cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.xzhj56
title: Occurrence Download

description: A dataset containing 19687 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is Europe",
 "TaxonKey is Pancratium maritimum L."
 ]
}

 The dataset includes 19687 records from 146 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003952-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5284/1128664
title: Digital Archive from an Archaeological Watching Brief at Hendra, Nansledan, Newquay, Cornwall, March to April 2023

description: This collection consists of images, GIS and site record data from an archaeological watching brief by Museum of London Archaeology (MOLA) Bristol. The work occurred at Hendra, Nansledan, Newquay, Cornwall, from March to April 2023. The watching brief recorded the remains of a Middle Bronze Age hearth complex. The nature of the above ground structure was not established but the surviving elements comprised a shallow terrace in the hillside with a central firepit and numerous post and stake holes around it.
DOI: 10.5281/zenodo.15096519
title: Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy

description: The dataset including all the core genomes, the core genome trees and the gene trees generated in the present study.
DOI: 10.5281/zenodo.15096518
title: Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy

description: The dataset including all the core genomes, the core genome trees and the gene trees generated in the present study.
DOI: 10.5281/zenodo.15096766
title: Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy

description: The dataset including all the core genomes, the core genome trees and the gene trees generated in the present study.
DOI: 10.15468/dl.nrmuhw
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Juniperus brevifolia subsp. maritima R.B.Elias & E.Días",
 "Year 1975-2025"
 ]
}

 The dataset includes 12 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003955-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nx36nv
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Silene uniflora subsp. cratericola (Franco) Franco",
 "Year 1975-2025"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003956-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ycngfs
title: Occurrence Download

description: A dataset containing 189683 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (France, Saint Barthélemy, French Guiana, Guadeloupe, Saint Martin (French part), Martinique, New Caledonia, French Polynesia, Saint Pierre and Miquelon, Réunion, French Southern Territories, Wallis and Futuna, Mayotte)",
 "DatasetKey is The fossil collection (F) of the Muséum national d'Histoire naturelle (MNHN - Paris)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 189683 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003942-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15096712
title: Trechos codificados via Atlas.ti – Estudo sobre inovação pedagógica e metodologias ativas em cursos de Administração no Brasil
title: Coded Excerpts via Atlas.ti – Study on Pedagogical Innovation and Active Learning in Undergraduate Management Education in Brazil

description: Este conjunto de dados contém os trechos extraídos de oito artigos empíricos analisados em estudo qualitativo sobre a implementação de metodologias ativas como inovação pedagógica em cursos de graduação em Administração, à luz das Diretrizes Curriculares Nacionais (DCNs) de 2021. Os dados foram organizados via Atlas.ti e categorizados com base em quatro eixos: Competências, Habilidades e Atitudes (CHA); Práticas Educacionais Profissionais (PEP); Integração entre Teoria e Prática (ITP); e Aprendizagem Ativa e Autonomia Estudantil (APE). O material está em português e é disponibilizado para fins de transparência metodológica, replicação e apoio à pesquisa educacional.
description: This dataset contains coded excerpts extracted from eight empirical articles analyzed in a qualitative study on the implementation of active learning methodologies as pedagogical innovation in undergraduate Business Administration programs in Brazil, based on the 2021 National Curriculum Guidelines (Diretrizes Curriculares Nacionais – DCNs). The excerpts were organized using Atlas.ti and classified according to four analytical categories: Competencies, Skills and Attitudes (CHA); Practice-Based Educational Environments (PEP); Integration of Theory and Practice (ITP); and Active Learning and Student Autonomy (APE). The material is presented in Portuguese and is made openly available for the purposes of methodological transparency, replication, and academic use.
DOI: 10.5281/zenodo.15096713
title: Trechos codificados via Atlas.ti – Estudo sobre inovação pedagógica e metodologias ativas em cursos de Administração no Brasil
title: Coded Excerpts via Atlas.ti – Study on Pedagogical Innovation and Active Learning in Undergraduate Management Education in Brazil

description: Este conjunto de dados contém os trechos extraídos de oito artigos empíricos analisados em estudo qualitativo sobre a implementação de metodologias ativas como inovação pedagógica em cursos de graduação em Administração, à luz das Diretrizes Curriculares Nacionais (DCNs) de 2021. Os dados foram organizados via Atlas.ti e categorizados com base em quatro eixos: Competências, Habilidades e Atitudes (CHA); Práticas Educacionais Profissionais (PEP); Integração entre Teoria e Prática (ITP); e Aprendizagem Ativa e Autonomia Estudantil (APE). O material está em português e é disponibilizado para fins de transparência metodológica, replicação e apoio à pesquisa educacional.
description: This dataset contains coded excerpts extracted from eight empirical articles analyzed in a qualitative study on the implementation of active learning methodologies as pedagogical innovation in undergraduate Business Administration programs in Brazil, based on the 2021 National Curriculum Guidelines (Diretrizes Curriculares Nacionais – DCNs). The excerpts were organized using Atlas.ti and classified according to four analytical categories: Competencies, Skills and Attitudes (CHA); Practice-Based Educational Environments (PEP); Integration of Theory and Practice (ITP); and Active Learning and Student Autonomy (APE). The material is presented in Portuguese and is made openly available for the purposes of methodological transparency, replication, and academic use.
DOI: 10.5281/zenodo.4733775
title: CESBIO ALCD Snow masks

description: "CNES ALCD Snow masks" is a reference dataset for snow masks based on Sentinel-2 (L1C) images.


