cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/cc3k35x
title: CCDC 105808: Experimental Crystal Structure Determination

description: Related Article: H.J.Breunig, M.Denker, E.Lork|1999|Z.Anorg.Allg.Chem.|625|117|doi:10.1002/(SICI)1521-3749(199901)625:1<117::AID-ZAAC117>3.0.CO;2-K
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/cc3k36y
title: CCDC 105809: Experimental Crystal Structure Determination

description: Related Article: H.J.Breunig, M.Denker, E.Lork|1999|Z.Anorg.Allg.Chem.|625|117|doi:10.1002/(SICI)1521-3749(199901)625:1<117::AID-ZAAC117>3.0.CO;2-K
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/cc3k64z
title: CCDC 105900: Experimental Crystal Structure Determination

description: Related Article: H.Ackermann, F.Weller, B.Neumueller, K.Dehnicke|1999|Z.Anorg.Allg.Chem.|625|147|doi:10.1002/(SICI)1521-3749(199901)625:1<147::AID-ZAAC147>3.3.CO;2-#
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/cc3n9wx
title: CCDC 108899: Experimental Crystal Structure Determination

description: Related Article: R.Minkwitz, S.Reinemann|1999|Z.Anorg.Allg.Chem.|625|121|doi:10.1002/(SICI)1521-3749(199901)625:1<121::AID-ZAAC121>3.3.CO;2-V
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: 10.25346/s6eecgix/uypeuy
title: msXL_334r.jpg
DOI: 10.5517/cc3k4md
title: CCDC 105853: Experimental Crystal Structure Determination

description: Related Article: H.Ackermann, F.Weller, B.Neumueller, K.Dehnicke|1999|Z.Anorg.Allg.Chem.|625|147|doi:10.1002/(SICI)1521-3749(199901)625:1<147::AID-ZAAC147>3.3.CO;2-#
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/cc3nysg
title: CCDC 109516: Experimental Crystal Structure Determination

description: Related Article: J.Pickardt, S.Dechert|1999|Z.Anorg.Allg.Chem.|625|153|doi:10.1002/(SICI)1521-3749(199901)625:1<153::AID-ZAAC153>3.0.CO;2-K
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.dbpdrs
title: Occurrence Download

description: A dataset containing 58 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Saussurea dolichopoda Diels"
 ]
}

 The dataset includes 58 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0277487-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.idcmz6
title: Occurrence Download

description: A dataset containing 4070 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Specimen"
 ]
 },
 {
 "or" : [
 "Country is Mexico",
 "Country is Nicaragua",
 "Country is Guatemala",
 "Country is Honduras",
 "Country is El Salvador",
 "Country is Belize"
 ]
 },
 "Year 2000-2018",
 "HasCoordinate is true",
 "TaxonKey is Turdus rufitorques Hartlaub, 1844",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 4070 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012568-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cbpw5h
title: Occurrence Download

description: A dataset containing 135381 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Passer domesticus (Linnaeus, 1758)"
 ]
}

 The dataset includes 135381 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009163-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rcvgse
title: Occurrence Download

description: A dataset containing 6743 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Erythrodiplax umbrata (Linnaeus, 1758)"
 ]
}

 The dataset includes 6743 records from 56 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0242938-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hivvcf
title: Occurrence Download

description: A dataset containing 77 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Glaucus atlanticus Forster, 1777"
 ]
}

 The dataset includes 77 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012568-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sbxed6
title: Occurrence Download

description: A dataset containing 39969765 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Observation.org, Nature data from around the World"
 ]
}

 The dataset includes 39969765 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0277488-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.azktsq
title: Occurrence Download

description: A dataset containing 153 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Pectis brevipedunculata (Gardner) Sch.Bip."
 ]
}

 The dataset includes 153 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013051-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vtf9f2
title: Occurrence Download

description: A dataset containing 5419 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is Argentina",
 "Country is Bolivia (Plurinational State of)",
 "Country is Brazil",
 "Country is Colombia",
 "Country is French Guiana",
 "Country is Guyana",
 "Country is Paraguay",
 "Country is Peru",
 "Country is Suriname",
 "Country is Venezuela (Bolivarian Republic of)"
 ]
 },
 "OccurrenceStatus is Present",
 "TaxonKey is Tapirus terrestris (Linnaeus, 1758)"
 ]
}

 The dataset includes 5419 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194589-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.unahvv
title: Occurrence Download

description: A dataset containing 1482 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Benthic communities and environmental parameters in Amvrakikos Wetlands: Mazoma, Tsopeli,Tsoukalio, Rodia and Logarou lagoons (September 2010 – July 2011)"
 ]
}

 The dataset includes 1482 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012569-180412121330197/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.48ynkk
title: Occurrence Download

description: A dataset containing 671 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Australia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Eucalyptus dunnii Maiden"
 ]
}

 The dataset includes 671 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0219673-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.evvxma
title: Occurrence Download

description: A dataset containing 1320555 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "License is one of (CC-BY 4.0, CC0 1.0, CC-BY-NC 4.0)",
 "TaxonKey is Melanerpes erythrocephalus (Linnaeus, 1758)",
 "Year 2004-2024"
 ]
}

 The dataset includes 1320555 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050206-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zh8q4b
title: Occurrence Download

description: A dataset containing 50 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dusisiren jordani (Kellogg, 1925) Domning, 1978"
 ]
}

 The dataset includes 50 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009153-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.htk735
title: Occurrence Download

description: A dataset containing 505 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Solomon Islands",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Ducula pistrinaria Bonaparte, 1855"
 ]
}

