cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.9v2p4g
title: Occurrence Download

description: A dataset containing 532909 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Artemisia vulgaris L."
 ]
}

 The dataset includes 532909 records from 2460 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044282-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u7ch4k
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Adenanthos velutinus Meisn."
 ]
}

 The dataset includes 27 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0139718-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hz43pw
title: Occurrence Download

description: A dataset containing 577 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Crassulaceae",
 "HasCoordinate is true",
 "Country is Iceland",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000",
 "CoordinateUncertaintyInMeters is less than 10000"
 ]
}

 The dataset includes 577 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0139717-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qwmze4
title: Occurrence Download

description: A dataset containing 3326 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ambystoma rosaceum Taylor, 1941"
 ]
}

 The dataset includes 3326 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018193-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bm8egh
title: Occurrence Download

description: A dataset containing 1463 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Parthenium L.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 1463 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0159579-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jzbhs7
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliotropium ferrugineogriseum Nábelek"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019300-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4gj63b
title: Occurrence Download

description: A dataset containing 3213 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Heterotheca Cass.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 3213 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0159563-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nlsljf
title: Occurrence Download

description: A dataset containing 19 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Drosera kenneallyi Lowrie",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 19 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018195-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8kgbma
title: Occurrence Download

description: A dataset containing 1901 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Monolopia DC."
 ]
}

 The dataset includes 1901 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0148546-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tfv34w
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gynochthodes artensis (Montrouz.) Razafim. & B.Bremer"
 ]
}

 The dataset includes 3 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019263-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kyh4v7
title: Occurrence Download

description: A dataset containing 1943 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Berberis L.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 1943 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0159601-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.amr3xs
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Alexa herminiana N.Ramírez"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0139720-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pf2bbb
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Viola voliotisii Erben"
 ]
}

 The dataset includes 6 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0139721-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xhiq60
title: Occurrence Download

description: A dataset containing 1808268 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Specimen"
 ]
 },
 {
 "or" : [
 "Country is Brazil",
 "Country is South Africa",
 "Country is Namibia",
 "Country is Zimbabwe",
 "Country is Eswatini",
 "Country is Tanzania, United Republic of"
 ]
 },
 {
 "or" : [
 "DatasetKey is PRECIS",
 "DatasetKey is Precis Plant Data",
 "DatasetKey is Tropicos MO Specimen Data"
 ]
 },
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 1808268 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018195-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nt35en
title: Occurrence Download

description: A dataset containing 110 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Acontias percivali Loveridge, 1935"
 ]
}

 The dataset includes 110 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0087066-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tbxhqd
title: Occurrence Download

description: A dataset containing 1824 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pluchea Cass.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 1824 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0159580-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lyxmtm
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lavoisiera gentianoides DC."
 ]
}

 The dataset includes 79 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018196-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3828rd
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hansenia trifoliolata Q.P.Jiang & X.J.He"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019264-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5ksn9n
title: Occurrence Download

description: A dataset containing 3065 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hieracium L.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 3065 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0159564-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dqewjf
title: Occurrence Download

description: A dataset containing 204 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Baccharis rufescens Spreng.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 204 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018197-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pjdpu2
title: Occurrence Download

description: A dataset containing 594 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Eriocaulon carsonii F.Muell."
 ]
}

 The dataset includes 594 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0148557-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v2rpuy
title: Occurrence Download

description: A dataset containing 1072 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Pseudonaja aspidorhyncha (Mccoy, 1879)"
 ]
}

 The dataset includes 1072 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0087101-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k4mpc4
title: Occurrence Download

description: A dataset containing 1597 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Corylus L.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 1597 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0159609-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zi2bac
title: Occurrence Download

description: A dataset containing 78 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-147.17414 -30.28427,-5.82586 -30.28427,-5.82586 26.28427,-147.17414 26.28427,-147.17414 -30.28427))",
 "HasCoordinate is true",
 "TaxonKey is Capsicum dimorphum (Miers) Kuntze",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 78 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018197-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c8qq4d
title: Occurrence Download

description: A dataset containing 294 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carex vidua Boott ex C.B.Clarke"
 ]
}

 The dataset includes 294 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0086999-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.emutbr
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "Geometry POLYGON((-117.52429 13.48718,-87.47571 13.48718,-87.47571 25.51282,-117.52429 25.51282,-117.52429 13.48718))",
 "HasCoordinate is true",
 "TaxonKey is Tillandsia roland-gosselinii Mez",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018197-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.br8zzf
title: Occurrence Download

description: A dataset containing 2215 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepus saxatilis F.Cuvier, 1823"
 ]
}

 The dataset includes 2215 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0139719-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7df7kf
title: Occurrence Download

description: A dataset containing 173 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Cynomys leucurus Merriam, 1890",
 "Year 1990-2020"
 ]
}

 The dataset includes 173 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0159611-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.urds8j
title: Occurrence Download

description: A dataset containing 165707 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Carex canescens L."
 ]
}

 The dataset includes 165707 records from 751 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0087031-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ql9mni
title: Occurrence Download

description: A dataset containing 331333 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Picea abies (L.) H.Karst."
 ]
}

 The dataset includes 331333 records from 660 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018198-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p4fgkx
title: Occurrence Download

description: A dataset containing 141 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Maxillaria schlechteriana J.T.Atwood"
 ]
}

 The dataset includes 141 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023354-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11400831
title: Collection of supplementary materials for the paper "Clonal analysis of murine development reveals novel positional programs directing lineage progression"

description: This is the collection of supplementary materials for the paper “Clonal analysis of murine development reveals novel positional programs directing lineage progression” (Erickson et al.).