This dataset has been generated with the Active Learning for Cloud Detection (ALCD) software developed by CNES/Cesbio, that enables to generate any kind of reference mask using satellite images.


This procedure involves between 1 or 2 hours of work to generate each reference image : create reference points on the image ( land, cloud, snow...) manually, do the training (based on Random Forest of OTB) and prediction with ALCD, add new reference points for the most problematic areas, repeat new training/predictions as many times as necessary (usually 3-5 iterations), and finally, do a manual correction of persistent errors.


The dataset contains 10 folders each containing 1 geotiff file (scene) at 20m resolution for 110kmx110km size, 1 quicklook of the scene before and 1 quicklook after classification.


The content of pixels of the geotiff files follows the following naming rule :


     0 = nodata; 3 = Cloud; 5 = Land;  7 = Snow


Format of folder names:


      {location}_{tile}_{YYYMMDD} 


Where tile = reference Sentinel 2 tile (Cesbio post) , YYYYMMDD = date of Sentinel 2 acquisition, location = name of the site (ex: "PYR" = Pyrenees)


Example: PYR_31TCH_20191117
DOI: 10.5281/zenodo.4733776
title: CESBIO ALCD Snow masks

description: "CNES ALCD Snow masks" is a reference dataset for snow masks based on Sentinel-2 (L1C) images.


This dataset has been generated with the Active Learning for Cloud Detection (ALCD) software developed by CNES/Cesbio, that enables to generate any kind of reference mask using satellite images.


This procedure involves between 1 or 2 hours of work to generate each reference image : create reference points on the image ( land, cloud, snow...) manually, do the training (based on Random Forest of OTB) and prediction with ALCD, add new reference points for the most problematic areas, repeat new training/predictions as many times as necessary (usually 3-5 iterations), and finally, do a manual correction of persistent errors.


The dataset contains 10 folders each containing 1 geotiff file (scene) at 20m resolution for 110kmx110km size, 1 quicklook of the scene before and 1 quicklook after classification.


The content of pixels of the geotiff files follows the following naming rule :


     0 = nodata; 3 = Cloud; 5 = Land;  7 = Snow


Format of folder names:


      {location}_{tile}_{YYYMMDD} 


Where tile = reference Sentinel 2 tile (Cesbio post) , YYYYMMDD = date of Sentinel 2 acquisition, location = name of the site (ex: "PYR" = Pyrenees)


Example: PYR_31TCH_20191117
DOI: 10.15468/dl.q7ba3c
title: Occurrence Download

description: A dataset containing 480 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is Europe",
 "Geometry POLYGON((33.37012 57.67197,39.3156 56.14086,42.74852 58.11032,38.38276 62.79233,33.37012 57.67197))",
 "OccurrenceStatus is Present",
 "TaxonKey is Podicipediformes",
 "Year 2000-2025"
 ]
}

 The dataset includes 480 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003958-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8ck34h
title: Occurrence Download

description: A dataset containing 5359345 records in GBIF matching the query:
SELECT
 "year",
 GBIF_MGRSCode(1000, decimalLatitude, decimalLongitude,
 COALESCE(coordinateUncertaintyInMeters, 1000)) AS mgrsCode,
 speciesKey,
 species,
 family,
 COUNT(*) AS n,
 MIN(COALESCE(coordinateUncertaintyInMeters, 1000)) AS minCoordinateUncertaintyInMeters,
 IF(ISNULL(family), NULL, SUM(COUNT(*)) OVER (PARTITION BY family)) AS familyCount
 FROM
 occurrence
 WHERE
 occurrenceStatus = 'PRESENT'
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND level1gid = 'BEL.2_1'
 AND "year" &gt;= 2007
 AND "year" &lt;= 2022
 AND speciesKey IS NOT NULL
 AND decimalLatitude IS NOT NULL
 AND decimalLongitude IS NOT NULL
 AND class = 'Aves'
 AND collectionCode != 'ABV'
 GROUP BY
 "year",
 mgrsCode,
 speciesKey,
 family,
 species
 ORDER BY
 "year" ASC,
 mgrsCode ASC,
 speciesKey ASC

