cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.8235479
title: Phmamm-8 (previously published as Astec-Pm8; Wild type <i>Phallusia mammillata</i> embryo, live SPIM imaging, stages 8-14)

description: <b>Phmamm-8 (</b><b>previously published as Astec-Pm8</b><b>)</b><br><b>Organism:</b> <i>Phallusia mammillata</i> (Phlebobranch ascidian).<br><br><b>Description: </b><br>This dataset contains live imaging data of embryonic development in <i>Phallusia mammillata</i>. Cell membranes were fluorescently labeled by microinjection of mRNA encoding PH-citrine into unfertilized eggs.<br><br><b>Imaging conditions:</b><br>The embryo has been live imaged with a MuVi-SPIM light-sheet microscope from the 64-cell stage (Tp 1, St. 8, 4hpf) up to the early neurula (Tp 88, St. 14) every 2 minutes at 18°C in artificial seawater (ASW, salinity: 38 ppt). <br><b>Temporal alignment:</b><br>Embryonic development in <i>Phallusia mammillata</i> shows natural variability in timing between individuals, even under similar conditions. To enable direct comparison across datasets, developmental time was normalized based on cell number. Among the available acquisitions, <b>Phmamm-8 was chosen as the reference embryo</b>, and its timeline was used to align other embryos by rescaling their time post-fertilization (tpf) and acquisition intervals. Phmamm-8 thus serves as the temporal reference for the entire collection of ascidian embryo datasets.<br><b>Data processing:</b><br>Fusion of images from four angles, whole-cell segmentation and temporal registration to correct for embryo movement were performed using the ASTEC pipeline (detailed documentation available here).In version 2, cell identification and fate assignments were further refined using the ASCIDIAN package (documentation available here).<b>Dataset versions:</b>Guignard et al, 2020:The four angle fusion images obtained using the ASTEC pipeline are shared in .inr format (fuse.tar.gz archive file).Whole cells were segmented using the ASTEC pipeline and shared in .inr format (post.tar.gz archive file).Surface meshes (.obj) povided in the mesh.tar.gz archive were produced using the VTK library and MeshLab.Individual cell geometric properties are shared in two different formats, .xml and .pkl (properties.tar.gz archive file).Biasuz et al, 2025 (v2):The four angle fusion images obtained using the ASTEC pipeline and temporally registered to compensate for embryo movements in the microscope are shared in .nii format (Astec-Phmamm8-v2_fuse.tar.gz archive file).Whole cells were segmented using the ASTEC pipeline and temporally registered to compensate for embryo movements in the microscope are shared in .nii format (Astec-Phmamm8-v2_post.tar.gz archive file).Individual cell geometric and naming properties are shared in .xml format (Astec-Phmamm8-v2_properties.tar.gz archive file).For additional details about the .nii format, please refer to this resource.<br>
DOI: 10.6084/m9.figshare.8235479.v2
title: Phmamm-8 (previously published as Astec-Pm8; Wild type <i>Phallusia mammillata</i> embryo, live SPIM imaging, stages 8-14)

description: <b>Phmamm-8 (</b><b>previously published as Astec-Pm8</b><b>)</b><br><b>Organism:</b> <i>Phallusia mammillata</i> (Phlebobranch ascidian).<br><br><b>Description: </b><br>This dataset contains live imaging data of embryonic development in <i>Phallusia mammillata</i>. Cell membranes were fluorescently labeled by microinjection of mRNA encoding PH-citrine into unfertilized eggs.<br><br><b>Imaging conditions:</b><br>The embryo has been live imaged with a MuVi-SPIM light-sheet microscope from the 64-cell stage (Tp 1, St. 8, 4hpf) up to the early neurula (Tp 88, St. 14) every 2 minutes at 18°C in artificial seawater (ASW, salinity: 38 ppt). <br><b>Temporal alignment:</b><br>Embryonic development in <i>Phallusia mammillata</i> shows natural variability in timing between individuals, even under similar conditions. To enable direct comparison across datasets, developmental time was normalized based on cell number. Among the available acquisitions, <b>Phmamm-8 was chosen as the reference embryo</b>, and its timeline was used to align other embryos by rescaling their time post-fertilization (tpf) and acquisition intervals. Phmamm-8 thus serves as the temporal reference for the entire collection of ascidian embryo datasets.<br><b>Data processing:</b><br>Fusion of images from four angles, whole-cell segmentation and temporal registration to correct for embryo movement were performed using the ASTEC pipeline (detailed documentation available here).In version 2, cell identification and fate assignments were further refined using the ASCIDIAN package (documentation available here).<b>Dataset versions:</b>Guignard et al, 2020:The four angle fusion images obtained using the ASTEC pipeline are shared in .inr format (fuse.tar.gz archive file).Whole cells were segmented using the ASTEC pipeline and shared in .inr format (post.tar.gz archive file).Surface meshes (.obj) povided in the mesh.tar.gz archive were produced using the VTK library and MeshLab.Individual cell geometric properties are shared in two different formats, .xml and .pkl (properties.tar.gz archive file).Biasuz et al, 2025 (v2):The four angle fusion images obtained using the ASTEC pipeline and temporally registered to compensate for embryo movements in the microscope are shared in .nii format (Astec-Phmamm8-v2_fuse.tar.gz archive file).Whole cells were segmented using the ASTEC pipeline and temporally registered to compensate for embryo movements in the microscope are shared in .nii format (Astec-Phmamm8-v2_post.tar.gz archive file).Individual cell geometric and naming properties are shared in .xml format (Astec-Phmamm8-v2_properties.tar.gz archive file).For additional details about the .nii format, please refer to this resource.<br>
DOI: 10.6084/m9.figshare.8235479.v1
title: Astec-Pm8 (Wild type Phallusia mammillata embryo, live SPIM imaging, stages 8-14)

