cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29333543.v2
title: Tectonic movements and monsoons facilitate the spatio-temporal species diversification of a herbivore lineage

description: The Hengduan Mountains (HDM) harbor high species diversity that has been linked with the Cenozoic geodiversity, including active orogenesis and dramatic climate changes. However, our understanding of species diversification patterns in the Mesozoic remains limited. The superfamily Eriophyoidea comprises over 5,000 named species, representing an ancient group of strictly herbivorous mites that can be traced back to the Triassic. In this study, we reconstructed a robust dated phylogenetic tree with 301 eriophyoid mite species, covering six biogeographical regions in China, to explore the diversification mechanism. We found multiple dispersal events among six regions, showing high rates in the Mesozoic while low rates in the Cenozoic. These results are partly in contrast to flora and fauna, which showed high interbioregional dispersal rates between the Tibet-Himalaya-Hengduan and adjacent regions in the Cenozoic. The HDM was inferred as a primary source region of eriophyoid mites and served as museum and cradle. Furthermore, the high diversification of eriophyoid mites is strongly associated with colonization, in situ speciation, and vicariance. These events were likely driven by the Qinling-Dabie orogeny, Yanshan orogeny, the uplifts of HDM, and the establishment of the monsoon system. Moreover, both paleotemperature and elevation have an impact on their diversification. The eriophyoid mite lineage has undergone a rapid diversification since the Cretaceous, which is contemporaneous with the angiosperm radiation. In conclusion, this study illustrates how extant herbivorous mites in regional diversification have been shaped by paleogeographic and paleoclimatic events throughout the Mesozoic to the Cenozoic periods.
DOI: 10.6084/m9.figshare.29333543.v1
title: Tectonic movements and monsoons facilitate the spatio-temporal species diversification of a herbivore lineage

description: The Hengduan Mountains (HDM) harbor high species diversity that has been linked with the Cenozoic geodiversity, including active orogenesis and dramatic climate changes. However, our understanding of species diversification patterns in the Mesozoic remains limited. The superfamily Eriophyoidea comprises over 5,000 named species, representing an ancient group of strictly herbivorous mites that can be traced back to the Triassic. In this study, we reconstructed a robust dated phylogenetic tree with 301 eriophyoid mite species, covering six biogeographical regions in China, to explore the diversification mechanism. We found multiple dispersal events among six regions, showing high rates in the Mesozoic while low rates in the Cenozoic. These results are partly in contrast to flora and fauna, which showed high interbioregional dispersal rates between the Tibet-Himalaya-Hengduan and adjacent regions in the Cenozoic. The HDM was inferred as a primary source region of eriophyoid mites and served as museum and cradle. Furthermore, the high diversification of eriophyoid mites is strongly associated with colonization, in situ speciation, and vicariance. These events were likely driven by the Qinling-Dabie orogeny, Yanshan orogeny, the uplifts of HDM, and the establishment of the monsoon system. Moreover, both paleotemperature and elevation have an impact on their diversification. The eriophyoid mite lineage has undergone a rapid diversification since the Cretaceous, which is contemporaneous with the angiosperm radiation. In conclusion, this study illustrates how extant herbivorous mites in regional diversification have been shaped by paleogeographic and paleoclimatic events throughout the Mesozoic to the Cenozoic periods.
DOI: 10.6084/m9.figshare.29336084
title: Inbreeding coefficients and ROH regions of Teha sheep were analyzed using the Ovine SNP50K Bead Chip

description: Inbreeding coefficients and ROH regions of Teha sheep were analyzed using the Ovine SNP50K Bead Chip
DOI: 10.6084/m9.figshare.29336084.v1
title: Inbreeding coefficients and ROH regions of Teha sheep were analyzed using the Ovine SNP50K Bead Chip

description: Inbreeding coefficients and ROH regions of Teha sheep were analyzed using the Ovine SNP50K Bead Chip
DOI: 10.5281/zenodo.11119013
title: Banknote Authentication based on Intaglio print

description: The dataset comprises six image sections of one genuine and two counterfeit banknote-like specimens. The images were captured at 1200dpi and the sections are each 256x256 pixels in size. The genuine banknote specimen was produced with Intaglio printing and the counterfeits with offset printing processes of varying quality. There are 150 instances for each of the six image sections, with 50 samples of each of the three classes available, so in total almost 900 images are provided.