 The dataset's 5359345 records were derived from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003938-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9yxxyy
title: Occurrence Download

description: A dataset containing 8054 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Piculus aurulentus (Temminck, 1821)"
 ]
}

 The dataset includes 8054 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003959-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.unhwx3
title: Occurrence Download

description: A dataset containing 101538 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Muskrat captures in Flanders, Belgium",
 "GadmGid is BEL.2_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Ondatra zibethicus (Linnaeus, 1766)"
 ]
}

 The dataset includes 101538 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003953-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/wr9ctpc6jj
title: SIRT1-FOXO3 Pathway reprograms fatty acid metabolism to Mitigate Ferroptosis and Fibrosis

description: Targeting ferroptosis with reductive agents has emerged as a promising strategy to mitigate fibrotic diseases in various pathological conditions. However, while the NAD+/NADH redox pair plays a crucial role in biological processes, its connection to ferroptosis beyond FSP1 remains poorly understood. To explore underappreciated NAD+/NADH-dependent factors in the ferroptosis cascade, we conducted a compound screening of 138 NAD+ enzyme modulatory molecules and identified Sirtuin-1 (SIRT1) activators as critical regulators of ferroptosis. SIRT1 activators, such as SRT1720, broadly inhibit ferroptosis by reducing lipid peroxidation without affecting labile iron levels. Moreover, SRT1720 effectively alleviates pulmonary and liver fibrosis in mouse models. Using ChIP-seq and validation assays, we demonstrated that FOXO3 binds to gene loci involved in fatty acid elongation and arachidonic acid metabolism in ferroptosis. SRT1720 disrupts this binding, thereby restraining fatty acid metabolism and limiting lipid peroxides production. Our findings establish the SIRT1-FOXO3 axis as a key inhibitory pathway against ferroptosis and highlight its therapeutic potential for ferroptosis-associated diseases, including fibrosis.
DOI: 10.17632/wr9ctpc6jj.1
title: SIRT1-FOXO3 Pathway reprograms fatty acid metabolism to Mitigate Ferroptosis and Fibrosis

description: Targeting ferroptosis with reductive agents has emerged as a promising strategy to mitigate fibrotic diseases in various pathological conditions. However, while the NAD+/NADH redox pair plays a crucial role in biological processes, its connection to ferroptosis beyond FSP1 remains poorly understood. To explore underappreciated NAD+/NADH-dependent factors in the ferroptosis cascade, we conducted a compound screening of 138 NAD+ enzyme modulatory molecules and identified Sirtuin-1 (SIRT1) activators as critical regulators of ferroptosis. SIRT1 activators, such as SRT1720, broadly inhibit ferroptosis by reducing lipid peroxidation without affecting labile iron levels. Moreover, SRT1720 effectively alleviates pulmonary and liver fibrosis in mouse models. Using ChIP-seq and validation assays, we demonstrated that FOXO3 binds to gene loci involved in fatty acid elongation and arachidonic acid metabolism in ferroptosis. SRT1720 disrupts this binding, thereby restraining fatty acid metabolism and limiting lipid peroxides production. Our findings establish the SIRT1-FOXO3 axis as a key inhibitory pathway against ferroptosis and highlight its therapeutic potential for ferroptosis-associated diseases, including fibrosis.
DOI: 10.5066/p9vjmipo
title: Fish eggs collected in the St. Clair, Detroit, and St. Marys rivers, 2005-2018

description: A long-term, multiseason, fish egg sampling program is conducted annually on the Detroit, Saint Clair, and Saint Marys rivers to identify where productive fish spawning habitat currently exists. Egg mats were placed on the river bottom during the spring and fall at historic spawning areas, candidate fish spawning habitat restoration sites, and completed spawning habitat restoration sites throughout the rivers. Widespread evidence was found of lithophilic spawning by numerous native fish species, including walleye (Sander vitreus), lake whitefish (Coregonus clupeaformis), lake sturgeon (Acipenser fulvescens), suckers (Catostomidae spp.), and trout-perch (Percopsis omiscomaycus). The data describe the number, density, date of collection, and exact collection location of fish eggs collected in the St. Clair (2010-2018), Detroit (2005-2018), and St. Marys rivers (2018).
DOI: 10.17632/x6kkjp7xyv.1
title: CITE-seq data from Domizi, P et al. Nat Commun. 2025. IKAROS facilitates antigen escape in the face of CD19- and CD22-targeted therapies for B-cell malignancies.

