cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.fba75m
title: Occurrence Download

description: A dataset containing 915029 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ethiopia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 915029 records from 471 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018100-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c33kbq
title: Occurrence Download

description: A dataset containing 51046 records in GBIF matching the query:
SELECT "year", countryCode AS countryCode, datasetKey, basisOfRecord, speciesKey, species, family, class, sex, COUNT(*) AS occurrences FROM occurrence WHERE occurrence.occurrencestatus = 'PRESENT' AND continent = 'EUROPE' AND "year" &gt;= 2000 AND speciesKey IN (2978552, 2489005, 3190653, 2498252, 3084923, 2340977, 2706080, 2502792, 3170247, 2440934, 3129663, 2882443, 2437394, 2437399, 3189935, 5828232, 4284921, 2704521, 2482499, 2702865, 5329212, 2225776, 8909595, 8979506, 8971201, 5712056, 2350580, 2350570, 2984306, 6063677, 7287606, 3034825, 3628745, 3642949, 2984537, 7978544, 2891770, 8848208, 2865565, 9799308, 2394486, 8114276, 5855350, 2427091, 5421039, 5420991, 2650436, 2869311, 5289808, 2394604, 2440946, 4264680, 5361785, 5361762, 2433536, 5358460, 2434552, 5219858, 2498305, 2226990, 3086784, 2390064, 4033648, 2870583, 7965247, 2765942, 2227300, 9442269, 5218786, 2362868, 2977647, 2486131, 5824863, 5274863, 5219681, 5219683, 5035187, 5035230, 5035017, 2437450, 2480764, 2443002, 3054399, 6164088, 6247411, 1315391, 5217334) AND occurrence.hasgeospatialissues = FALSE AND occurrence.hascoordinate = TRUE AND (coordinateUncertaintyInMeters &lt;= 10000 OR coordinateUncertaintyInMeters IS NULL) 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 "month" IS NOT NULL AND (occurrence."year" IS NOT NULL AND occurrence.hascoordinate = TRUE) AND NOT GBIF_STRINGARRAYCONTAINS(occurrence.issue, 'TAXON_MATCH_FUZZY', TRUE) AND (occurrence.distancefromcentroidinmeters &gt;= 2000.0 OR occurrence.distancefromcentroidinmeters IS NULL) AND NOT occurrence.basisofrecord IN ('FOSSIL_SPECIMEN', 'LIVING_SPECIMEN') GROUP BY "year", basisOfRecord, datasetKey, countryCode, speciesKey, species, family, class, sex ORDER BY "year" DESC, countryCode ASC

 The dataset's 51046 records were derived from 4287 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018107-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jyebcf
title: Occurrence Download

description: A dataset containing 1085 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lampanyctus festivus Tåning, 1928"
 ]
}

 The dataset includes 1085 records from 51 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005137-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.12605769
title: Microflora Danica

description: This project encompasses additional data files belonging to the Microflora Danica project. The Microflora Danica project encompasses over 10,000 samples from across Denmark, taken between 2019 and 2023 and capturing the habitat types. It provides a reference database of all the microorganisms found in Denmark.

The sequencing data, and metagenome bins (>90 % completeness <5 % contamination) are available in NCBI under bioproject PRJNA1071982. Associated metadata are also available in github (https://github.com/cmc-aau/mfd_wiki).

This project is supported by the Poul Due Jensen/Grundfos foundation.
DOI: 10.5281/zenodo.15524854
title: Microflora Danica

description: Microflora Danica

Scope

Microflora Danica (MFD) is set to create the compendium of the microbial populations of Denmark using 10.000+ metagenomic samples encompassing soils, waters and sediments from natural, agricultural and built environments.

More than 50 subprojects are included in MFD, with various degrees of spatial resolutions, depth of associated data and technical challenges. This wiki is meant to help the researchers in navigating the various subprojects, data and results from MFD.

The first flagship manuscript "Microflora Danica: the atlas of Danish environmental microbiomes" is available as a preprint on bioRxiv. The data are publicly available, its findings can be explored and reproduced starting from The MFD Atlas page of this wiki.

Introduction

Microflora Danica is the Atlas of the enviromental microbiomes of Denmark. It relies upon a large scale dataset encompassing 10,683 shotgun metagenomes, 412 near full-length 16S UMI datasets and 450 bacterial and eukaryotic rRNA operon collections, linked to a detailed 5-level habitat ontology. The manuscript determines that while human-disturbed habitats have high alpha diversity, the same species reoccur, revealing hidden homogeneity and underlining the importance of natural systems for total species (gamma) diversity. In-depth studies of nitrifiers, a functional group closely linked to climate change, challenge existing perceptions regarding habitat preference and discover several novel nitrifiers as more abundant than canonical nitrifiers. Together, the Microflora Danica dataset provides an unprecedented resource and the foundation for answering fundamental questions underlying microbial ecology: what drives microbial diversity, distribution and function.