When using this dataset under the CC BY 4.0 license, cite the following publication:

J. Knaup, C.-A. Holst and V. Lohweg, "Hidden in Plain Sight: Adversarial Attack on Wavelet-Based Banknote Authentication," 2024 IEEE 8th Forum on Research and Technologies for Society and Industry Innovation (RTSI), Milano, Italy, 2024, pp. 560-565, doi: 10.1109/RTSI61910.2024.10761182.

Link to publication: https://ieeexplore.ieee.org/document/10761182
DOI: 10.5281/zenodo.11119014
title: Banknote Authentication based on Intaglio print

description: The dataset comprises six image sections of one genuine and two counterfeit banknote-like specimens. The images were captured at 1200dpi and the sections are each 256x256 pixels in size. The genuine banknote specimen was produced with Intaglio printing and the counterfeits with offset printing processes of varying quality. There are 150 instances for each of the six image sections, with 50 samples of each of the three classes available, so in total almost 900 images are provided.

When using this dataset under the CC BY 4.0 license, cite the following publication:

J. Knaup, C.-A. Holst and V. Lohweg, "Hidden in Plain Sight: Adversarial Attack on Wavelet-Based Banknote Authentication," 2024 IEEE 8th Forum on Research and Technologies for Society and Industry Innovation (RTSI), Milano, Italy, 2024, pp. 560-565, doi: 10.1109/RTSI61910.2024.10761182.

Link to publication: https://ieeexplore.ieee.org/document/10761182
DOI: 10.15468/dl.m4sxn9
title: Occurrence Download

description: A dataset containing 39 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eleocharis limosa (Schrad.) Schult.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((32.064 -28.9416,32.4847 -28.5786,30.5701 -28.5786,30.5701 -30.7329,30.6252 -30.6659,31.4179 -29.4257,31.8178 -29.0299,32.064 -28.9416))"
 ]
}

 The dataset includes 39 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050583-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15680865
title: Replication package for Ticket-Augmented Just-in-Time Defect Prediction

description: The primary goal of bug prediction is to optimize testing efforts by focusing on software fragments, i.e., classes, methods, commits (JIT), or lines of code, most likely to be buggy. However, these predicted fragments already contain bugs. Thus, the current bug prediction approaches support fixing rather than prevention. The aim of this paper is to introduce and evaluate Ticket-Level Prediction (TLP), an approach to identify tickets that will introduce bugs once implemented. We analyze TLP at three temporal points, each point represents a ticket lifecycle stage: Open, In Progress, or Closed. We conjecture that: (1) TLP accuracy increases as tickets progress towards the closed stage due to improved feature reliability over time, and (2) the predictive power of features changes across these temporal points.  Our TLP approach leverages 72 features belonging to six different families: code, developer, external temperature, internal temperature, intrinsic, ticket to tickets, and JIT. Our TLP evaluation uses a sliding-window approach, balancing feature selection and three machine-learning bug prediction classifiers on about 10,000 tickets of two Apache open-source projects. Our results show that TLP accuracy increases with proximity, confirming the expected trade-off between early prediction and accuracy. Regarding the prediction power of feature families, no single feature family dominates across stages; developer-centric signals are most informative early, whereas code and JIT metrics prevail near closure, and temperature-based features provide complementary value throughout. Our findings complement and extend the literature on bug prediction at the class, method, or commit level by showing that defect prediction can be effectively moved upstream, offering opportunities for risk-aware ticket triaging and developer assignment before any code is written.
DOI: 10.5281/zenodo.15681069
title: Replication package for Ticket-Augmented Just-in-Time Defect Prediction

