cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.15724264
title: Understanding the Teaching and Practice of UML: Insights from Brazil and Portugal

description:  Context: The Unified Modeling Language (UML) has been a foundational component of software engineering education for decades. However, the increasing adoption of agile methodologies and the emphasis on lean documentation have raised questions about the practical relevance and usage of UML in industry. Understanding the gap between academic instruction and professional practice is critical to improving modeling education and supporting meaningful software design. Goal: This study aims to investigate how UML is currently taught in academic settings and how it is adopted in professional environments, comparing perspectives from Brazil and Portugal. The objective is to identify alignment or misalignment between education and industry needs and provide actionable insights to improve modeling practices.  Method: We conducted two structured surveys: one with 80 instructors from higher education institutions and another with 206 software practitioners. The study employed a mixed-methods approach, combining descriptive statistics for quantitative data and Grounded Theory techniques for qualitative analysis of open-ended responses. Results: The findings show that UML is primarily taught using a subset of diagrams—namely class, use case, and sequence diagrams within traditional Software Engineering courses. In contrast, practitioners report limited use of UML in real projects, often constrained by agile workflows, lack of tool support, or perceived complexity. While educators emphasize UML's value for abstraction and documentation, professionals favor practical communication tools and simplified modeling practices. Conclusions: There is a significant gap between how UML is taught and how it is used in practice. To bridge this divide, modeling education should incorporate agile-compatible strategies, emphasize practical tool use, and focus on diagram types most relevant to industry. These adjustments may foster better preparation of students for the realities of software development and promote more effective use of UML in professional settings.
DOI: 10.5281/zenodo.15724265
title: Understanding the Teaching and Practice of UML: Insights from Brazil and Portugal

description:  Context: The Unified Modeling Language (UML) has been a foundational component of software engineering education for decades. However, the increasing adoption of agile methodologies and the emphasis on lean documentation have raised questions about the practical relevance and usage of UML in industry. Understanding the gap between academic instruction and professional practice is critical to improving modeling education and supporting meaningful software design. Goal: This study aims to investigate how UML is currently taught in academic settings and how it is adopted in professional environments, comparing perspectives from Brazil and Portugal. The objective is to identify alignment or misalignment between education and industry needs and provide actionable insights to improve modeling practices.  Method: We conducted two structured surveys: one with 80 instructors from higher education institutions and another with 206 software practitioners. The study employed a mixed-methods approach, combining descriptive statistics for quantitative data and Grounded Theory techniques for qualitative analysis of open-ended responses. Results: The findings show that UML is primarily taught using a subset of diagrams—namely class, use case, and sequence diagrams within traditional Software Engineering courses. In contrast, practitioners report limited use of UML in real projects, often constrained by agile workflows, lack of tool support, or perceived complexity. While educators emphasize UML's value for abstraction and documentation, professionals favor practical communication tools and simplified modeling practices. Conclusions: There is a significant gap between how UML is taught and how it is used in practice. To bridge this divide, modeling education should incorporate agile-compatible strategies, emphasize practical tool use, and focus on diagram types most relevant to industry. These adjustments may foster better preparation of students for the realities of software development and promote more effective use of UML in professional settings.
DOI: 10.34740/kaggle/dsv/13964190
title: Dataset jadwal event lariku.info
DOI: 10.17026/ar/ic777y
title: PAN-00094597 - coin/coin-related, Victorinus (269-271), aureus

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00094597&lt;/p&gt;
description: Modified: 2025-07-29T08:25:32+02:00
DOI: 10.15468/dl.qecj9w
title: Occurrence Download

description: A dataset containing 2802 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Germany",
 "TaxonKey is Ceriagrion tenellum"
 ]
}

 The dataset includes 2802 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023280-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17795365
title: Conceptual Framework for a Selective Prion-Targeting Small-Molecule Therapeutic: Molecular-Level Degradation of PrP\( ^{\text{Sc}} \) While Preserving Neuronal Proteome Integrity