Data

This project encompasses additional data files belonging to the Microflora Danica project. Here we deopisted:



Metagenomic assemblies.

Metagenome bins (MQ MAGs). 

The MFG (Microflora Global) 16S rRNA gene reference database (unclustered and clustered at 98.7% ANI).

Metagenomic derived 16S rRNA gene fragments derived from the 10km reference grid representative samples.

Genus-aggregated observational tables of the 16S rRNA gene fragments (counts and relative abundance) as well as versions of these subjected to random subsampling without replacement.

OTU tables of the 16S UMI, 16S and 18S sequences from operons. 

Data used in the analysis for evaluation of the effect of drying performed for the agricultural samples. 

Supplementary data for nitrifier analysis (including packages for GraftM).

Supplementary data for metagenomic marker gene analysis (including package for SingleM). 


Other resources

The sequencing data, and metagenome bins (HQ MAGs, >90 % completeness <5 % contamination) are available in NCBI under bioproject PRJNA1071982. Associated metadata are also available in github (https://github.com/cmc-aau/mfd_wiki).The near-full length 16S UMI as well as the near-full length 16S and 18S from the bacterial and eukaryotic operons has also been deposited in GBIF. 

This project is supported by the Poul Due Jensen/Grundfos foundation.
DOI: 10.5281/zenodo.15535748
title: Microflora Danica

description: Microflora Danica

Scope

Microflora Danica (MFD) is set to create the compendium of the microbial populations of Denmark using 10.000+ metagenomic samples encompassing soils, waters and sediments from natural, agricultural and built environments.

More than 50 subprojects are included in MFD, with various degrees of spatial resolutions, depth of associated data and technical challenges. This wiki is meant to help the researchers in navigating the various subprojects, data and results from MFD.

The first flagship manuscript "Microflora Danica: the atlas of Danish environmental microbiomes" is available as a preprint on bioRxiv. The data are publicly available, its findings can be explored and reproduced starting from The MFD Atlas page of this wiki.

Introduction

Microflora Danica is the Atlas of the enviromental microbiomes of Denmark. It relies upon a large scale dataset encompassing 10,683 shotgun metagenomes, 412 near full-length 16S UMI datasets and 450 bacterial and eukaryotic rRNA operon collections, linked to a detailed 5-level habitat ontology. The manuscript determines that while human-disturbed habitats have high alpha diversity, the same species reoccur, revealing hidden homogeneity and underlining the importance of natural systems for total species (gamma) diversity. In-depth studies of nitrifiers, a functional group closely linked to climate change, challenge existing perceptions regarding habitat preference and discover several novel nitrifiers as more abundant than canonical nitrifiers. Together, the Microflora Danica dataset provides an unprecedented resource and the foundation for answering fundamental questions underlying microbial ecology: what drives microbial diversity, distribution and function.

Data

This project encompasses additional data files belonging to the Microflora Danica project. Here we deopisted:



Metagenomic assemblies.

Metagenome bins (MQ MAGs). 

The MFG (Microflora Global) 16S rRNA gene reference database (unclustered and clustered at 98.7% ANI).

Metagenomic derived 16S rRNA gene fragments derived from the 10km reference grid representative samples.

Genus-aggregated observational tables of the 16S rRNA gene fragments (counts and relative abundance) as well as versions of these subjected to random subsampling without replacement.

OTU tables of the 16S UMI, 16S and 18S sequences from operons. 

Data used in the analysis for evaluation of the effect of drying performed for the agricultural samples. 

Supplementary data for nitrifier analysis (including packages for GraftM).

Supplementary data for metagenomic marker gene analysis (including package for SingleM). 


Other resources

The sequencing data, and metagenome bins (HQ MAGs, >90 % completeness <5 % contamination) are available in NCBI under bioproject PRJNA1071982. Associated metadata are also available in github (https://github.com/cmc-aau/mfd_wiki).The near-full length 16S UMI as well as the near-full length 16S and 18S from the bacterial and eukaryotic operons has also been deposited in GBIF. 

This project is supported by the Poul Due Jensen/Grundfos foundation.
DOI: 10.15468/dl.z3rdkx
title: Occurrence Download

description: A dataset containing 1210 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-35.35818 -7.06715,-34.85046 -7.06715,-34.85046 -6.50062,-35.35818 -6.50062,-35.35818 -7.06715))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae",
 "Year 2015-2025"
 ]
}

 The dataset includes 1210 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005124-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zbfs9e
title: Occurrence Download

description: A dataset containing 4596 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Glycosmis Corrêa"
 ]
}

 The dataset includes 4596 records from 104 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001496-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uwexw4
title: Occurrence Download

description: A dataset containing 23350 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Year is greater than or equal to 1981",
 "Year is less than or equal to 2010",
 "HasCoordinate is true",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "VerbatimScientificName is Mercurialis perennis",
 "BasisOfRecord is Human Observation",
 "CoordinateUncertaintyInMeters is less than or equal to 1000"
 ]
}