description: The primary goal of bug prediction is to optimize testing efforts by focusing on software fragments, i.e., classes, methods, commits (JIT), or lines of code, most likely to be buggy. However, these predicted fragments already contain bugs. Thus, the current bug prediction approaches support fixing rather than prevention. The aim of this paper is to introduce and evaluate Ticket-Level Prediction (TLP), an approach to identify tickets that will introduce bugs once implemented. We analyze TLP at three temporal points, each point represents a ticket lifecycle stage: Open, In Progress, or Closed. We conjecture that: (1) TLP accuracy increases as tickets progress towards the closed stage due to improved feature reliability over time, and (2) the predictive power of features changes across these temporal points.  Our TLP approach leverages 72 features belonging to six different families: code, developer, external temperature, internal temperature, intrinsic, ticket to tickets, and JIT. Our TLP evaluation uses a sliding-window approach, balancing feature selection and three machine-learning bug prediction classifiers on about 10,000 tickets of two Apache open-source projects. Our results show that TLP accuracy increases with proximity, confirming the expected trade-off between early prediction and accuracy. Regarding the prediction power of feature families, no single feature family dominates across stages; developer-centric signals are most informative early, whereas code and JIT metrics prevail near closure, and temperature-based features provide complementary value throughout. Our findings complement and extend the literature on bug prediction at the class, method, or commit level by showing that defect prediction can be effectively moved upstream, offering opportunities for risk-aware ticket triaging and developer assignment before any code is written.
DOI: 10.15468/dl.57vqgh
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eleocharis limosa (Schrad.) Schult.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((35.5808 -24.13,35.5909 -24.0715,30.5701 -24.0715,30.5701 -28.5786,32.4847 -28.5786,32.55 -28.5222,33.0346 -26.8668,32.9741 -26.7838,33.0415 -26.059,32.9304 -26.0011,32.7994 -26.1281,32.6834 -26.0015,32.813 -25.8728,32.8513 -25.7166,33.3048 -25.3731,35.1489 -24.6699,35.5808 -24.13))"
 ]
}

 The dataset includes 18 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050585-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15680920
title: The CRyPTIC Consortium Dataset

description: This dataset processes all the raw genetics (FASTQ) files using a Mycobacterial pipeline as implemented in an online cloud platform. Whilst the bioinformatics components are similar (e.g. Clockwork remains the variant caller), there are some differences. This version includes all samples for which we expect to have WGS and pDST data.

This dataset contains the high-level data tables produced by the CRyPTIC Consortium. It contains information on a large number of M. tuberculosis complex samples that were collected and collated by the project. In total



53,897 samples have both WGS and pDST data.

An additional 11,945 samples only have pDST data.


Due to the size of some of the data tables, the larger ones are stored as PyArrow parquet files. These can be e.g. loaded using pandas but one ordinarily needs to first install pyarrow using pip.
DOI: 10.15468/dl.jrtmwj
title: Occurrence Download

description: A dataset containing 188816 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Castor fiber Linnaeus, 1758)",
 "Year is one of (2010, 2011, 2012, 2013, 2014, 2015, 2016, 2017, 2018, 2019, 2020, 2021, 2022, 2023)",
 "DecimalLatitude is greater than or equal to 44.95782311925129",
 "DecimalLatitude is less than or equal to 58.30331634439415",
 "DecimalLongitude is greater than or equal to -10.001896207643075",
 "DecimalLongitude is less than or equal to 30.31691447027875",
 "License is one of (CC-BY 4.0, CC-BY-NC 4.0)",
 "Year is not null",
 "HasCoordinate is TRUE",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 188816 records from 250 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050577-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/12193347
title: OBELiX
DOI: 10.24379/rcm.00002606
title: Perspectives on musical care during the beginning of life in the United Kingdom

description: This data set contains responses to two connected mixed-methods surveys on musical care during the beginning of life in the UK. Some data has been redacted to protect respondents’ anonymity.
The surveys are referred to in the paper: Spiro, N., Sanfilippo, K. R. M, Shaughnessy, C., Rowles, M., Coombes, E., Perkins, R., and Tredget, E. (2025), The landscape of musical care during the beginning of life in the United Kingdom: A mixed-methods survey study, BMC Complementary Medicine and Therapies.
DOI: 10.15468/dl.adbbvk
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eleocharis limosa (Schrad.) Schult.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((31.8862 -21.3285,30.5701 -20.3186,30.5701 -24.0715,35.5909 -24.0715,35.6007 -24.0157,35.6007 -23.8125,35.4969 -23.7035,35.6007 -23.165,35.6007 -22.9702,35.227 -22.2482,34.6862 -21.6944,34.013 -21.3095,33.5 -21.1593,32.9675 -21.1092,32.4352 -21.1612,31.8862 -21.3285))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050587-250525065834625/datasets/export for details.
DOI: 10.15468/dl.y7w7nh
title: Occurrence Download

description: A dataset containing 37 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Living Specimen, Occurrence evidence)",
 "Country is China",
 "OccurrenceStatus is Present",
 "TaxonKey is Elephas maximus Linnaeus, 1758"
 ]
}