description: Prion diseases, including transmissible spongiform encephalopathies (TSEs) such as Creutzfeldt-Jakob disease (CJD), are fatal neurodegenerative disorders arising from the templated misfolding of cellular prion protein (PrP\( ^{\text{C}} \)) into the \( \beta \)-sheet-enriched, pathogenic PrP\( ^{\text{Sc}} \) isoform. No effective treatments exist. We present a computational framework for PrionX-1, a bifunctional proteolysis-targeting chimera (PROTAC) that selectively recruits the ubiquitin-proteasome system to degrade PrP\( ^{\text{Sc}} \) aggregates while sparing PrP\( ^{\text{C}} \) and maintaining neuronal proteome homeostasis. Employing density functional theory (DFT) via PySCF, molecular dynamics (MD) simulations with SciPy, and Bayesian inference incorporating Markov chain Monte Carlo (MCMC) with Sobol sensitivity analysis, PrionX-1 integrates an efavirenz-derived warhead (PubChem CID: 64139) with a cereblon E3 ligase recruiter linked by polyethylene glycol. It exploits conformational differences in residues 89--140, yielding a binding free energy \( \Delta G_{\text{bind}} = -11.8 \) kcal mol\( ^{-1} \) and 3.9:1 isoform selectivity, with simulated 79% PrP\( ^{\text{Sc}} \) reduction. Validation includes RDKit-derived physicochemical descriptors (efavirenz moiety: LogP=4.073; MW=315.678 Da), empirical benchmarks, global sensitivity (\( S_T^\beta=0.62 \)), uncertainty propagation (posterior mean \( \mu=0.644 \), 95% highest density interval [0.550, 0.733]), and falsifiability criteria (\( p<0.01 \)). This rigorous integration of computational pharmacology, structural virology, and statistical inference advances isoform-selective therapeutics for prion diseases.
DOI: 10.17026/ar/bu8796
title: PAN-00006563 - coin/coin-related, Constans (337-350), nummus

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00006563&lt;/p&gt;
description: Modified: 2025-05-26T11:01:46+02:00
DOI: 10.6069/x3e2-eg34
title: The retina in young P23H retinitis pigmentosa mice overexpresses critical components of synaptic transmission

description: Homeostatic plasticity in the retina has been demonstrated using an established mouse model of Retinitis Pigmentosa caused by the P23H mutation in rhodopsin. While signaling between the sensory rod photoreceptors and rod bipolar cells is potentiated in the P23H/Gnat2-/- mice, the molecular mechanisms of homeostatic plasticity in the retina’s ribbon synapses have remained largely unknown. Furthermore, little data exists whether homeostatic plasticity occurs primarily in the presynaptic (rods) or postsynaptic (RBC) site, or both. We investigated these issues by using scRNA-seq, immunohistochemistry, and bulk retina proteomics. We show that critical components of synaptic transmission, such as SNARE complex proteins, are overexpressed in rod synaptic terminals. Additionally, we found upregulation of transsynaptic complex proteins that are relevant in the rod-RBC synapse. These results suggest that the primary homeostatic plasticity mechanism in P23H/Gnat2-/-mouse rod-RBC synapse is presynaptic scaling, but postsynaptic scaling at the RBC dendrites could also play a role in maintaining the signal transfer at the rod-RBC synapse during photoreceptor degenerative disease.
DOI: 10.17026/ar/uw8y05
title: PAN-00146739 - terra sigillata plate type Drag. 18/31 and 31

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00146739&lt;/p&gt;
description: Modified: 2025-09-01T15:55:09+02:00
DOI: 10.15468/dl.67dmb2
title: Occurrence Download

description: A dataset containing 429022 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "OccurrenceStatus is Present",
 "TaxonKey is Conistra"
 ]
}

 The dataset includes 429022 records from 396 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023276-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8ckmdg
title: Occurrence Download

description: A dataset containing 103015 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Megascops choliba"
 ]
}

 The dataset includes 103015 records from 429 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023255-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qkueud
title: Occurrence Download

description: A dataset containing 26814 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tracheophyta",
 "DecimalLatitude is greater than or equal to 39.085278",
 "DecimalLatitude is less than or equal to 44.085278",
 "DecimalLongitude is greater than or equal to 30.0",
 "DecimalLongitude is less than or equal to 35.0",
 "HasCoordinate is TRUE",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 26814 records from 109 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023283-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/ho44fv
title: PAN-00106007 - coin/coin-related, Tetricus I (271-274), naar, antoninianus

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00106007&lt;/p&gt;
description: Modified: 2025-06-02T07:28:02+02:00
DOI: 10.34740/kaggle/dsv/13964217
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.15468/dl.pd8mms
title: Occurrence Download

description: A dataset containing 37292 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Marmota monax",
 "Year 1847-2025"
 ]
}

 The dataset includes 37292 records from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023284-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15785/sbgrid/1232
title: X-Ray Diffraction data from Rv0097 with 5mM CADA and 5 mM aKG soaked, source of 9PCO structure

description: Native dataset
DOI: 10.18112/openneuro.ds006461.v1.0.0
title: Thesaurus Dataset - Semantic Mnemonic Similarity Task (sMST) fMRI data
DOI: 10.17026/ar/s3gacg
title: PAN-00169612 - colour-coated beaker type Stuart 2

