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

description: A dataset containing 223111 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Polypodiopsida)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-150 30,-120 30,-120 60,-150 60,-150 30))"
 ]
}

 The dataset includes 223111 records from 166 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052973-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vgan8y
title: Occurrence Download

description: A dataset containing 694 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "TaxonKey is Prosopis juliflora"
 ]
}

 The dataset includes 694 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053011-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p8qcnh
title: Occurrence Download

description: A dataset containing 289 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cinnamomum austrosinense)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 289 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053013-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.2642033
title: Raw diffraction images of pyruvate phosphate dikinase (PPDK), PDB 5JVN

description: Raw diffration images and processing input files/logs of pyruvate phosphate dikinase (PPDK) from the C3 plant Flaveria pringlei. The data was used for PDB entry 5JVN (Minges et al. 2017). Data was collected in two helical scans from the same crystal, each consisting of 3600 images (360°/scan, 0.1°/image). Data were cut according to accumulated radiation damage at 3445 and 3400 images respectively. All data was collected from loop-harvested crystals at beamline ID29 at the European Synchrotron Radiation Facility (ESRF, Grenoble, France) using a wavelength of 0.976252 Å and a Pilatus 6M (Dectris, Baden, Switzerland) detector.


The crystal belonged to the spacegroup P622 with unit cell constants a, b ~ 250 Å, c ~ 84 Å, α, β, γ ~ 90°.


.
DOI: 10.5281/zenodo.2642034
title: Raw diffraction images of pyruvate phosphate dikinase (PPDK), PDB 5JVN

description: Raw diffration images and processing input files/logs of pyruvate phosphate dikinase (PPDK) from the C3 plant Flaveria pringlei. The data was used for PDB entry 5JVN (Minges et al. 2017). Data was collected in two helical scans from the same crystal, each consisting of 3600 images (360°/scan, 0.1°/image). Data were cut according to accumulated radiation damage at 3445 and 3400 images respectively. All data was collected from loop-harvested crystals at beamline ID29 at the European Synchrotron Radiation Facility (ESRF, Grenoble, France) using a wavelength of 0.976252 Å and a Pilatus 6M (Dectris, Baden, Switzerland) detector.


The crystal belonged to the spacegroup P622 with unit cell constants a, b ~ 250 Å, c ~ 84 Å, α, β, γ ~ 90°.


.
DOI: 10.5519/qd.lncfigsn
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (252 records)
DOI: 10.15468/dl.d4p5gr
title: Occurrence Download

description: A dataset containing 24528 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Falco tinnunculus",
 "Year 1980-2025"
 ]
}

 The dataset includes 24528 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053014-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n3q6jz
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053017-250920141307145/datasets/export for details.
DOI: 10.15468/dl.6hc65c
title: Occurrence Download

description: A dataset containing 36 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eucalyptus leucoxylon",
 "Country is South Africa",
 "HasCoordinate is true"
 ]
}

 The dataset includes 36 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053018-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.26023/7yry-89mh-k09
title: VOCALS Model Ship Tracks Imagery. Version 1.0

description: This data set contains a 9-panel JPG figure, in which CCN injection from sea surface was simulated under various meteorological conditions (W for wet and D for dry), aerosol background conditions (50, 100 and 200 /mg) and seeding strategies (P1 and P3 denote one and three moving point seeding, and U for uniform seeding). Please refer to Wang et. al. (2011, Atmospheric Chemistry and Physics) for more details.
DOI: 10.5281/zenodo.17273139
title: PEER Scale
DOI: 10.5281/zenodo.17273140
title: PEER Scale
DOI: 10.5281/zenodo.17275724
title: Ground Truth for PaganTibet Ume models 1 & 2

description: This dataset forms the triple-checked diplomatic transcriptions of the Ground Truth for the PaganTibet HTR models "Ume 1" and "Ume 2", which can be used free of charge through the Transkribus platform. This dataset is part of the PaganTibet collection, managed by Rachael Griffiths and Marieke Meelen. Transcriptions were first checked by two teams of annotators from the Triten Norbutse Institute and then double-checked by their team leaders:- Team A 'Manual input': Sherab Chokgyal (Team Leader), Tsugphud Woeser,Tsultrim Palsang, Palgyi Wangchuk, Tsewang Drukgyal- Team B 'Correction': Tsultrim Gyaltsen (Team Leader), Tritsuk Lhundup,Tsukphud Rabsal, Tsognyi Gyatso, Sherap Woser

All double-checked transcriptions were then triple-checked by Rachael Griffiths, Marieke Meelen and the rest of the PaganTibet research group, led by prof Charles Ramble (PI). Accompanying images and full eTexts will be made available through the BDRC's BUDA platform.

PaganTibet is an ERC-funded Advanced Grant project (ERC, PaganTibet, 101097364) led by Professor Charles Ramble(PI) in the Horizon Europe framework, hosted by the École Pratique des Hautes Études (EPHE), PSL in Paris.