 The dataset includes 37 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050586-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2sec74
title: Occurrence Download

description: A dataset containing 592 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anabasis salsa (C.A.Mey.) Benth. ex Volkens"
 ]
}

 The dataset includes 592 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050588-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8th4jv
title: Occurrence Download

description: A dataset containing 504832 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Luzula spicata (L.) DC., Myrica gale L., Nardus stricta L., Salix alaxensis (Andersson) Coville, Salix arctophila Cockerell ex A.Heller)",
 "Geometry POLYGON ((-180 45.53015, 180 45.53015, 180 83.62313, -180 83.62313, -180 45.53015))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "CoordinateUncertaintyInMeters is less than or equal to 50000"
 ]
}

 The dataset includes 504832 records from 552 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050578-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s5vxaz
title: Occurrence Download

description: A dataset containing 27857 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tamus communis L."
 ]
}

 The dataset includes 27857 records from 155 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0219676-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.0etniz
title: Occurrence Download

description: A dataset containing 200 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((19.71761 -22.55420,33.78613 -22.55420,33.78613 -16.92920,19.71761 -16.92920,19.71761 -22.55420))",
 "HasCoordinate is true",
 "TaxonKey is Panthera leo (Linnaeus, 1758)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 200 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012043-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s8yt5a
title: Occurrence Download

description: A dataset containing 101259 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Circus aeruginosus (Linnaeus, 1758)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 "Year is less than or equal to 2022",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 101259 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0083636-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m9nqx9
title: Occurrence Download

description: A dataset containing 125159 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON(((5.598907470703125 43.481822852999905,5.511016845703125 43.509717009288075,5.400552749633789 43.51127322324609,5.412139892578125 43.54257572246922,5.4547119140625 43.563476493226595,5.480804443359375 43.61122246320032,5.483551025390625 43.6499881760459,5.503549575805664 43.66644361490711,5.598907470703125 43.66985832954972,5.69091796875 43.70362249839005,5.763702392578124 43.661911057260674,5.79254150390625 43.625141236940564,5.804901123046875 43.601278509333646,5.799407958984375 43.5734266934657,5.76507568359375 43.52565074189047,5.71563720703125 43.52166770320007,5.598907470703125 43.481822852999905)))"
 ]
}

 The dataset includes 125159 records from 387 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008197-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xplckg
title: Occurrence Download

description: A dataset containing 557 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Living Specimen"
 ]
 },
 "Country is Brazil",
 {
 "or" : [
 "Issue is Geodetic datum invalid",
 "Issue is Coordinate rounded",
 "Issue is Geodetic datum assumed WGS84",
 "Issue is Presumed negated latitude",
 "Issue is Recorded date invalid",
 "Issue is Recorded date unlikely",
 "Issue is Taxon match higher rank",
 "Issue is Elevation min max swapped",
 "Issue is Multimedia URI invalid"
 ]
 },
 "HasCoordinate is true",
 "TaxonKey is Theobroma cacao L.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 557 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012048-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ercaqr
title: Occurrence Download

description: A dataset containing 185 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dioon merolae De Luca, Sabato & Vázq.Torres"
 ]
}

 The dataset includes 185 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0153400-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qhsyp6
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Fossil",
 "BasisOfRecord is Living Specimen",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Observation"
 ]
 },
 {
 "or" : [
 "Continent is North America",
 "Continent is South America"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "VerbatimScientificName is Laevicardium substriatum"
 ]
}

 The dataset includes 35 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016472-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ibdx3v
title: Occurrence Download

description: A dataset containing 1000 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "TaxonKey is Stenocercus guentheri (Boulenger, 1885)"
 ]
}

 The dataset includes 1000 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012050-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.