cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.0ku7ew
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Guatemala",
 "DatasetKey is International Collection of Microorganisms from Plants (ICMP)"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020319-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ktxckz
title: Occurrence Download

description: A dataset containing 35215 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Semotilus atromaculatus (Mitchill, 1818))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 35215 records from 68 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048631-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wec3f4
title: Occurrence Download

description: A dataset containing 103 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((107.80695 -7.68545,107.81794 -7.69163,107.83201 -7.69884,107.83613 -7.71395,107.8351 -7.72184,107.84643 -7.73695,107.85124 -7.73592,107.86909 -7.7397,107.88488 -7.74176,107.89278 -7.73661,107.89999 -7.74038,107.90583 -7.73695,107.91029 -7.73146,107.94153 -7.73317,107.94394 -7.71875,107.9254 -7.68442,107.88523 -7.66314,107.83785 -7.66245,107.80695 -7.68545))",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 103 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0153359-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15111713
title: CTD measurements (different probe types) performed during a coastal cruise on August 24, 2023 (Ligurian Sea, La Spezia Gulf)-Part A

description: Dataset obtained by CTD measurements (different probe types) performed during a coastal cruise on August 24, 2023 (Ligurian Sea, La Spezia Gulf) are here reported in txt-format files and space-separated columns. The contents of each file are reported in the summary file "ENEA_Dataset-2023-Part A_File explanatory table"
DOI: 10.5281/zenodo.15111714
title: CTD measurements (different probe types) performed during a coastal cruise on August 24, 2023 (Ligurian Sea, La Spezia Gulf)-Part A

description: Dataset obtained by CTD measurements (different probe types) performed during a coastal cruise on August 24, 2023 (Ligurian Sea, La Spezia Gulf) are here reported in txt-format files and space-separated columns. The contents of each file are reported in the summary file "ENEA_Dataset-2023-Part A_File explanatory table"
DOI: 10.15468/dl.appzcb
title: Occurrence Download

description: A dataset containing 8278 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhododendron lapponicum (L.) Wahlenb."
 ]
}

 The dataset includes 8278 records from 207 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007893-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.et8s3p
title: Occurrence Download

description: A dataset containing 6830 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Hieracium alpinum L., Hieracium alpinum subsp. anzascae, Hieracium alpinum subsp. eupseudofritzei, Hieracium alpinum subsp. rhaeticum Zahn, 1901, Hieracium alpinum var. alpinum, Hieracium pseudofritzei Benz & Zahn, Hieracium pumilum Hoppe, Hieracium pumilum Hoppe ex Willd., 1803)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Machine Observation)"
 ]
 }
 },
 "Continent is Europe",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2024",
 "Month is greater than or equal to January",
 "Month is less than or equal to September"
 ]
}

 The dataset includes 6830 records from 112 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007898-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48573/98n7-5v29
title: Surface Groups Mauritania 1984-2021
DOI: 10.48573/thfw-w324
title: Surface Groups Mauritania 1984-2021
DOI: 10.15468/dl.5ddbj4
title: Occurrence Download

description: A dataset containing 3626 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Paeonia obovata Maxim."
 ]
}

 The dataset includes 3626 records from 160 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007901-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15100535
title: The data for: Analysis of NUDIX enzymes across fungi reveals previously unrecognized diversity

description: This dataset provides all the raw data used in the    Analysis of NUDIX enzymes across fungi reveals previously unrecognized diversity manuscript including:

Supplementary file S1 

This a spreadsheet with all identifiers, comparison of the NUDIX box among subfamilies and expression data




S1
List of 183 fungal assemblies


S2
List of protein IDs associated with each new subfamily


S3
Conservation of NUDIX box motif across new subfamilies


S4
New subfamilies vs phyla


S5
Fungal transriptomic dataset


S6 




Transcriptomic expression data for canonical NUDIX families




S7 




Transcriptomic expression data for new NUDIX subfamilies




S8 




List of domains beside NUDIX superfamily in blastp search






Folders: 

docking results pH8

stores all the molecular docking results for all of the compounds tested for 2 proteins representing each of the 13 novel subfamilies

docking structures pdb

stores all the structures in pdb format

new subfamilies aln


stores the alignments of all 13 new subfamilies in fasta format

phylogenetic tree files

stores the phylogenetic trees coputed with IqTree2 in newick format

 

