cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.bbjh7y
title: Occurrence Download

description: A dataset containing 32624 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Nemacheilus periyarensis, Rhinogobius boa, Rhinogobius variolatus, Rhinogobius virgigena, Rhinogobius sulcatus, Tonlesapia tsukawakii, Sternarchorhynchus gnomus, Moenkhausia petymbuaba, Sternarchorhynchus severii, Sternarchorhynchus caboclo, Cyphocharax derhami, Schistura bannaensis, Hypostomus ericae, Parachondrostoma miegii, Iberochondrostoma oretanum, Betta antoni, Betta krataios, Cyprichromis coloratus, Betta mandor, Betta uberis, Betta compuncta, Betta ideii, Hypostomus waiampi, Malapterurus thysi, Malapterurus punctatus, Malapterurus barbatus, Malapterurus stiassnyae, Hypostomus paucipunctatus, Hypostomus simios, Cotylopus rubripinnis, Craterocephalus laisapi, Lentipes adelphizonus, Sicyopus exallisquamulus, Coregonus baunti, Naziritor zhobensis, Schistura anambarensis, Paraschistura lepidocaulis, Capoeta ekmekciae, Triplophysa hazaraensis, Leiocassis collinus, Odontostilbe ecuadorensis, Triplophysa naziri, Leiocassis tenebricus, Squalius orpheus, Aspidoras psammatides, Apricaphanius saourensis, Amblyceps apangi, Cnesterodon iguape, Psalidodon tumbayaensis, Melanotaenia solata, Scortum neili, Labeo fulakariensis, Schistura fowleriana, Salvelinus curilus, Salvelinus krogiusae, Salvelinus kronocius, Salvelinus kuznetzovi, Salvelinus schmidti, Polynemus kapuasensis, Glyptothorax manipurensis, Astyanax depressirostris, Astyanax microschemos, Deuterodon pelecus, Triportheus orinocensis, Triportheus pantanensis, Triportheus venezuelensis, Triportheus brachipomus, Abbottina binhi, Acheilognathus fasciodorsalis, Acheilognathus imfasciodorsalis, Acrossocheilus baolacensis, Acrossocheilus macrophthalmus, Acrossocheilus yalyensis, Barboides britzi, Hemiculter songhongensis, Hemiculter elongatus, Hemibarbus thacmoensis, Mekongina bibarba, Carassioides argentea, Carassioides macropterus, Danio muongthanhensis, Discogobio caobangi, Discogobio pacboensis, Discogobio dienbieni, Geophagus parnaibae, Hemibarbus lehoai, Hemibarbus songloensis, Placocheilus bibarbatus, Garra imbarbatus, Placogobio bacmeensis, Placogobio nahangensis, Pseudogobio banggiangensis, Pseudohemiculter pacboensis, Sarcocheilichthys caobangensis, Sinilabeo binhluensis, Spinibarbus babeensis, Spinibarbus nammauensis, Spinibarbus ovalius, Tanichthys thacbaensis, Toxabramis hotayensis)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 32624 records from 112 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002037-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18431859
title: Predictors of Thoracic Complications After Bilateral Dia-phragmatic Stripping During Cytoreductive Surgery for Ad-vanced Ovarian Cancer-RAW DATA
DOI: 10.15468/dl.ub8f6s
title: Occurrence Download