description: Astec-Pm8 Live embryonic development of Phallusia mammillata 
(Phlebobranch ascidian). <br><br>Cell membranes were fluorescently labeled by microinjection of mRNA encoding PH-citrine into unfertilized egg. The embryo has been live imaged with a MuVi-SPIM for two and a half hours, from the 64-cell stage (Tp 1, St. 8) up to the early Neurula (Tp 89, St. 14), at 18°C.<br>Whole cells were segmented using the ASTEC pipeline.<br>Surface meshes provided were produced using the VTK library and MeshLab.<br><br>The period between time points is 120 seconds after normalization on the average development at 18°C.<br>* The four angle fusion images obtained using the ASTEC pipeline are shared in .inr format (fuse.tar.gz archive file). <br>* Whole cells were segmented using the ASTEC pipeline and shared in .inr format (post.tar.gz archive file).<br>* Surface 
meshes (.obj) povided in the mesh.tar.gz archive were produced using the VTK library and MeshLab.<br>* Individual cell geometric properties are shared in two different formats, .xml and .pkl (properties.tar.gz archive file).
DOI: 10.15468/dl.arss4g
title: Occurrence Download

description: A dataset containing 2479 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Castanopsis cuspidata"
 ]
}

 The dataset includes 2479 records from 132 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025288-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zb6ned
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Casuariiformes)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-170 0,-160 0,-160 10,-170 10,-170 0))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025289-251009101135966/datasets/export for details.
DOI: 10.15468/dl.rfrdh4
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0057195-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hjwbpl
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005259-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qyutpd
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vitacea admirandus (Edwards, 1882)"
 ]
}

 The dataset includes 52 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0239547-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.apomcd
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005290-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rv29ud
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0056892-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r9n5na
title: Occurrence Download

description: A dataset containing 133665 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "Month is March",
 "Month is April",
 "Month is May",
 "Month is June",
 "Month is July",
 "Month is August"
 ]
 },
 "OccurrenceStatus is Present",
 "TaxonKey is Falco peregrinus Tunstall, 1771",
 "Year 2000-2021"
 ]
}

 The dataset includes 133665 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0258874-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kdaomr
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039561-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tulokw
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005269-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.44fdd8
title: Occurrence Download

description: A dataset containing 69 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Chamaesphecia astatiformis (Herrich-Schäffer, 1846)"
 ]
}

 The dataset includes 69 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0239712-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tnjdkd
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039688-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uxc0og
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005296-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z3pfpr
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Chamaesphecia hungarica (Tomala, 1901)"
 ]
}

 The dataset includes 48 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0239714-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.465c3b
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039578-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.celg6l
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005278-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tddnve
title: Occurrence Download

description: A dataset containing 422 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pennisetia marginatum (Harris, 1839)"
 ]
}

 The dataset includes 422 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0239722-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dz0nke
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039611-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xe1zwq
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005353-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z2hvx4
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Zenodoxus mexicanus Beutenmüller, 1897"
 ]
}

 The dataset includes 7 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0239725-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aljdso
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039727-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.an4nyq
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005302-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j86ngk
title: Occurrence Download

description: A dataset containing 154428928 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-14.47266 27.30469,44.94141 27.30469,44.94141 48.39844,-14.47266 48.39844,-14.47266 27.30469))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 154428928 records from 5551 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0283064-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh1410721.10fu
title: SH1410721.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1410722.10fu
title: SH1410722.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1410723.10fu
title: SH1410723.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.