This work was supported by National Science Centre grants (#2021/41/B/NZ2/02426 to A.M.)
DOI: 10.5281/zenodo.15100536
title: The data for: Analysis of NUDIX enzymes across fungi reveals previously unrecognized diversity

description: This dataset provides all the raw data used in the    Analysis of NUDIX enzymes across fungi reveals previously unrecognized diversity manuscript including:

Supplementary file S1 

This a spreadsheet with all identifiers, comparison of the NUDIX box among subfamilies and expression data




S1
List of 183 fungal assemblies


S2
List of protein IDs associated with each new subfamily


S3
Conservation of NUDIX box motif across new subfamilies


S4
New subfamilies vs phyla


S5
Fungal transriptomic dataset


S6 




Transcriptomic expression data for canonical NUDIX families




S7 




Transcriptomic expression data for new NUDIX subfamilies




S8 




List of domains beside NUDIX superfamily in blastp search






Folders: 

docking results pH8

stores all the molecular docking results for all of the compounds tested for 2 proteins representing each of the 13 novel subfamilies

docking structures pdb

stores all the structures in pdb format

new subfamilies aln


stores the alignments of all 13 new subfamilies in fasta format

phylogenetic tree files

stores the phylogenetic trees coputed with IqTree2 in newick format

 

This work was supported by National Science Centre grants (#2021/41/B/NZ2/02426 to A.M.)
DOI: 10.6084/m9.figshare.28695140
title: A Mechanical Route for Cooperative Transport in Autonomous Robotic Swarms

description: Data used to generate figures found in the manuscript (arranged by ./Fig#/panel)
DOI: 10.15468/dl.x6z8qq
title: Occurrence Download

description: A dataset containing 8116 species occurrences available in GBIF matching the query:
{
 "or" : [
 "Geometry POLYGON((-220.29675 35.67999,-220.28331 35.67999,-220.28331 35.68982,-220.29675 35.68982,-220.29675 35.67999))",
 "Geometry POLYGON((-220.29824 35.67985,-220.2828 35.67985,-220.2828 35.69052,-220.29824 35.69052,-220.29824 35.67985))"
 ]
}

 The dataset includes 8116 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007902-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10708054
title: Grassland Hyperspectral Dataset and Code Notebook for Soil Organic Carbon Modeling

description: This repository includes the hyperspectral images, reference soil organic carbon concentrations, and the code notebook used for hyperspectral soil organic carbon modelling. This repository is associated with the following publication:

Kabiri S, O’Rourke SM. Coarse to Super-Fine: Can Hyperspectral Soil Organic Carbon Models Predict Higher Resolution Information?. Frontiers in Soil Environmental Science. 2024; 12: 1392469. https://doi.org/10.3389/fenvs.2024.1392469

This research was funded by the Irish Research Council, grant no. IRCLA/2017/137.
DOI: 10.5281/zenodo.10705701
title: Grassland Hyperspectral Dataset and Code Notebook for Soil Organic Carbon Modeling

description: This repository includes the hyperspectral images, reference soil organic carbon concentrations, and the code notebook used for hyperspectral soil organic carbon modelling. This repository is associated with the following publication:

Kabiri S, O’Rourke SM. Coarse to Super-Fine: Can Hyperspectral Soil Organic Carbon Models Predict Higher Resolution Information?. Frontiers in Soil Environmental Science. 2024; 12: 1392469. https://doi.org/10.3389/fenvs.2024.1392469

This research was funded by the Irish Research Council, grant no. IRCLA/2017/137.
DOI: 10.15468/dl.6yc3r6
title: Occurrence Download

description: A dataset listing the 139 species recorded in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "TaxonKey is Tracheophyta",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2024",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen, Living Specimen)"
 ]
 }
 },
 {
 "not" : {
 "Issue" : [
 "is Occurrence status unparsable"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than or equal to 6000",
 "CoordinateUncertaintyInMeters is null"
 ]
 },
 "PublishingOrg is c8d737e0-2ff8-42e8-b8fc-6b805d26fc5f",
 "Geometry POLYGON ((0.300376 44.136506, 0.546826 44.05673, 0.583794 44.136506, 0.423601 44.242876, 0.633084 44.375837, 0.780954 44.420157, 0.780954 44.499934, 0.731664 44.677216, 0.509859 44.668352, 0.325021 44.650623, 0.164828 44.677216, -0.081623 44.641759, -0.217171 44.53539, -0.106268 44.464478, 0.016957 44.455614, 0.103215 44.384701, -0.02001 43.950361, 0.115538 43.888312, 0.300376 44.136506))"
 ]
}