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00169612&lt;/p&gt;
description: Modified: 2025-05-02T08:57:25+02:00
DOI: 10.15468/dl.9ccar7
title: Occurrence Download

description: A dataset containing 4514 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "DatasetKey is EOD – eBird Observation Dataset",
 "DistanceFromCentroidInMeters 0.0-5000.0",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Repatriated is false",
 "TaxonKey is Passeriformes",
 "Year 1990-2025"
 ]
}

 The dataset includes 4514 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023285-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/vximpe
title: PAN-00176014 - brooch Almgren 16

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00176014&lt;/p&gt;
description: Modified: 2025-08-12T12:22:17+02:00
DOI: 10.5281/zenodo.17795383
title: Acidification effects on Ammonia oxidation
DOI: 10.5281/zenodo.17795382
title: Acidification effects on Ammonia oxidation
DOI: 10.15468/dl.63yksw
title: Occurrence Download

description: A dataset containing 50 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Leila esula"
 ]
}

 The dataset includes 50 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023287-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/d9qmws
title: PAN-00105091 - coin/coin-related, Constantinus I en zonen (306-361), naar, nummus

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00105091&lt;/p&gt;
description: Modified: 2025-05-12T12:17:22+02:00
DOI: 10.17026/dans-xeq-ycte
title: PAN-00140502 - terra sigillata plate type Drag. 18/31

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00140502&lt;/p&gt;
description: Modified: 2025-09-09T10:56:13+02:00
DOI: 10.15468/dl.we2y5j
title: Occurrence Download

description: A dataset listing the 7 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-74.5 3.572,-73.88 3.572,-73.88 4.282,-74.5 4.282,-74.5 3.572))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Berberis"
 ]
}

 The dataset's 7 records were derived from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023282-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vdzmqt
title: Occurrence Download

description: A dataset containing 193 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Ashmeadiella difugita"
 ]
}

 The dataset includes 193 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023289-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/ulouch
title: PAN-00128151 - multipartite belt fastening with plate B

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00128151&lt;/p&gt;
description: Modified: 2025-08-18T15:00:45+02:00
DOI: 10.5281/zenodo.17783337
title: Toy CAMI-II Marine 100 genomes (Leviathan)

description: CAMI-II_Marine_n-100.tar.gz contains the processed data for CAMI II subset:



analysis├── checkm2_output.tsv.gz└── pykofamsearch_output.pathways.tsv.gz

sample_0├── contig_to_genome.tsv.gz├── contig_to_pangenome.tsv.gz├── genome_to_pangenome.tsv.gz├── genome_to_sample.tsv.gz├── genome_to_taxid.tsv.gz├── genome_to_taxonomy.tsv.gz├── genomes├── identifier_mapping.contigs.tsv.gz├── identifier_mapping.genomes.tsv.gz├── identifier_mapping.pangenomes.tsv.gz├── protein_to_genome.tsv.gz├── protein_to_pangenome.tsv.gz└── reads

sample_1...sample_8

The reads/ directory contains `reads_1.fastq.gz`, `reads_2.fastq.gz` and `read_to_genome.tsv.gz`

The genomes directory contains .fa, .ffn. .faa, and .gff files



CAMI-II_Marine_n-100.leviathan_database.no_pangenomes.tar.gz contains a Leviathan database WITHOUT genome clusters

CAMI-II_Marine_n-100.leviathan_database.with_pangenomes.tar.gz contains a Leviathan database WITH genome clusters


See https://gitub.com/jolespin/leviathan for details on database
DOI: 10.5281/zenodo.17783338
title: Toy CAMI-II Marine 100 genomes (Leviathan)

description: CAMI-II_Marine_n-100.tar.gz contains the processed data for CAMI II subset:



analysis├── checkm2_output.tsv.gz└── pykofamsearch_output.pathways.tsv.gz

sample_0├── contig_to_genome.tsv.gz├── contig_to_pangenome.tsv.gz├── genome_to_pangenome.tsv.gz├── genome_to_sample.tsv.gz├── genome_to_taxid.tsv.gz├── genome_to_taxonomy.tsv.gz├── genomes├── identifier_mapping.contigs.tsv.gz├── identifier_mapping.genomes.tsv.gz├── identifier_mapping.pangenomes.tsv.gz├── protein_to_genome.tsv.gz├── protein_to_pangenome.tsv.gz└── reads

sample_1...sample_8

The reads/ directory contains `reads_1.fastq.gz`, `reads_2.fastq.gz` and `read_to_genome.tsv.gz`

The genomes directory contains .fa, .ffn. .faa, and .gff files



CAMI-II_Marine_n-100.leviathan_database.no_pangenomes.tar.gz contains a Leviathan database WITHOUT genome clusters