All AnnData containers have normalized expressions stored in adata.X and raw counts stored in adata.layers["counts"]. In clone2vec AnnData objects fractions of the clone within the fate ([0; 1]) are stored in adata.X, and cell counts are stored in adata.layers["counts"].

This repository contains:



Plasmids.zip — the archive with plasmids maps and additional sequences / CRISPR gRNAs descriptions that were used to build chimeric references,

AnnDatas_Control_Trunk.zip — the archive with AnnData objects for control mice (trunk samples) — with all cells or with major domains of cells (neurons, mesenchyme, neural crest-derived, and others) + clonal embedding for all cells,

AnnDatas_Control_Head.zip — the archive with AnnData objects for control mice (head samples) — with all cells or with major domains of cells (neurons, mesenchyme, and others) + clonal embedding for all cells,

AnnDatas_Perturbed_Trunk.zip — the archive with AnnData objects for control and perturbed mice (trunk samples) — with all cells or with major domains of cells (neurons, mesenchyme, neural crest-derived, and others) + clonal embeddings for NC-derived cells and all cells,

AnnDatas_Perturbed_Head.zip — the archive with AnnData objects for control and perturbed mice (head samples) — with all cells or with major domains of cells (neurons, mesenchyme, and others) + clonal embedding for all cells.

AnnDatas_Lower_Trunk_NMP_NC.zip — the archive with AnnData objects for additionally sequenced control mice (lower trunk samples) — with all cells + clonal embedding for all cells.


The code for the analysis is available on GitHub. Please, feel free to contact us if you need additional data: sergey.isaev[at]meduniwien.ac.at.
DOI: 10.5281/zenodo.11400832
title: Collection of supplementary materials for the paper "Clonal analysis of murine development reveals novel positional programs directing lineage progression"

description: This is the collection of supplementary materials for the paper “Clonal analysis of murine development reveals novel positional programs directing lineage progression” (Erickson et al.).

All AnnData containers have normalized expressions stored in adata.X and raw counts stored in adata.layers["counts"]. In clone2vec AnnData objects fractions of the clone within the fate ([0; 1]) are stored in adata.X, and cell counts are stored in adata.layers["counts"].

This repository contains:



Plasmids.zip — the archive with plasmids maps and additional sequences / CRISPR gRNAs descriptions that were used to build chimeric references,

AnnDatas_control_trunk.zip — the archive with AnnData objects for control mice (trunk samples) — with all cells or with major domains of cells (neurons, mesenchyme, neural crest-derived, and others) + clonal embedding for all cells,

AnnDatas_control_head.zip — the archive with AnnData objects for control mice (head samples) — with all cells or with major domains of cells (neurons, mesenchyme, and others) + clonal embedding for all cells,

AnnDatas_perturbed_trunk.zip — the archive with AnnData objects for control and perturbed mice (trunk samples) — with all cells or with major domains of cells (neurons, mesenchyme, neural crest-derived, and others) + clonal embeddings for NC-derived cells and all cells,

AnnDatas_perturbed_head.zip — the archive with AnnData objects for control and perturbed mice (head samples) — with all cells or with major domains of cells (neurons, mesenchyme, and others) + clonal embedding for all cells.


The code for the analysis is available on GitHub. Please, feel free to contact us if you need additional data: sergey.isaev[at]meduniwien.ac.at.
DOI: 10.5281/zenodo.11406618
title: Collection of supplementary materials for the paper "Clonal analysis of murine development reveals novel positional programs directing lineage progression"

description: This is the collection of supplementary materials for the paper “Clonal analysis of murine development reveals novel positional programs directing lineage progression” (Erickson et al.).

All AnnData containers have normalized expressions stored in adata.X and raw counts stored in adata.layers["counts"]. In clone2vec AnnData objects fractions of the clone within the fate ([0; 1]) are stored in adata.X, and cell counts are stored in adata.layers["counts"].

This repository contains:



Plasmids.zip — the archive with plasmids maps and additional sequences / CRISPR gRNAs descriptions that were used to build chimeric references,

AnnDatas_control_trunk.zip — the archive with AnnData objects for control mice (trunk samples) — with all cells or with major domains of cells (neurons, mesenchyme, neural crest-derived, and others) + clonal embedding for all cells,

AnnDatas_control_head.zip — the archive with AnnData objects for control mice (head samples) — with all cells or with major domains of cells (neurons, mesenchyme, and others) + clonal embedding for all cells,

AnnDatas_perturbed_trunk.zip — the archive with AnnData objects for control and perturbed mice (trunk samples) — with all cells or with major domains of cells (neurons, mesenchyme, neural crest-derived, and others) + clonal embeddings for NC-derived cells and all cells,

AnnDatas_perturbed_head.zip — the archive with AnnData objects for control and perturbed mice (head samples) — with all cells or with major domains of cells (neurons, mesenchyme, and others) + clonal embedding for all cells.


The code for the analysis is available on GitHub. Please, feel free to contact us if you need additional data: sergey.isaev[at]meduniwien.ac.at.