description: A dataset containing 3558 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Acrossocheilus spinifer, Sternarchorhynchus curumim, Acrossocheilus malacopterus, Anostomoides passionis, Leporinus platycephalus, Paraprotomyzon niulanjiangensis, Chiloglanis productus, Sineleotris saccharae, Sinilabeo hummeli, Apareiodon vladii, Pimelodus argenteus, Glyptothorax ventrolineatus, Sisor barakensis, Rhabdolichops lundbergi, Rhabdolichops nigrimans, Rhabdolichops navalha, Listrura picinguabae, Leporellus cartledgei, Profundulus oaxacae, Nanochromis wickleri, Raiamas kheeli, Copadichromis chizumuluensis, Copadichromis diplostigma, Copadichromis insularis, Copadichromis cyanocephalus, Copadichromis parvus, Copadichromis melas, Betta pallida, Rubricatochromis, Batasio fasciolatus, Batasio spilurus, Batasio elongatus, Odontostilbe nareuda, Odontostilbe parecis, Hyphessobrycon melanostichos, Hyphessobrycon notidanos, Nandus prolixus, Trichomycterus pauciradiatus, Austrolebias toba, Sinocyclocheilus donglanensis, Hypsolebias janaubensis, Hypsolebias mediopapillatus, Hypsolebias macaubensis, Simpsonichthys virgulatus, Simpsonichthys fasciatus, Simpsonichthys gibberatus, Austrolebias paranaensis, Austrolebias juanlangi, Austrolebias litzi, Austrolebias nachtigalli, Acantopsis multistigmatus, Chitala borneensis, Chitala hypselonotus, Percarina maeotica, Enteromius quadrilineatus, Melanorivulus pinima, Melanorivulus vittatus, Campellolebias intermedius, Crenicichla iguapina, Crenicichla tingui, Capoeta banarescui, Crenicichla maculata, Laimosemion sape, Garra rotundinasus, Ptychochromis onilahy, Ptychochromis makira, Ptychochromis loisellei, Ptychochromis curvidens, Ptychochromis insolitus, Astyanax aramburui, Cyprinodon suavium, Aphyosemion punctulatum, Aphyosemion melanogaster, Niwaella longibarba, Niwaella xinjiangensis, Salvelinus neocomensis, Triplophysa rosa, Xiphophorus kallmani, Tetranematichthys wallacei, Erethistoides infuscatus, Chaetostoma daidalmatos, Chaetostoma stroumpoulos, Pseudophoxinus ninae, Apteronotus magoi, Hyphessobrycon cyanotaenia, Dectobrycon armeniacus, Chaetostoma changae, Guianacara stergiosi, Apteronotus camposdapazi, Ituglanis cahyensis, Guianacara cuyunii, Entomocorus radiosus, Ericymba amplamala, Orestias piacotensis, Leptophilypnus guatemalensis, Leptophilypnus panamensis, Cichla melaniae, Cichla nigromaculata, Rasbora ornata, Cichla kelberi)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3558 records from 89 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002038-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.21227/p3ax-eh55
title: "The dataset for conflict detection in KGs with attributes (TBD manuscript)"

description: "This dataset is a dedicated dataset built from the DWY100K dataset, which has attributes for entities. This dataset includes three datasets from DWY100K, that is, Dbpedia, WikiData, and YAGO3, which provide the original details about entities, relations, and triples. And in order to inject  for detecting conflicts at path granularities in knowledge graphs. Each data set contains an error triple with a path of the format \"entity relation entity label\", a label of 1 indicates that the path contains no erroneous triples, and a label of 0 indicates that the path contains erroneous triples."
DOI: 10.15468/dl.sxm2tv
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Neocalyptrocalyx muco",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 9 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002039-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rb7yrs
title: Occurrence Download

description: A dataset containing 408219 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "Country is Spain",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Gyps fulvus",
 "Year 1906-2025"
 ]
}

 The dataset includes 408219 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002009-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bbuf49
title: Occurrence Download

description: A dataset containing 73922 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is VectorDistributionStatus"
 ]
}

 The dataset includes 73922 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002036-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aefdnv
title: Occurrence Download

description: A dataset containing 150 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "PublishingCountry is one of (Argentina, Falkland Islands (Malvinas), South Georgia and the South Sandwich Islands)",
 {
 "and" : [
 "Country is one of (Argentina, Falkland Islands (Malvinas), South Georgia and the South Sandwich Islands)",
 "HasGeospatialIssue is false"
 ]
 },
 "Geometry POLYGON((-74 -60, -25 -60, -25 -90, -74 -90, -74 -60))"
 ]
 },
 {
 "and" : [
 "TaxonKey is one of (Austrolebias bellottii [GBIF Backbone Taxonomy])",
 "StateProvince is one of (Buenos Aires, Buenos Aires Province, Provincia de Buenos Aires)"
 ]
 }
 ]
}

 The dataset includes 150 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002042-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6ybe4j
title: Occurrence Download

