cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.16039306
title: MISHMASH software and figure code

description: Software and figure code associated with the publication Kim, L., Lavrinienko, A., Sebechlebska, Z., Stoltenberg, S., Bokulich, N. A. (2025): Tier-based standards for FAIR sequence data and metadata sharing in microbiome research.



mishmash-fig.tar: Code used in figure generation; also available on GitHub

mishmash.tar: Software associated with MISHMASH method; also available on GitHub


Associated text can be found at bioRxiv prior to publication in Nucleic Acids Research.
DOI: 10.5281/zenodo.16039307
title: MISHMASH software and figure code

description: Software and figure code associated with the publication Kim, L., Lavrinienko, A., Sebechlebska, Z., Stoltenberg, S., Bokulich, N. A. (2025): Tier-based standards for FAIR sequence data and metadata sharing in microbiome research.



mishmash-fig.tar: Code used in figure generation; also available on GitHub

mishmash.tar: Software associated with MISHMASH method; also available on GitHub


Associated text can be found at bioRxiv prior to publication in Nucleic Acids Research.
DOI: 10.15468/dl.f286w4
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melia azedarach",
 "Country is Panama",
 "HasCoordinate is true"
 ]
}

 The dataset includes 13 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001593-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q3sbv3
title: Occurrence Download

description: A dataset containing 486 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Triticum aestivum",
 "Country is Slovakia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 486 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001594-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/ka3-26l-3pp
title: Begonia oxyphylla A. DC.

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.3535/tkp-g88-ll8
title: Begonia oxyphylla A. DC.

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.3886/e234221
title: Replication Package for Overvaluing Simple Bets

description: Replication package for Overvaluing Simple Bets: Evidence from the Options Market<br>
DOI: 10.3886/e234221v3
title: Replication Package for Overvaluing Simple Bets

description: Replication package for Overvaluing Simple Bets: Evidence from the Options Market<br>
DOI: 10.15468/dl.dgjndq
title: Occurrence Download

description: A dataset containing 104 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cotoneaster lucidus",
 "Country is Latvia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 104 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001597-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.twqdrm
title: Occurrence Download

description: A dataset containing 359 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cotoneaster lucidus",
 "Country is Estonia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 359 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001596-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e4nw2c
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melia azedarach",
 "Country is Solomon Islands",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001599-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/lmc-zvg-zsp
title: Begonia annulata K. Koch

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.15468/dl.2hfnry
title: Occurrence Download

description: A dataset containing 4288 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cotoneaster lucidus",
 "Country is Norway",
 "HasCoordinate is true"
 ]
}

 The dataset includes 4288 records from 51 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001598-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/8v8-2sc-6je
title: Begonia L.

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.6084/m9.figshare.29591216
title: Future Directions Data

description: Future Directions Questionnaire Responses
DOI: 10.6084/m9.figshare.29591216.v1
title: Future Directions Data

description: Future Directions Questionnaire Responses
DOI: 10.15468/dl.2k5n43
title: Occurrence Download

description: A dataset containing 3077 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Guatemala",
 "DatasetKey is USAC, CECON, Herbario USCG",
 "TaxonKey is Polypodiopsida"
 ]
}

 The dataset includes 3077 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001600-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mdjwt2
title: Occurrence Download

description: A dataset containing 51 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Triticum aestivum",
 "Country is South Africa",
 "HasCoordinate is true"
 ]
}

 The dataset includes 51 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001601-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xyh2yv
title: Occurrence Download

description: A dataset containing 3658 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melia azedarach",
 "Country is South Africa",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3658 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001602-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jr47dr
title: Occurrence Download

description: A dataset containing 213643 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Juglans regia"
 ]
}

 The dataset includes 213643 records from 1849 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001519-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/7m0-lmt-lzx
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/nby-b69-5ax
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/l16-a61-8c0
title: †Miogypsina Sacco, 1893

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/aab-6gp-2yf
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/be0-s2m-2sv
title: Cellaria punctata (Busk, 1852)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/q43-qjy-new
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/rbj-47p-avm
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/925-47p-1j2
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mcp-p4a-2vb
title: Fragum Röding, 1798

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hhc-1d1-rg3
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/gw3-h3k-n4m
title: Discoporella umbellata (Defrance, 1823)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mxf-8hb-6b7
title: †Hippaliosina sandbergeri (Reuss, 1869)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/x8m-6fp-jtf
title: Porella Gray, 1848

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.82555/hyc8y-0h418
title: JEF-2.2 Evaluated Data: radioactive decay data

description: The JEF-2.2 version of the general purpose library was released in January 1992.