 The dataset's 139 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007894-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2kz39z
title: CCDC 2382421: Experimental Crystal Structure Determination

description: Related Article: Matthew C. Fitzsimmons, Maria C. Seith, Curtis E. Moore, Christine M. Thomas|2025|Chemical Science|16|5717|doi:10.1039/D4SC08818B
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: 10.5517/ccdc.csd.cc2kz3b0
title: CCDC 2382422: Experimental Crystal Structure Determination

description: Related Article: Matthew C. Fitzsimmons, Maria C. Seith, Curtis E. Moore, Christine M. Thomas|2025|Chemical Science|16|5717|doi:10.1039/D4SC08818B
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: 10.5517/ccdc.csd.cc2kz3c1
title: CCDC 2382423: Experimental Crystal Structure Determination

description: Related Article: Matthew C. Fitzsimmons, Maria C. Seith, Curtis E. Moore, Christine M. Thomas|2025|Chemical Science|16|5717|doi:10.1039/D4SC08818B
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: 10.5517/ccdc.csd.cc2l8lp5
title: CCDC 2391547: Experimental Crystal Structure Determination

description: Related Article: Yuji Kawasaki, Daisuke Kasai, Masafumi Ueda, Miyu Takezaki, Aya Yoshimura, Takashi Shirahata, Yohji Misaki|2025|Org.Lett.|27|2323|doi:10.1021/acs.orglett.4c04770
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: 10.5517/ccdc.csd.cc2l8lq6
title: CCDC 2391548: Experimental Crystal Structure Determination

description: Related Article: Yuji Kawasaki, Daisuke Kasai, Masafumi Ueda, Miyu Takezaki, Aya Yoshimura, Takashi Shirahata, Yohji Misaki|2025|Org.Lett.|27|2323|doi:10.1021/acs.orglett.4c04770
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: 10.5517/ccdc.csd.cc2l8p6s
title: CCDC 2391625: Experimental Crystal Structure Determination

description: Related Article: Aiwen Yu, Wenkang Jiang, Yunjun Shen, Yuzhen Zhang|2025|Cryst.Growth Des.|25|1872|doi:10.1021/acs.cgd.4c01747
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: 10.5517/ccdc.csd.cc2l8p8v
title: CCDC 2391627: Experimental Crystal Structure Determination

description: Related Article: Aiwen Yu, Wenkang Jiang, Yunjun Shen, Yuzhen Zhang|2025|Cryst.Growth Des.|25|1872|doi:10.1021/acs.cgd.4c01747
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: 10.15468/dl.mwaska
title: Occurrence Download

description: A dataset containing 88825 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Leymus Hochst."
 ]
}

 The dataset includes 88825 records from 566 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007892-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2l8yb5
title: CCDC 2391877: Experimental Crystal Structure Determination

description: Related Article: Aiwen Yu, Wenkang Jiang, Yunjun Shen, Yuzhen Zhang|2025|Cryst.Growth Des.|25|1872|doi:10.1021/acs.cgd.4c01747
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: 10.6084/m9.figshare.28531124
title: Induction of SOX17 with stimulation of WNT, TGF-beta and FGF signaling drives embryonal carcinomas into the yolk-sac tumor lineage resulting in increased cisplatin resistance