description: A dataset containing 392 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Imparfinis mirini",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 392 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002044-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25345/c57m04d5b
title: MassIVE MSV000100660 - The Amyloid Plaque Proteomes of Alzheimers Disease and Mild Cognitive Impairment
title: Amyloid plaques contain numerous proteins in addition to amyloid beta in Alzheimers disease (AD). Previous localized proteomics identified plaque-associated proteins in late-onset AD, early-onset AD, rapidly progressive AD, preclinical AD, and AD in Down syndrome, although with some studies having smaller cohorts and focused primarily on severe pathology. The amyloid plaque proteome in mild cognitive impairment (MCI) has not been evaluated. We evaluated plaque proteomes in MCI and AD with comparisons to neighboring non-plaque tissue and control non-plaque tissue from ROSMAP (151 cases (n=240 samples); control (n=62), MCI (n=36), AD (n=53)). Tissue was microdissected from autopsy paraffin embedded temporal cortex and analyzed by label-free quantitative proteomics. We identified differentially abundant proteins with robust differences at a false discovery rate (FDR)&lt;5% and fold-change&gt;1.5 for 135 proteins in MCI and 156 in AD plaque tissue compared to neighboring non-plaque tissue, which included proteins described previously as well as novel proteins. Gene ontology (GO) term associations included increased inflammatory response and lysosome proteins in both MCI and AD, and decreased myelin proteins particularly in AD. Of plaque proteins altered in at least one disease group, many changed in the same fold-change direction (p&lt;0.0001, R2=0.53) and there were 100 shared proteins in MCI and AD. In non-plaque tissue, there were 277 differentially abundant proteins in MCI and 177 in AD; associated with structural constituent of chromatin in MCI and negative regulation of DNA recombination and autolysosome in AD, with decreased proteins associated with actin-myosin filament in AD. Weighted gene correlation network analysis (WGCNA) identified proteins associated with pathology and demographics. We have conducted the most extensive proteomics of microdissected plaque proteomes in MCI and AD. Our results provide insights into MCI and AD molecular mechanisms, novel biomarkers, and potential novel therapeutic targets.
DOI: 10.5281/zenodo.18431893
title: Predictors of Thoracic Complications After Bilateral Dia-phragmatic Stripping During Cytoreductive Surgery for Ad-vanced Ovarian Cancer-RAW DATA
DOI: 10.5281/zenodo.18431858
title: Predictors of Thoracic Complications After Bilateral Dia-phragmatic Stripping During Cytoreductive Surgery for Ad-vanced Ovarian Cancer-RAW DATA
DOI: 10.5517/ccdc.csd.cc216zv3
title: CCDC 1883555: Experimental Crystal Structure Determination

description: Related Article: Dylan Amelot, Ammar Hassoun, Lise-Marie Chamoreau, Hani Amouri, Jamal Moussa|2019|Edelweiss Chem Sci J||24|doi:10.33805/2641-7383.106
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc216zw4
title: CCDC 1883556: Experimental Crystal Structure Determination

description: Related Article: Dylan Amelot, Ammar Hassoun, Lise-Marie Chamoreau, Hani Amouri, Jamal Moussa|2019|Edelweiss Chem Sci J||24|doi:10.33805/2641-7383.106
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.18431713
title: Supplementary data for storyline approaches to assess low-likelihood high-impact outcomes under different emission scenarios

description: This dataset contains the supplementary data for a manuscript on storyline approaches to assess low-likelihood high-impact outcomes under different emission scenarios.

The dataset contains estimates of 7-day running mean of daily maximum temperatures (Tx7day), precipitation minus evapotranspiration (P-E), and annual maximum daily maximum precipitation (Rx1day) for the scenarios SSP1-2.6, SSP2-4.5, and SSP3-7.0 for multiple CMIP6 models. Data are available averaged over two different time periods (1995-2014, 2081-2100) and for different storyline approaches (nearest neighbour, warming level, pattern scaling). Additionally, time series of global mean surface air temperature (GSAT) are available.

Ancillary data contain the SREX regions at 1° spatial resolution as well as the five nearest-neighbour models for each SSP-RCP scenario. Note that the nearest-neighbour models available here are calculated based on the full model ensemble, that is without considering potential model interdependencies.
DOI: 10.5281/zenodo.18431714
title: Supplementary data for storyline approaches to assess low-likelihood high-impact outcomes under different emission scenarios

description: This dataset contains the supplementary data for a manuscript on storyline approaches to assess low-likelihood high-impact outcomes under different emission scenarios.

The dataset contains estimates of 7-day running mean of daily maximum temperatures (Tx7day), precipitation minus evapotranspiration (P-E), and annual maximum daily maximum precipitation (Rx1day) for the scenarios SSP1-2.6, SSP2-4.5, and SSP3-7.0 for multiple CMIP6 models. Data are available averaged over two different time periods (1995-2014, 2081-2100) and for different storyline approaches (nearest neighbour, warming level, pattern scaling). Additionally, time series of global mean surface air temperature (GSAT) are available.

Ancillary data contain the SREX regions at 1° spatial resolution as well as the five nearest-neighbour models for each SSP-RCP scenario. Note that the nearest-neighbour models available here are calculated based on the full model ensemble, that is without considering potential model interdependencies.
DOI: 10.5281/zenodo.18352172
title: Supplementary materials: International practices of academic support roles

description: The dataset was prepared for the development of a functional typology of academic support roles for higher education students.
DOI: 10.5281/zenodo.18352173
title: Supplementary materials: International practices of academic support roles

description: The dataset was prepared for the development of a functional typology of academic support roles for higher education students.
DOI: 10.5281/zenodo.18431812
title: WOLBACHIA STRAIN DIFFERENTIATION USING VARIATIONAL AUTOENCODERS

description: ================================================================================WOLBACHIA STRAIN DIFFERENTIATION USING VARIATIONAL AUTOENCODERS================================================================================

This repository contains genomic alignments and VAE analysis results for Wolbachia strain differentiation described in:

Corretto, E., Ragionieri, L., Wolfe, T.M., Palmieri, L., Serbina, L.S., Bruzzese, D.J., Klasson, L., Feder, J.L., Stauffer, C., and Schuler, H. (2026). Interspecific Horizontal Wolbachia Transmission Between Native and Invasive Fruit Flies: Tracing a Rapid Wolbachia Spread in Slow Motion. Current Biology.

