoration of Dunhuang murals

description: MuralDH Brief Summary The MuralDH dataset is a comprehensive collection of high-quality images for the digital restoration of Dunhuang murals. It includes over 5000 pre-processed images, curated to support research in digital art restoration, computer vision, and cultural heritage preservation. This dataset is divided into segments including damaged mural segmentation, high-resolution mural images, and images processed for super-resolution studies. The collection, designed to assist in the development and testing of digital restoration algorithms, aims to bridge traditional art with modern technology, ensuring the longevity and accessibility of these invaluable cultural treasures.Description of the Data and File Structure The dataset is structured as follows:Damaged Mural Segmentation Dataset: 1000 images annotated for specific types of damage such as cracks, flaking, and fading. Each file is named according to its specific damage type and contains annotations at the pixel level. High-Quality Mural Images: 500 images, each prepared for super-resolution processing. These are lower-resolution images that have been downscaled from the original high-resolution scans. Super-Resolution Dataset: A subset of the High-Quality Mural Images that have been further processed for super-resolution studies. Each image file is stored in PNG format, ensuring high-quality, lossless compression. Files are organized in folders corresponding to their dataset segment, and filenames follow a consistent naming convention to indicate their content and purpose.Missing data or incomplete images are marked with a specific code (e.g., NA for not available) in the accompanying metadata file. This file also provides a detailed description of each image, including its original location, the period it depicts, and any relevant historical or cultural notes.Sharing/Access Information The MuralDH dataset is hosted on Dryad but can also be accessed through the following link for direct download and further information:Data Derivation Sources This dataset was compiled from various sources, including digital archives and collaborations with cultural heritage organizations. Each image has been carefully selected and processed to meet the research needs while adhering to copyright and preservation guidelines.Code/Software The dataset comes with a set of Python scripts for basic image processing tasks, including image resizing, format conversion, and initial analysis.
DOI: 10.15468/dl.pqh95t
title: Occurrence Download

description: A dataset containing 38484981 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Belgium"
 ]
}

 The dataset includes 38484981 records from 1356 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032368-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t5feny
title: Occurrence Download

description: A dataset containing 233 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carya cathayensis Sarg."
 ]
}

 The dataset includes 233 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032377-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.san3dx
title: Occurrence Download

description: A dataset containing 170113 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Netherlands",
 "TaxonKey is Quercus robur L."
 ]
}

 The dataset includes 170113 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032372-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bv54h7
title: Occurrence Download

description: A dataset containing 16806 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carya illinoinensis (Wangenh.) K.Koch"
 ]
}

 The dataset includes 16806 records from 259 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032379-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uuex4n
title: Occurrence Download

description: A dataset containing 34 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "HasCoordinate is true",
 "TaxonKey is Farlowella amazonum (Günther, 1864)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 34 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002536-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r3kk3x
title: Occurrence Download

description: A dataset containing 2753 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Citrus ×limon (L.) Burm.fil."
 ]
}

 The dataset includes 2753 records from 230 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0275215-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bj3j9c
title: Occurrence Download

description: A dataset containing 1143 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Drymodes superciliaris Gould, 1850"
 ]
}

 The dataset includes 1143 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0057285-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uox2if
title: Occurrence Download

description: A dataset containing 34 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "HasCoordinate is true",
 "TaxonKey is Farlowella amazonum (Günther, 1864)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 34 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002529-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7hgrh5
title: Occurrence Download

description: A dataset containing 71 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "VerbatimScientificName is Abies georgei"
 ]
}

 The dataset includes 71 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0228131-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pagdb9
title: Occurrence Download

description: A dataset containing 114 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Pudu mephistophiles (de Winton, 1896)"
 ]
}

 The dataset includes 114 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0061755-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.