description: Single cell RNA and antibody tag sequencing data from healthy BM and B-ALL PDX samples from pre- or post- CD19-directed CAR T cells (Patient ID: CR2, CR4, CR6, Neg2, Neg5, Neg11).
Samples were thawed and rested at 37 °C for 30 min. Then cells were filtered through cell strainer size 35 µm and centrifuged at 350g for 5 min. Cells were resuspended in 1 ml of Stain Buffer (BD Biosciences) and blocking was performed with Human Fc Block (BD Biosciences) following the manufacturer's instructions. To enrich for Lin−/ B+ fraction, samples were incubated with biotin-conjugated antibodies (Supplementary Table 3) for 30 min. Cells were washed with Stain Buffer and then incubated with BD Streptavidin Particles Plus (BD Biosciences) at the manufacturer's recommended concentration for 30 min at RT. Particle-labeled cells were placed in a magnetic holder for 6 min. The supernatant was transferred to a new tube and placed back in the magnetic holder for an additional round of depletion and supernatant recovery. Cells from the supernatant were then pelleted by centrifugation at 350g for 5 min. 

Lin-/ B+ fraction was resuspended in 180 µl of Stain Buffer supplemented with a mix of BD AbSeq oligo conjugated antibodies against CD19, CD20, CD24, CD34, CD38, CD45, CD127, and IgM (BD Biosciences, Supplementary Table 3). Then, each sample was labelled with the Human Single Cell Sample Multiplexing kit (BD Biosciences) and incubated at RT for 30 min. Cells were washed twice with Stain Buffer and resuspended in Sample Buffer (BD Biosciences). Cell number was counted with Countess II Cell Counter (Thermo Fisher Scientific). A total of 50,000 cells (12,500 cells per sample, up to 4 samples) were pooled together, and single cells were isolated in a BD Rhapsody cartridge using BD Rhapsody Express Single-Cell Analysis System (BD Biosciences). We included one healthy BM reference sample within each cartridge to control for batch effects. A total of 3 cartridges were used in this study. For each cartridge, we followed the manufacturer’s instructions to prepare whole transcriptomic, antibody tag, and sample tag libraries using the Whole Transcriptome Analysis (WTA) Amplification Kit (BD Biosciences). Libraries from the same cartridge were indexed with identical Illumina sequencing adapters. Final libraries were pooled together sequencing on a NovaSeq 6000 sequencer (Illumina) at MedGenome (Foster City, CA, USA) with paired-end 100 base pair (bp) reads. Fastq files were processed through the Rhapsody analysis pipeline (BD Biosciences) on the Seven Bridges platform (https://www.sevenbridges.com) following the manufacturer’s recommendations. Reads were mapped to the hg38 reference genome using bowtie2. Files deposited here contain expression matrices of recursive substation error correction (RSEC) adjusted molecule counts per cell in a CSV format.
DOI: 10.15468/dl.qhsedr
title: Occurrence Download

description: A dataset listing the 307 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-73.97977 40.66381,-73.97942 40.65893,-73.97166 40.64982,-73.96026 40.65447,-73.96014 40.66316,-73.96249 40.67251,-73.96708 40.67392,-73.97037 40.67662,-73.97219 40.67333,-73.97977 40.66381))",
 "Month is one of (March, April)",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset's 307 records were derived from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003951-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yj9kr4
title: Occurrence Download

description: A dataset listing the 256 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-73.93762 40.86199,-73.94096 40.85559,-73.93814 40.85585,-73.93236 40.85676,-73.92931 40.8616,-73.92335 40.86739,-73.91734 40.86921,-73.91572 40.87451,-73.91418 40.87875,-73.91618 40.88177,-73.92293 40.88174,-73.92889 40.87685,-73.93331 40.86799,-73.93762 40.86199))",
 "Month is one of (March, April)",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset's 256 records were derived from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003954-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6efuhs
title: Occurrence Download

description: A dataset containing 27403 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Acris crepitans Baird, 1854)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 27403 records from 48 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003960-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6tvbfp
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Stalita taenaria Schiødte, 1847"
 ]
}

 The dataset includes 32 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003961-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15096757
title: Processed Data for RegDiffusion-SCENIC pipeline

description: Processed mice lung dataset from GSE276682 (Wu, 2025). This data includes a control group (n=3) and an intervention group (n=3). In the intervention group, mices were administered with intraperitoneal injection of 30mg/ml lipopolysaccharide (LPS) in saline to induce acute lung injury.

The raw FASTQ data was processed with cellranger to generate expression matrix. The count matrix was then processed following standard scanpy procedure and we focused on genes expressed in at least 5 cells. The input data has 55,129 cells and 3,701 genes. 

It's used in the tutorial "Fast SCENIC GRN Analysis with RegDiffusion".

Wu, M., Wang, S., Chen, X., Shen, L., Ding, J., Jiang, H., 2025. Single-cell transcriptome analysis reveals cellular reprogramming and changes of immune cell subsets following tetramethylpyrazine treatment in LPS-induced acute lung injury. PeerJ 13, e18772. https://doi.org/10.7717/peerj.18772