cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh0136683.10fu
title: SH0136683.10FU

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: 10.13145/bacdive148813.20241212.9.2
title: Gordonia sputi

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive148813.20251217.10
title: Gordonia sputi

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0136684.10fu
title: SH0136684.10FU

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: 10.13145/bacdive148814.20230509.8.1
title: Actinomyces naeslundii

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive148814.20251217.10
title: Actinomyces naeslundii

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0136685.10fu
title: SH0136685.10FU

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: 10.13145/bacdive148815.20230509.8.1
title: Streptococcus anginosus

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive148815.20251217.10
title: Streptococcus anginosus

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0136686.10fu
title: SH0136686.10FU

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.rttfz9
title: Occurrence Download

description: A dataset containing 111965 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Iran (Islamic Republic of)",
 "Year 2010-2019"
 ]
}

 The dataset includes 111965 records from 138 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022034-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kq9y7d
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Anacyclus monanthos subsp. cyrtolepidioides (Pomel) Humphries)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 22 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048329-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tkhs9q
title: Occurrence Download

description: A dataset containing 16347 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-5.79735 38.81885,-5.55428 38.81885,-5.55428 39.01972,-5.79735 39.01972,-5.79735 38.81885))",
 "HasCoordinate is true",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 16347 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0176577-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.alenp9
title: Occurrence Download

description: A dataset containing 500929 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Ecuador",
 "TaxonKey is Magnoliopsida"
 ]
}

 The dataset includes 500929 records from 161 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022035-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.747m7k
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ajania salicifolia (Mattf.) Poljakov"
 ]
}

 The dataset includes 30 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0209832-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.1wj2oq
title: Occurrence Download

description: A dataset containing 50 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Drosera zonaria Planch.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 50 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022038-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hxgc84
title: Occurrence Download

description: A dataset containing 91 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Material sample"
 ]
 },
 "Country is Colombia",
 "TaxonKey is Chelus fimbriata (Schneider, 1783)"
 ]
}

 The dataset includes 91 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0152377-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mosju2
title: Occurrence Download

description: A dataset containing 562 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amaranthus interruptus R.Br.",
 "HasCoordinate is TRUE"
 ]
}

 The dataset includes 562 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022041-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rc55fd
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hypnum leptothallum Paris"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0152348-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.moze6c
title: Occurrence Download

description: A dataset containing 25659 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 {
 "or" : [
 "TaxonKey is Caesalpinia Plum. ex L.",
 "TaxonKey is Bourreria P.Browne"
 ]
 },
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 25659 records from 379 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022042-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fd5dkp
title: Occurrence Download

description: A dataset containing 1033060 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Falco columbarius Linnaeus, 1758"
 ]
}

 The dataset includes 1033060 records from 489 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0152371-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ftz6eg
title: Occurrence Download

description: A dataset containing 1209 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Mexico",
 "TaxonKey is Nasua narica (Linnaeus, 1766)"
 ]
}

 The dataset includes 1209 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022043-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c7pggn
title: Occurrence Download

description: A dataset containing 9676 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Poland",
 "GadmGid is POL.1.9.13_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 9676 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0176576-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wh8b7c
title: Occurrence Download

description: A dataset containing 881 species occurrences available in GBIF matching the query:
{
 "and" : [
 "ScientificName is Lagascea mollis Cav.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 881 records from 78 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022254-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9nvzbz
title: Occurrence Download

description: A dataset containing 30093 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Andreaea Hedw."
 ]
}

 The dataset includes 30093 records from 218 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0152357-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qurfmg
title: Occurrence Download

description: A dataset containing 236 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tremarctos ornatus (F.G.Cuvier, 1825)"
 ]
}

 The dataset includes 236 records from 51 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022044-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3886/e194141
title: Data and Code for: Estimating Hysteresis Effects

description: In this paper we identify demand shocks that can have a permanent effect on output through hysteresis effects. We call these shocks permanent demand shocks. They are found to be quantitatively important in the United States, in particular in samples starting in the 1980s. Recessions driven by permanent demand shocks lead to a permanent decline in employment and investment, while output per worker is largely unaffected. We find strong evidence that hysteresis transmits through a rise in long-term unemployment and a decline in labor force participation and disproportionately affects the least productive workers.<br>
DOI: 10.3886/e194141v1
title: Data and Code for: Estimating Hysteresis Effects

description: In this paper we identify demand shocks that can have a permanent effect on output through hysteresis effects. We call these shocks permanent demand shocks. They are found to be quantitatively important in the United States, in particular in samples starting in the 1980s. Recessions driven by permanent demand shocks lead to a permanent decline in employment and investment, while output per worker is largely unaffected. We find strong evidence that hysteresis transmits through a rise in long-term unemployment and a decline in labor force participation and disproportionately affects the least productive workers.<br>
DOI: 10.3886/e194141v2
title: Data and Code for: Estimating Hysteresis Effects

description: In this paper we identify demand shocks that can have a permanent effect on output through hysteresis effects. We call these shocks permanent demand shocks. They are found to be quantitatively important in the United States, in particular in samples starting in the 1980s. Recessions driven by permanent demand shocks lead to a permanent decline in employment and investment, while output per worker is largely unaffected. We find strong evidence that hysteresis transmits through a rise in long-term unemployment and a decline in labor force participation and disproportionately affects the least productive workers.<br>
DOI: 10.5281/zenodo.14867935
title: Whole genome sequencing powered ctDNA sequencing for breast cancer detection