description: Relapsing germ cell tumor (GCT) patients often harbour components of the aggressive subtype yolk-sac tumor (YST), suggesting that YST formation is an escape mechanism under therapy. Nevertheless, the molecular mechanisms inducing YST development from its stem cell-like precursor embryonal carcinoma (EC) are largely unexplored.We demonstrated that induction of the transcription factor SOX17 together with stimulation of WNT, TGF-beta/Activin and FGF signalling drives EC cells to into the YST lineage. Single-cell-RNA-sequencing revealed that this cell fate switch was accompanied by upregulation of the typical YST factors <i>AFP</i>, <i>ANKRD1</i>, <i>APOA1</i>, <i>CST1</i>, <i>FOXA2</i>, <i>GATA6</i> and <i>GPC3</i><i> </i>and microRNAs, while pluripotency-related genes <i>NANOG</i>, <i>POU5F1</i>, and<i>SOX2</i> were downregulated. Chromatin-immunoprecipitation followed by sequencing analysis revealed that SOX17 may act in concert with FOXA2 and GATA factors to initiate YST formation. Xenografting of the YST-like cells into nude mice led to growth of mixed GCT with YST components, confirming that these cells are able to form a YST <i>in vivo</i>. Moreover, expression of cisplatin resistance factors was induced in a subpopulation of YST-like cells, suggesting that formation of a YST is accompanied by acquisition of cisplatin resistance. Indeed, the YST-like cells presented as less sensitive towards cisplatin than their parental cells.Our study deciphered the molecular mechanisms forcing EC to differentiate into the YST lineage, which is accompanied by acquisition of cisplatin resistance, confirming that YST formation is an escape mechanism for GCT under therapy. Thus, GCT patients should be screened for YST elements under therapy to identify patients in risk of developing therapy resistance.
DOI: 10.6084/m9.figshare.28531124.v3
title: Induction of SOX17 with stimulation of WNT, TGF-beta and FGF signaling drives embryonal carcinomas into the yolk-sac tumor lineage resulting in increased cisplatin resistance

description: Relapsing germ cell tumor (GCT) patients often harbour components of the aggressive subtype yolk-sac tumor (YST), suggesting that YST formation is an escape mechanism under therapy. Nevertheless, the molecular mechanisms inducing YST development from its stem cell-like precursor embryonal carcinoma (EC) are largely unexplored.We demonstrated that induction of the transcription factor SOX17 together with stimulation of WNT, TGF-beta/Activin and FGF signalling drives EC cells to into the YST lineage. Single-cell-RNA-sequencing revealed that this cell fate switch was accompanied by upregulation of the typical YST factors <i>AFP</i>, <i>ANKRD1</i>, <i>APOA1</i>, <i>CST1</i>, <i>FOXA2</i>, <i>GATA6</i> and <i>GPC3</i><i> </i>and microRNAs, while pluripotency-related genes <i>NANOG</i>, <i>POU5F1</i>, and<i>SOX2</i> were downregulated. Chromatin-immunoprecipitation followed by sequencing analysis revealed that SOX17 may act in concert with FOXA2 and GATA factors to initiate YST formation. Xenografting of the YST-like cells into nude mice led to growth of mixed GCT with YST components, confirming that these cells are able to form a YST <i>in vivo</i>. Moreover, expression of cisplatin resistance factors was induced in a subpopulation of YST-like cells, suggesting that formation of a YST is accompanied by acquisition of cisplatin resistance. Indeed, the YST-like cells presented as less sensitive towards cisplatin than their parental cells.Our study deciphered the molecular mechanisms forcing EC to differentiate into the YST lineage, which is accompanied by acquisition of cisplatin resistance, confirming that YST formation is an escape mechanism for GCT under therapy. Thus, GCT patients should be screened for YST elements under therapy to identify patients in risk of developing therapy resistance.
DOI: 10.15468/dl.gpafxf
title: Occurrence Download

description: A dataset containing 4906813 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "PublishingCountry is France"
 ]
}

 The dataset includes 4906813 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007891-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2l8p7t
title: CCDC 2391626: Experimental Crystal Structure Determination

description: Related Article: Aiwen Yu, Wenkang Jiang, Yunjun Shen, Yuzhen Zhang|2025|Cryst.Growth Des.|25|1872|doi:10.1021/acs.cgd.4c01747
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: 10.5517/ccdc.csd.cc2mdwzx
title: CCDC 2425470: Experimental Crystal Structure Determination

description: Related Article: N.H. Metwally, G.H. Elgemeie, E.S.M. Abd Al-latif, P.G. Jones|2025|Acta Crystallogr.,Sect.E:Cryst.Commun.|81|279|doi:10.1107/S2056989025001562
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: 10.5517/ccdc.csd.cc2mfx44
title: CCDC 2426436: Experimental Crystal Structure Determination

description: Related Article: M. Hakimov, I. Ortikov, T. Sattarov, B. Tashkhodjaev, A. Tojiboev|2025|Acta Crystallogr.,Sect.E:Cryst.Commun.|81|271|doi:10.1107/S2056989025001732
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.