 The dataset includes 23350 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001495-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.86d3hk
title: Occurrence Download

description: A dataset containing 92304 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amazona amazonica (Linnaeus, 1766)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 92304 records from 210 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011702-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/qnojxm
title: Replication Data for: AI vs. Human Creativity in Lyric Writing A Comparative Analysis of ChatGPT-4o and Mariah Carey

description: This study relies on two ways of quantitative and qualitative analysis to study the lyrics of Carey's ten most popular original songs. The language features, emotional depth and rhetorical skills in the lyrics are evaluated. The results showed that while the AI-generated lyrics showed greater lexical diversity and fluency in reading, they lacked emotional complexity, thematic consistency and rhetorical complexity compared with Carey's work, The study also highlights the dangers of AI replicating the personalization, autobiographical and emotional storytelling that characterizes human songwriting. This research helps us understand the potential and limitations of artificial intelligence in the creative field, and also provides some insight into the future development of AI-assisted songwriting in the music industry.
description: This study relies on two ways of quantitative and qualitative analysis to study the lyrics of Carey's ten most popular original songs. The language features, emotional depth and rhetorical skills in the lyrics are evaluated. The results showed that while the AI-generated lyrics showed greater lexical diversity and fluency in reading, they lacked emotional complexity, thematic consistency and rhetorical complexity compared with Carey's work, The study also highlights the dangers of AI replicating the personalization, autobiographical and emotional storytelling that characterizes human songwriting. This research helps us understand the potential and limitations of artificial intelligence in the creative field, and also provides some insight into the future development of AI-assisted songwriting in the music industry.
description: Python, 3.10 (64-bit)
DOI: 10.21227/6eke-rb86
title: "QRF Dataset"

description: "The QRF dataset is designed to support research in quantum-native photorealistic scene rendering. It consists of high-fidelity 3D indoor and outdoor environments captured from multiple calibrated viewpoints, with detailed annotations of geometry, material properties, and lighting conditions. Each scene is processed into quantum-compatible representations for training and evaluating Quantum Radiance Fields (QRF), which leverage quantum circuits, activation functions, and quantum volume rendering.This dataset serves as a benchmark for evaluating the efficiency and realism of quantum implicit representations. It includes both low-frequency and high-frequency features to challenge classical rendering models and demonstrate the expressive power of quantum processing. The dataset facilitates experimentation in tasks such as view synthesis, radiance prediction, and ray-based integration under a quantum computing paradigm. By providing carefully curated and diverse scene data, the QRF dataset enables rigorous testing of quantum advantages in 3D vision and computational graphics."
DOI: 10.13133/uniroma1/eynpns/krcimr
title: al-Fajr_1-23_1990_TheEnnahdhaMovementIsSubjectedToAWidespreadArrestCampaign_OCR.pdf

description: :unav
DOI: 10.3535/417-vgv-xe8
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/bkn-yms-10n
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/3pn-485-42e
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/b4j-g0v-qtl
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/bzx-s5x-q7s
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/06b-mht-v44
title: Phacops

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nv1-3gy-tem
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ekx-q4j-gz0
title: Balclutha Kirkaldy, 1900

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zw4-1kb-es0
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/wn0-5w7-94r
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zwy-dce-6zg
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/83g-tq4-855
title: Bivalvia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.2732ce
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Lonicera trichosantha trichosantha)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022555-250811113504898/datasets/export for details.
DOI: 10.3535/bn9-dre-lhb
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/dv6-sv2-14h
title: Equus (Equus) caballus Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7cd-ts3-51h
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/vcj-fdl-sq3
title: Isurus

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/922-lc6-34b
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jj0-09h-28j
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/982-tar-gwh
title: Raja

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8pa-dyb-410
title: Eucommia Oliv.

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nkn-cwd-lhc
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xd7-39l-z10
title: †Spirifer Sowerby, 1818

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zk9-7c3-jsc
title: Balclutha Kirkaldy, 1900

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hmm-eew-2ye
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/naq-p90-0lq
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4hp-y42-33x
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/gk7-05d-nk5
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.um5f9b
title: Occurrence Download

description: A dataset containing 519 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Chinese Taipei, Macao, Hong Kong)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Hypericum monogynum"
 ]
}

 The dataset includes 519 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022557-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/tab-31j-fft
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5l2-kxx-rpr
title: Desmanini Thomas, 1912

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/arc-mp0-5yq
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yda-cq5-ex4
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yyb-pnw-3lv
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/1g3-nkz-ste
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/b2e-wlk-elq
title: Soricomorpha Gregory, 1910

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jjs-s5s-25m
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/snt-p9j-fhp
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/735-lr8-zps
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8sj-vsm-qvk
title: Rhinoceros Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/n66-m94-0cx
title: Bison C. H. Smith, 1827

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2xl-wwd-fy5
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/wnn-hwd-zw8
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.d4r9tt
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sesbania sericea",
 "Country is Cuba",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082949-250717081556266/datasets/export for details.