description: These data and code are in support of the publication "Whole genome sequencing powered ctDNA sequencing for breast cancer detection" by Garcia-Murillas, I. et al. (https://doi.org/10.1016/j.annonc.2025.01.021). In this version of the data frame duplicate sample entries 67, 117 and 250 (duplicate entries of 66, 116 and 249, respectively) have been removed.
DOI: 10.5281/zenodo.14867936
title: Whole genome sequencing powered ctDNA sequencing for breast cancer detection

description: These data and code are in support of the publication Whole genome sequencing powered ctDNA sequencing for breast cancer detection byGarcia-Murillas, I. et al. (https://doi.org/10.1016/j.annonc.2025.01.021).
DOI: 10.5281/zenodo.14888653
title: Whole genome sequencing powered ctDNA sequencing for breast cancer detection

description: These data and code are in support of the publication "Whole genome sequencing powered ctDNA sequencing for breast cancer detection" by Garcia-Murillas, I. et al. (https://doi.org/10.1016/j.annonc.2025.01.021). In this version of the data frame Samples 67, 117 and 250 were duplicate entries of 66, 116 and 249, respectively, and should be removed prior to analysis.
DOI: 10.5281/zenodo.15098582
title: Whole genome sequencing powered ctDNA sequencing for breast cancer detection

description: These data and code are in support of the publication "Whole genome sequencing powered ctDNA sequencing for breast cancer detection" by Garcia-Murillas, I. et al. (https://doi.org/10.1016/j.annonc.2025.01.021). In this version of the data frame duplicate sample entries 67, 117 and 250 (duplicate entries of 66, 116 and 249, respectively) have been removed.
DOI: 10.6084/m9.figshare.27005560
title: Gene with cis-by-diet interactions overlapping genomic outliers

description: Genes with evidence for cis-by-diet interaction that overlap a genomic outlier variant (LFMM |z-score|&gt;3|
DOI: 10.6084/m9.figshare.27005560.v1
title: Gene with cis-by-diet interactions overlapping genomic outliers

description: Genes with evidence for cis-by-diet interaction that overlap a genomic outlier variant (LFMM |z-score|&gt;3|
DOI: 10.15468/dl.am7xw4
title: Occurrence Download

description: A dataset containing 3834 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Plestiodon gilberti (Van Denburgh, 1896)"
 ]
}

 The dataset includes 3834 records from 53 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004673-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15098584
title: Bioactivity of the ubiquitous tire preservative 6PPD and degradant, 6PPD-quinone in fish and mammalian-based assays
DOI: 10.5281/zenodo.15098585
title: Bioactivity of the ubiquitous tire preservative 6PPD and degradant, 6PPD-quinone in fish and mammalian-based assays
DOI: 10.6084/m9.figshare.27005548
title: Cis-by-diet gene list and annotation

description: Genes with evidence for cis-by-diet interactions and metabolic associations based on Ensembl annotations
DOI: 10.6084/m9.figshare.27005548.v1
title: Cis-by-diet gene list and annotation

description: Genes with evidence for cis-by-diet interactions and metabolic associations based on Ensembl annotations
DOI: 10.6084/m9.figshare.27005539.v1
title: ASE sign test results

description: Genes identified in our ASE sign test as having biased directionality and associated with metabolic GO terms
DOI: 10.6084/m9.figshare.27005539
title: ASE sign test results

description: Genes identified in our ASE sign test as having biased directionality and associated with metabolic GO terms
DOI: 10.15468/dl.xmsmjb
title: Occurrence Download

description: A dataset containing 9661 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "Country is Romania",
 "TaxonKey is Ambrosia artemisiifolia L."
 ]
}

 The dataset includes 9661 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004674-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27005512
title: Male WGCNA consensus analysis

description: Consensus modules across high and regular fat diets for males. For each gene,we provide the assigned module (Module Label/Module Color), the gene significance (correlation) and p.value for each trait, and associations to each module individually and in the metanalysis.
DOI: 10.6084/m9.figshare.27005512.v1
title: Male WGCNA consensus analysis

description: Consensus modules across high and regular fat diets for males. For each gene,we provide the assigned module (Module Label/Module Color), the gene significance (correlation) and p.value for each trait, and associations to each module individually and in the metanalysis.
DOI: 10.5281/zenodo.14052786
title: Data for evaluation of diverse-seq algorithms

description: The algorithms required for phylogenetics — multiple sequence alignment and phylogeny estimation — are both compute intensive. `diverse-seq` implements computationally efficient alignment-free algorithms that enable efficient prototyping for phylogenetic workflows. It can accelerate parameter selection searches for sequence alignment and phylogeny estimation by identifying a subset of sequences that are representative of the diversity in a collection. `diverse-seq` can further boost the performance of phylogenetic estimation by providing a seed phylogeny that can be further refined by a more sophisticated algorithm.

The data sets in this archive are either HDF5 stored whole microbial genomes or multiple sequence alignments of one-to-one orthologs from mammal species in fasta format. The `wol.dvseqs` HDF5 file is derived from the data used in Zhu et al Nature Communications, 10(1), 5477 with the original fasta formatted files in wol.zip. The `soil.dvseqs` HDF5 file is derived from the genomes included in REFSOIL (Choi et al The ISME Journal, 11(4), 829–834), with the original GenBank formatted files included in refsoil.zip. The data in `mammal_orths_31_aligned.zip` are fasta formatted multiple sequence alignments of sequences sampled from Ensembl release 113.