================================================================================CONTENTS================================================================================

1. wolbachia_alignment_47genes.phy   - Original PHYLIP alignment of 47 genes across 44 Wolbachia samples   - Format: PHYLIP (sequential)   - Dimensions: 44 samples × 29,991 nucleotide positions   2. wolbachia_47genes_infection_newIDs.txt   - One-hot encoded genomic sequences used for VAE training   - Format: Tab-separated text   - Column 1: Sample identifier   - Column 2: Biological group (CER, CIN, SINGLE)   - Columns 3+: One-hot encoded nucleotide vectors [A,C,G,T]   3. supervised_latent_coordinates.txt   - VAE latent space coordinates from best training run   - Format: Tab-separated text   - Columns: sample, biological_group, latent_dim1, latent_dim2,               silhouette_score, convergence_cv   4. supervised_results_summary.json   - Complete numerical results and metrics from VAE analysis   - Contains: training parameters, separation metrics, all run results   5. publication_figure_biological_groups_edited.pdf   - Publication-quality figure showing strain separation in latent space

================================================================================BIOLOGICAL GROUPINGS================================================================================

Samples are classified into three groups based on infection status:

- CER (n=23): Wolbachia from dual infections in R. cerasi hosts- CIN (n=21): Wolbachia from dual infections in R. cingulata hosts  - SINGLE (n=6): Wolbachia from unusual single infections

================================================================================ANALYSIS SUMMARY================================================================================

Method: Two-stage Variational Autoencoder (VAE)- Stage 1: ~2000 epochs, KL weight = 0.3- Stage 2: ~2000 epochs, KL weight = 1.0- Latent dimensions: 2- Independent runs: 5- Best run silhouette score: 0.3620- Convergence CV: 3.77%

The VAE successfully captured biologically meaningful genetic structure,with infection-based groupings showing strong separation in latent space.

================================================================================
DOI: 10.5281/zenodo.18431813
title: WOLBACHIA STRAIN DIFFERENTIATION USING VARIATIONAL AUTOENCODERS

description: ================================================================================WOLBACHIA STRAIN DIFFERENTIATION USING VARIATIONAL AUTOENCODERS================================================================================

This repository contains genomic alignments and VAE analysis results for Wolbachia strain differentiation described in:

Corretto, E., Ragionieri, L., Wolfe, T.M., Palmieri, L., Serbina, L.S., Bruzzese, D.J., Klasson, L., Feder, J.L., Stauffer, C., and Schuler, H. (2026). Interspecific Horizontal Wolbachia Transmission Between Native and Invasive Fruit Flies: Tracing a Rapid Wolbachia Spread in Slow Motion. Current Biology.

================================================================================CONTENTS================================================================================

1. wolbachia_alignment_47genes.phy   - Original PHYLIP alignment of 47 genes across 44 Wolbachia samples   - Format: PHYLIP (sequential)   - Dimensions: 44 samples × 29,991 nucleotide positions   2. wolbachia_47genes_infection_newIDs.txt   - One-hot encoded genomic sequences used for VAE training   - Format: Tab-separated text   - Column 1: Sample identifier   - Column 2: Biological group (CER, CIN, SINGLE)   - Columns 3+: One-hot encoded nucleotide vectors [A,C,G,T]   3. supervised_latent_coordinates.txt   - VAE latent space coordinates from best training run   - Format: Tab-separated text   - Columns: sample, biological_group, latent_dim1, latent_dim2,               silhouette_score, convergence_cv   4. supervised_results_summary.json   - Complete numerical results and metrics from VAE analysis   - Contains: training parameters, separation metrics, all run results   5. publication_figure_biological_groups_edited.pdf   - Publication-quality figure showing strain separation in latent space

================================================================================BIOLOGICAL GROUPINGS================================================================================

Samples are classified into three groups based on infection status:

- CER (n=23): Wolbachia from dual infections in R. cerasi hosts- CIN (n=21): Wolbachia from dual infections in R. cingulata hosts  - SINGLE (n=6): Wolbachia from unusual single infections

================================================================================ANALYSIS SUMMARY================================================================================

Method: Two-stage Variational Autoencoder (VAE)- Stage 1: ~2000 epochs, KL weight = 0.3- Stage 2: ~2000 epochs, KL weight = 1.0- Latent dimensions: 2- Independent runs: 5- Best run silhouette score: 0.3620- Convergence CV: 3.77%

The VAE successfully captured biologically meaningful genetic structure,with infection-based groupings showing strong separation in latent space.

================================================================================