Copyright Rachael Griffiths et al (all listed creators), October 2025. This document is licensed under CC BY-NC-SA 4.0.
DOI: 10.5281/zenodo.17275723
title: Ground Truth for PaganTibet Ume models 1 & 2

description: This dataset forms the triple-checked diplomatic transcriptions of the Ground Truth for the PaganTibet HTR models "Ume 1" and "Ume 2", which can be used free of charge through the Transkribus platform. This dataset is part of the PaganTibet collection, managed by Rachael Griffiths and Marieke Meelen. Transcriptions were first checked by two teams of annotators from the Triten Norbutse Institute and then double-checked by their team leaders:- Team A 'Manual input': Sherab Chokgyal (Team Leader), Tsugphud Woeser,Tsultrim Palsang, Palgyi Wangchuk, Tsewang Drukgyal- Team B 'Correction': Tsultrim Gyaltsen (Team Leader), Tritsuk Lhundup,Tsukphud Rabsal, Tsognyi Gyatso, Sherap Woser

All double-checked transcriptions were then triple-checked by Rachael Griffiths, Marieke Meelen and the rest of the PaganTibet research group, led by prof Charles Ramble (PI). Accompanying images and full eTexts will be made available through the BDRC's BUDA platform.

PaganTibet is an ERC-funded Advanced Grant project (ERC, PaganTibet, 101097364) led by Professor Charles Ramble(PI) in the Horizon Europe framework, hosted by the École Pratique des Hautes Études (EPHE), PSL in Paris.

Copyright Rachael Griffiths et al (all listed creators), October 2025. This document is licensed under CC BY-NC-SA 4.0.
DOI: 10.5519/qd.vzvs2jwl
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (240 records)
DOI: 10.5281/zenodo.14203113
title: Substantial contribution of in-situ produced bacterial sphingolipids to the sedimentary lipidome

description: Abstract: The sedimentary lipid pool comprises a myriad of components with some specific biomarkers used in paleoclimatic and geobiological reconstructions. However, a comprehensive view of the sedimentary lipidome is lacking. Here we conduct an untargeted analysis of the Black Sea sedimentary lipidome using high resolution mass spectrometry. Besides commonly reported phytoplankton-derived fossil lipids originate from oxic surface water, a diverse and abundant set of sphingolipids, accounting for ~20% of the lipidome, was discovered. These sphingolipids are produced in-situ by sedimentary anaerobic bacteria, likely in place of phospholipids due to the deficiency of phosphate in anoxic sediments. Our results suggest that while phytoplankton-derived lipids contribute 50–60% of the sedimentary lipidome, the importance of bacterial lipids, particularly in-situ produced sphingolipids, has been overlooked.

Source data:

Data 1. Spt_hits.and.backbone_sequences.MAFFT-L-INS-i.msa

Data 2. Spt_hits.and.backbone_sequences.MAFFT-L-INS-i.msa.trimAl
DOI: 10.5281/zenodo.17275975
title: Substantial contribution of in-situ produced bacterial sphingolipids to the sedimentary lipidome

description: Abstract: The sedimentary lipid pool comprises a myriad of components with some specific biomarkers used in paleoclimatic and geobiological reconstructions. However, a comprehensive view of the sedimentary lipidome is lacking. Here we conduct an untargeted analysis of the Black Sea sedimentary lipidome using high resolution mass spectrometry. Besides commonly reported phytoplankton-derived fossil lipids originate from oxic surface water, a diverse and abundant set of sphingolipids, accounting for ~20% of the lipidome, was discovered. These sphingolipids are produced in-situ by sedimentary anaerobic bacteria, likely in place of phospholipids due to the deficiency of phosphate in anoxic sediments. Our results suggest that while phytoplankton-derived lipids contribute 50–60% of the sedimentary lipidome, the importance of bacterial lipids, particularly in-situ produced sphingolipids, has been overlooked.

Source data:

Data 1. Spt_hits.and.backbone_sequences.MAFFT-L-INS-i.msa

Data 2. Spt_hits.and.backbone_sequences.MAFFT-L-INS-i.msa.trimAl
DOI: 10.15468/dl.n6ehz5
title: Occurrence Download

description: A dataset containing 469 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cinnamomum bodinieri)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 469 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053019-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m2neb4
title: Occurrence Download

description: A dataset containing 1341858 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Polypodiopsida)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON((-30 30,0 30,0 60,-30 60,-30 30))"
 ]
}

 The dataset includes 1341858 records from 1188 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052985-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13350536
title: human_masking:v21.1.1

description: kraken2 DB for human  (hg38) built with masking option in Jan 2021. Contains 639 accession numbers.

we do not add the sequences here. accessions are in seqid2taxid.map
DOI: 10.5281/zenodo.13350537
title: human_masking:v21.1.1

description: kraken2 DB for human  (hg38) built with masking option in Jan 2021. Contains 639 accession numbers.