CAMI-II_Marine_n-100.leviathan_database.with_pangenomes.tar.gz contains a Leviathan database WITH genome clusters


See https://gitub.com/jolespin/leviathan for details on database
DOI: 10.5281/zenodo.17795271
title: Materials associated with "The Stochastic Siren: Astrophysical Gravitational-Wave Background Measurements of the Hubble Constant"
DOI: 10.5281/zenodo.17795272
title: Materials associated with "The Stochastic Siren: Astrophysical Gravitational-Wave Background Measurements of the Hubble Constant"
DOI: 10.15785/sbgrid/1226
title: X-Ray Diffraction data from Rv0097 F102Y variant in apo state, source of 9PBJ structure

description: Native dataset
DOI: 10.15468/dl.m4ftfj
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Chalcosyrphus anomalus"
 ]
}

 The dataset includes 17 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023290-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kuf47b
title: Occurrence Download

description: A dataset containing 31 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Platycheirus sabulicola"
 ]
}

 The dataset includes 31 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023292-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/e6286v
title: PAN-00178913 - iron nail general

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00178913&lt;/p&gt;
description: Modified: 2025-08-29T17:07:20+02:00
DOI: 10.15468/dl.66rr9s
title: Occurrence Download

description: A dataset containing 1712948 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Apis mellifera, Bombus terrestris, Bombus pascuorum, Episyrphus balteatus, Vanessa atalanta, Eucera longicornis, Andrena hattorfiana, Bombus muscorum, Andrena lapponica, Pyrgus malvae, Xylocopa violacea, Anthidium florentinum)"
 ]
}

 The dataset includes 1712948 records from 185 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023281-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.20383/103.01526
title: Newfoundland and Labrador Breast Screening (NLBS) Dataset (NL-Breast-Screen)

description: A dataset from a breast cancer screening program, consisting of mammography images from patient exams as well as the associated meta-data, including radiologists readings which are biopsy confirmed for positives and shown cancer-free for two years after the reading. Highly suited for machine learning training for classification of mammography images.
DOI: 10.5281/zenodo.17795226
title: Engineered 2D and 3D Synovial Fibroblast Systems Profiled by Spatial Transcriptomics

description: micromass_xenium.RDS

Spatial Seurat object containing 11 samples from 3D synovial fibroblast micromass organoids profiled with a custom Xenium panel at four timepoints (day 4, 7, 14, 21).

Metadata includes:



sample_id — unique micromass sample identifier

day — collection timepoint (d4, d7, d14, d21)

type — annotated fibroblast cell state

x,y – coordinates


2D_density_xenium.RDS

Spatial Seurat object containing engineered 2D fibroblast density-gradient experiments cell line profiled using a custom Xenium panel.

Metadata includes:



type_Banksy — spatially informed cell state annotation generated using BANKSY clustering

x, y — spatial coordinates of each segmented cell
DOI: 10.5281/zenodo.17795225
title: Engineered 2D and 3D Synovial Fibroblast Systems Profiled by Spatial Transcriptomics

description: micromass_xenium.RDS

Spatial Seurat object containing 11 samples from 3D synovial fibroblast micromass organoids profiled with a custom Xenium panel at four timepoints (day 4, 7, 14, 21).

Metadata includes:



sample_id — unique micromass sample identifier

day — collection timepoint (d4, d7, d14, d21)

type — annotated fibroblast cell state

x,y – coordinates


2D_density_xenium.RDS

Spatial Seurat object containing engineered 2D fibroblast density-gradient experiments cell line profiled using a custom Xenium panel.

Metadata includes:



type_Banksy — spatially informed cell state annotation generated using BANKSY clustering

x, y — spatial coordinates of each segmented cell
DOI: 10.17026/ar/oubq8x
title: PAN-00012096 - finger ring with equal decoration elements all around

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00012096&lt;/p&gt;
description: Modified: 2025-08-28T15:45:10+02:00
DOI: 10.15468/dl.bmuzqn
title: Occurrence Download

description: A dataset listing the 268 species recorded in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Colombia",
 "Geometry POLYGON((-76.7063 2.83878,-76.78724 2.81673,-76.80748 2.70281,-76.74125 2.6679,-76.61801 2.64401,-76.50211 2.68627,-76.51499 2.77447,-76.56282 2.84796,-76.7063 2.83878))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Plantae"
 ]
}

 The dataset's 268 records were derived from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023288-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.auy8y4
title: Occurrence Download

description: A dataset containing 49 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Pacifastacus fortis, Astacus nigrescens fortis, Astacus nigrescens)"
 ]
}

 The dataset includes 49 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023295-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.