cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1108548.10fu
title: SH1108548.10FU

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/sh1108550.10fu
title: SH1108550.10FU

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/sh1108551.10fu
title: SH1108551.10FU

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: 10.15468/dl.mz7rm2
title: Occurrence Download

description: A dataset containing 194 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Chinese Taipei)",
 "TaxonKey is Gastrodia elata"
 ]
}

 The dataset includes 194 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002579-260108223611665/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh1108555.10fu
title: SH1108555.10FU

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/sh1108556.10fu
title: SH1108556.10FU

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/sh1108558.10fu
title: SH1108558.10FU

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/sh1108559.10fu
title: SH1108559.10FU

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/sh1108560.10fu
title: SH1108560.10FU

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: 10.15468/dl.t7yv4t
title: Occurrence Download

description: A dataset containing 3627 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Taxidea taxus (Schreber, 1777)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "EventDate is not null",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 },
 {
 "or" : [
 "Country is Canada",
 "Country is United States of America"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 32000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 3627 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0225612-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w9sbm2
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Holothyrida"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0145969-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j6dvhn
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Piptolepis corymbosa J.B.Cândido & Loeuille"
 ]
}

 The dataset includes 8 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069100-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nzjj8p
title: Occurrence Download

description: A dataset containing 199 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Edinburgh (E) Herbarium Specimens",
 "TaxonKey is Araucaria montana Brongn. & Gris"
 ]
}

 The dataset includes 199 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0225630-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rtvmk5
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lychnophorella sericea (D.J.N.Hind) Loeuille, Semir & Pirani"
 ]
}

 The dataset includes 17 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069099-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ez4kk3
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Singapore",
 "TaxonKey is Schizostachyum brachycladum (Kurz ex Munro) Kurz"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0128254-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5puctu
title: Occurrence Download

description: A dataset containing 21637 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Colombia",
 "GadmGid is COL",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "License is CC-BY 4.0",
 "OccurrenceStatus is Present",
 "TaxonKey is Albizia guachapele (Kunth) Dugand"
 ]
}

 The dataset includes 21637 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0228262-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.46s9sn
title: Occurrence Download

description: A dataset containing 176006 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Amazona vinacea (Kuhl, 1820), Amazona finschi (P.L.Sclater, 1864), Amazona autumnalis (Linnaeus, 1758), Amazona leucocephala (Linnaeus, 1758), Amazona farinosa (Boddaert, 1783), Amazona albifrons (Sparrman, 1788), Amazona ochrocephala (Gmelin, 1788), Amazona amazonica (Linnaeus, 1766), Amazona oratrix Ridgway, 1887, Amazona aestiva (Linnaeus, 1758))"
 ]
}

 The dataset includes 176006 records from 252 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0230702-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10730090
title: Charge relaying within a phospho-motif rescues binding competency of a disordered transcription factor.

description: #This compressed archive contains .mdp, .xtc, .tpr, .gro and .top files for the work titled 'Charge relaying within a phospho-motif rescues binding competency of a disordered transcription factor.'

## Requirements: GROMACS version 2021.6

### Trajectories#### 8 replicates of 1us were performed for each construct (WT, D12A, R15A and K18A) removing the first 200ns as equilibration time.

##### The periodic boundary conditions for all trajectories were treated by:* 1. -pbc cluster (clustering all the atoms in the protein such that they are all closest to the center of mass of the cluster)* 2. -pbc nojump (putting all atoms that jump outside the box back into the box)* 3. -fit rot+trans (fitting the molecule to the reference structure (md.tpr))* 4. -dt 200 (reduced frames in the output)

All .mdp files used for equilibration and production runs can be found in the folder titled 'mdpfiles'To visualise the trajectories use: vmd protein.gro md_dt200_cl_nj_fit_b200ns.xtcTo reproduce trajectories collection the md.tpr for each run are provided:

<code>gmx mdrun -s md.tpr</code>
DOI: 10.5281/zenodo.11514149
title: Charge relaying within a phospho-motif rescues binding competency of a disordered transcription factor.

description: #This compressed archive contains .mdp, .xtc, .tpr, .gro and .top files for the work titled 'Charge relaying within a phospho-motif rescues binding competency of a disordered transcription factor.'