we do not add the sequences here. accessions are in seqid2taxid.map
DOI: 10.34740/kaggle/dsv/9211794
title: Helpdesk - Github Issue Tickets
DOI: 10.58160/wqq4hjwptd1ufjze
title: Assessment of the Viability and Mechanoresponsiveness of hMSC-TERT Printed with Bioinert, Thermoresponsive Hydrogels

description: During three-dimensional (3D) bioprinting, the integration of living cells into hydrogel matrices results in complex biophysicochemical interactions between viscosity, shear stress, and temperature, critically influencing the structural and functional integrity of the resulting constructs. This study delves into the short-term biological ramifications of 3D extrusion printing of telomerase-immortalized human mesenchymal stromal cells (hMSC-TERT) embedded in bioinert hydrogels. Pluronic F127 and custom-synthesized poly(2-methyl-2-oxazoline)-block-poly(2-n-propyl-2-oxazine) (POx/POzi) are synthetic, block copolymers that create shear-thinning, physically crosslinked hydrogels that were used for this study. The rheological properties of the cell-free hydrogels and cell-laden bioinks were examined, revealing that they exhibited comparable behavior. Contrary to the original hypotheses, a key finding of this research is the reduction in cell viability (up to 50 %) within 24 h post-printing, a trend consistently observed across varying initial conditions. The relative expression levels of the mechanoresponsive genes FOS and PTGS2 were increased, partly due to the suspension and incubation of the cells in both hydrogels. Only FOS was significantly upregulated in some cases because of the printing process after 2 and 4 h of incubation. These insights highlight the potential of using POx/POzi hydrogel as a matrix in 3D bioprinting, particularly for depositing hMSC-TERT into structures with vasculature-mimicking scaffolds or scaffolds designed for bone regeneration.
description: Characterization of hMSC-TERT in Pluronic and POx/Pozi
DOI: 10.13145/bacdive131605.20241212.9.2
title: Aeromicrobium sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131608.20241212.9.2
title: Arthrobacter sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131609.20241212.9.2
title: Arthrobacter sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131610.20241212.9.2
title: Arthrobacter sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131611.20241212.9.2
title: Arthrobacter sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131612.20241212.9.2
title: Arthrobacter sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131613.20241212.9.2
title: Arthrobacter sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131625.20241212.9.2
title: Bacteroides cellulolyticus Hitch et al. 2022

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15468/dl.bgttjk
title: Occurrence Download

description: A dataset containing 64 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sagmatias obscurus (Gray, 1828)",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1950",
 "Year is less than or equal to 2014"
 ]
}

 The dataset includes 64 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010357-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13145/bacdive131626.20241212.9.2
title: Phocaeicola fibrisolvens Hitch et al. 2022

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131633.20241212.9.2
title: Bacillus pumilus Meyer and Gottheil 1901

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131639.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131641.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131642.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131643.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.17032/shu-0000000237
title: An evaluation of pre-registration research teaching provision for operating department practice students

description: Responses collected from participating HEIs
description: Information circulated to HEIs via the College of Operating Department Practitioners. HEIs willing to participate complete 1 response with information in relation to their course programmes via completion of an online form.
description: Duplicate response from a HEI removed. Anonymised.
DOI: 10.13145/bacdive131644.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131645.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15468/dl.2gdv9t
title: Occurrence Download

description: A dataset containing 23654 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mola mola (Linnaeus, 1758)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen, Material sample)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 23654 records from 275 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010355-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13145/bacdive131646.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131647.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131648.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131651.20241212.9.2
title: Bacillus sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131656.20241212.9.2
title: Modestobacter sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive131657.20241212.9.2
title: Bradyrhizobium sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.5517/cc5gp9l
title: CCDC 163069: Experimental Crystal Structure Determination

description: Related Article: M.Oresic, D.Filic, B.Prugovecki, M.Vinkovic, M.Dumic|2001|Croat.Chem.Acta|74|667|
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.3535/bsy-bnr-y9t
title: Oxybasis rubra (L.) S. Fuentes, Uotila & Borsch

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/d0w-09g-8vf
title: Ulmus glabra Huds.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.5517/cc5c17s
title: CCDC 159564: Experimental Crystal Structure Determination

description: Related Article: M.Majeric-Elenkov, D.Ziher, A.Visnjevac, Z.Hamersak, B.Kojic-Prodic, V.Sunjic|2001|Croat.Chem.Acta|74|707|
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.3535/gpw-kna-4rk
title: Carex hirta L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/smb-hnl-vkj
title: Potentilla supina subsp. supina

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/e2a-ef3-7ml
title: Suaeda maritima subsp. maritima

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/c44-40y-kcc
title: Spergularia media subsp. angustata (Clavaud) Kerguélen & Lambinon

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/glv-69s-cek
title: Claytonia perfoliata Donn.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/lzj-45m-y0a
title: Logfia minima (Sm.) Dumort.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.