This latest version of the Radioactive Decay Data library for JEF-2.2 was provided in Tape 22 and was released in July 1993. The library contains decay data for 2345 radionuclides in ENDF-6 format. A separate copy of the same content broken into individual files for each isotope is provided as a compressed archive alongside the tape file.
DOI: 10.82555/shm90-7wj75
title: JEF-2.2 Evaluated Data: radioactive decay data

description: The JEF-2.2 version of the general purpose library was released in January 1992.

This latest version of the Radioactive Decay Data library for JEF-2.2 was provided in Tape 22 and was released in July 1993. The library contains decay data for 2345 radionuclides in ENDF-6 format. A separate copy of the same content broken into individual files for each isotope is provided as a compressed archive alongside the tape file.
DOI: 10.3535/c9d-ag1-e1x
title: †Miogypsina Sacco, 1893

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/m22-z6n-92t
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0l9-th5-bf6
title: †Miogypsina Sacco, 1893

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/k5l-za7-emz
title: †Gemelliporina punctata (Canu & Bassler, 1919)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8hq-pzn-694
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/pce-5dd-30j
title: †Miogypsina Sacco, 1893

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.5mvzs9
title: Occurrence Download

description: A dataset containing 74 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Macrophthalmus graeffei",
 "Country is Israel",
 "HasCoordinate is true"
 ]
}

 The dataset includes 74 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018988-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/92g-gft-h1b
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hqg-5an-kwh
title: Rodentia Bowdich, 1821

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qye-d8x-gjn
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.ehd4uy
title: Occurrence Download

description: A dataset containing 8214 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Peru",
 "OccurrenceStatus is Present",
 "TaxonKey is Perciformes"
 ]
}

 The dataset includes 8214 records from 76 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018985-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/0al-zkp-x8z
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4bl-t2t-8d1
title: Bryozoa

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.sg3vjd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Macrophthalmus graeffei",
 "Country is Türkiye",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018989-250811113504898/datasets/export for details.
DOI: 10.3535/a15-kl2-d5g
title: Smittina remotorostrata (Canu & Bassler, 1928)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/p7y-rdp-bsy
title: Bryozoa

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/enh-9wq-lnn
title: Voacanga Thouars

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/rs1-y79-qjl
title: Ascophora

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hbq-z3b-qnk
title: Cupuladria canariensis (Busk, 1859)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.57967/hf/6269
title: quarter-of-chembl-2025-randomized-smiles-cleaned
DOI: 10.3535/8c9-pvc-s4l
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/tda-0xs-anp
title: Alderina smitti Osburn, 1950

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2fp-7c9-tcv
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yly-lyt-p6d
title: Escharina Milne Edwards, 1836

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2l9-cy5-tgx
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/egn-4ct-6k2
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/14j-wa4-347
title: †Miogypsina Sacco, 1893

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4w4-401-hya
title: Ascophora

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yp4-ljf-evz
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mb4-pcc-0je
title: Cellaria Ellis & Solander, 1786

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/z5a-xdz-ybv
title: Vibracellina laxibasis Canu & Bassler, 1928

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/hpf-6fa-644
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/spc-de4-px5
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0lx-4j0-ayr
title: Hippoporina Neviani, 1895

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7j7-tt4-8ma
title: Crisia denticulata (Lamarck, 1816)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ed6-etd-3qn
title: †Palaeocarpilius aquitanicus A. Milne-Edwards, 1862

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/j72-j4y-4dd
title: Balclutha Kirkaldy, 1900

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/cc8-90k-96b
title: Asteroidea de Blainville, 1830

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/k9w-f72-505
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/efp-dkr-0g7
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/d2h-86x-r49
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/a3z-pse-t33
title: Plantae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/gwp-vqx-mh6
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15468/dl.37z9xw
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Azolla filiculoides",
 "Country is Zimbabwe",
 "HasCoordinate is true"
 ]
}

 The dataset includes 4 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018990-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/9mw-hzv-0r5
title: Mammalia Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/lq7-64l-hfr
title: †Miogypsina Sacco, 1893

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7gs-rg5-wwh
title: Eutaleola evelinae (Marcus, 1938)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8vm-72n-vkr
title: †Hippurites Lamarck, 1801

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.15156/bio/sh1393252.10fu
title: SH1393252.10FU

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/sh1393253.10fu
title: SH1393253.10FU

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/sh1393255.10fu
title: SH1393255.10FU

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/sh1393256.10fu
title: SH1393256.10FU

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.