## Requirements: GROMACS version 2021.6

### Trajectories#### 8 replicates of 1us were performed for each construct (WT, D12A, R15A and K18A) removing the first 200ns as equilibration time.

##### The periodic boundary conditions for all trajectories were treated by:* 1. -pbc cluster (clustering all the atoms in the protein such that they are all closest to the center of mass of the cluster)* 2. -pbc nojump (putting all atoms that jump outside the box back into the box)* 3. -fit rot+trans (fitting the molecule to the reference structure (md.tpr))* 4. -dt 200 (reduced frames in the output)

All .mdp files used for equilibration and production runs can be found in the folder titled 'mdpfiles'To visualise the trajectories use: vmd protein.gro md_dt200_cl_nj_fit_b200ns.xtcTo reproduce trajectories collection the md.tpr for each run are provided:

<code>gmx mdrun -s md.tpr</code>
DOI: 10.15468/dl.qgqu27
title: Occurrence Download

description: A dataset containing 1484 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "TaxonKey is Synallaxis hypospodia P.L.Sclater, 1874"
 ]
}

 The dataset includes 1484 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0225628-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4egq4d
title: Occurrence Download

description: A dataset containing 67 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sida yunnanensis S.Y.Hu"
 ]
}

 The dataset includes 67 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0128244-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jcfv8w
title: Occurrence Download

description: A dataset containing 21637 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Colombia",
 "GadmGid is COL",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "License is CC-BY 4.0",
 "OccurrenceStatus is Present",
 "TaxonKey is Albizia guachapele (Kunth) Dugand"
 ]
}

 The dataset includes 21637 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0228251-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pzmryv
title: Occurrence Download

description: A dataset containing 4104 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Living Specimen",
 "Country is Ethiopia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 4104 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0230713-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aaud7r
title: Occurrence Download

description: A dataset containing 12448 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Arthropoda",
 "DatasetKey is Monitoring data from the federal state Saxony-Anhalt (Germany)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Geometry POLYGON ((-25.03991 31.75, 41.65954 31.75, 41.65954 71.53037, -25.03991 71.53037, -25.03991 31.75))"
 ]
}

 The dataset includes 12448 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0225622-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r44hy9
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Geranium wardii Yeo"
 ]
}

 The dataset includes 4 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0228240-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rukku2
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "Geometry POLYGON((-72.57 6.27,-72.15 6.27,-72.25338 7.2634,-72.57392 7.26798,-73.15775 7.27714,-73.18981 6.24226,-72.57 6.27))",
 "TaxonKey is Conirostrum sitticolor Lafresnaye, 1840"
 ]
}

 The dataset includes 12 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0230716-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h6w4sv
title: Occurrence Download

description: A dataset containing 35649 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Arthropoda",
 "DatasetKey is England Non Native Species records 1965 to 2017",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Geometry POLYGON ((-25.03991 31.75, 41.65954 31.75, 41.65954 71.53037, -25.03991 71.53037, -25.03991 31.75))"
 ]
}

 The dataset includes 35649 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0225614-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e4mnmh
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Singapore",
 "TaxonKey is Schizostachyum jaculans Holttum"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0128256-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ynf8q8
title: Occurrence Download

description: A dataset containing 152 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CollectionKey is 373801bb-6750-4ec1-90e5-cc82fc2b767f",
 "Country is Peru",
 "TaxonKey is Pseudocolaptes Reichenbach, 1853"
 ]
}

 The dataset includes 152 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0228241-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zpum6m
title: Occurrence Download

description: A dataset containing 2702 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is Africa",
 "CoordinateUncertaintyInMeters 3.0-1000000.0",
 "Country is Zimbabwe",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Issue is Coordinate rounded",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Plantae, Lantana camara L.)",
 "Year 1000-2023"
 ]
}

 The dataset includes 2702 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0230717-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.