 The dataset includes 505 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0213981-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y4z3h7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Echinodontium tinctorium (Ellis & Everh.) Ellis & Everh.",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 {
 "or" : [
 "Country is Poland",
 "Country is Poland"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0393630-210914110416597/datasets/export for details.
DOI: 10.15468/dl.ales7w
title: Occurrence Download

description: A dataset containing 4198 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Specimen"
 ]
 },
 {
 "or" : [
 "Country is Mexico",
 "Country is Nicaragua",
 "Country is Guatemala",
 "Country is Honduras",
 "Country is El Salvador",
 "Country is Belize"
 ]
 },
 "Year 2000-2018",
 "HasCoordinate is true",
 "TaxonKey is Uropsila leucogastra (Gould, 1837)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 4198 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012569-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5zdvk6
title: Occurrence Download

description: A dataset containing 3245107 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Chile",
 "OccurrenceStatus is Present",
 "Year 2000-2021"
 ]
}

 The dataset includes 3245107 records from 631 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008191-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2n6rju
title: Occurrence Download

description: A dataset containing 50553 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Melissa officinalis L."
 ]
}

 The dataset includes 50553 records from 511 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0213944-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pa9q9c
title: Occurrence Download

description: A dataset containing 282 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-10.0",
 "GadmGid is USA.45_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Acer L.",
 "Year 2010-2021"
 ]
}

 The dataset includes 282 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0221414-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9nkgfo
title: Occurrence Download

description: A dataset containing 3617 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cariniana Casar."
 ]
}

 The dataset includes 3617 records from 141 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012569-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g2math
title: Occurrence Download

description: A dataset containing 2957 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tremarctos ornatus (F.G.Cuvier, 1825)"
 ]
}

 The dataset includes 2957 records from 78 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0194623-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.frta7t
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Zimbabwe",
 "TaxonKey is Limnobium laevigatum"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0062387-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7278/s5d-btv7-ztpw
title: Dual Fluoroscopy In Vivo Pelvic and Hip Joint Kinematics in Patients With Cam Femoroacetabular Impingement Syndrome
DOI: 10.15468/dl.0hcl4u
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001789-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4kp8ss
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014496-160311141623029/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9ffa6j
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000251-171219132708484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aag5bf
title: Occurrence Download

description: A dataset containing 1060854748 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 1060854748 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015494-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dyctbf
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 32 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032498-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yb83w4
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005854-160311141623029/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.oxgidr
title: Occurrence Download

description: A dataset containing 205959174 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Year 1000-2019",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 205959174 records from 4676 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010655-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17401000
title: Atom level enzyme active site scaffolding using RFdiffusion2

description: This is the official data deposition for the manuscript "Atom level enzyme active site scaffolding using RFdiffusion2"

Many of the figures in manuscript were composed of analysis of large numbers of PDB files corresponding to generations of RFdiffusion2 under different conditions. These files are 100s of GB and thus we cannot store them here. To this end, we are storing them on a persistent IPD server: https://files.ipd.uw.edu/pub/ 

In each directory, we will either archive the source files unaltered for small files or a file that simply has the URL necessary to download the requisite files. In cases of large tar files with many PDB files, we have also included a manifest here indicating what data is expected to be present.  

@article{ahern2025atom,  title={Atom level enzyme active site scaffolding using RFdiffusion2},  author={Ahern, Woody and Yim, Jason and Tischer, Doug and Salike, Saman and Woodbury, Seth M and Kim, Donghyo and Kalvet, Indrek and Kipnis, Yakov and Coventry, Brian and Altae-Tran, Han Raut and others},  journal={bioRxiv},  pages={2025--04},  year={2025},  publisher={Cold Spring Harbor Laboratory}}
DOI: 10.5281/zenodo.17401001
title: Atom level enzyme active site scaffolding using RFdiffusion2

description: This is the official data deposition for the manuscript "Atom level enzyme active site scaffolding using RFdiffusion2"

Many of the figures in manuscript were composed of analysis of large numbers of PDB files corresponding to generations of RFdiffusion2 under different conditions. These files are 100s of GB and thus we cannot store them here. To this end, we are storing them on a persistent IPD server: https://files.ipd.uw.edu/pub/ 

In each directory, we will either archive the source files unaltered for small files or a file that simply has the URL necessary to download the requisite files. In cases of large tar files with many PDB files, we have also included a manifest here indicating what data is expected to be present.  

@article{ahern2025atom,  title={Atom level enzyme active site scaffolding using RFdiffusion2},  author={Ahern, Woody and Yim, Jason and Tischer, Doug and Salike, Saman and Woodbury, Seth M and Kim, Donghyo and Kalvet, Indrek and Kipnis, Yakov and Coventry, Brian and Altae-Tran, Han Raut and others},  journal={bioRxiv},  pages={2025--04},  year={2025},  publisher={Cold Spring Harbor Laboratory}}
DOI: 10.13145/bacdive161381.20241212.9.2
title: <i>Microbacterium</i> <i>testaceum</i> (Komagata and Iizuka 1964) Takeuchi and Hatano 1998

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive161381.20251217.10
title: <i>Microbacterium</i> <i>testaceum</i> (Komagata and Iizuka 1964) Takeuchi and Hatano 1998

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive161382.20250331.9.3
title: <i>Halococcus</i> <i>qingdaonensis</i> Wang <i>et al.</i> 2007

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive161382.20251217.10
title: <i>Halococcus</i> <i>qingdaonensis</i> Wang <i>et al.</i> 2007

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive161383.20241212.9.2
title: <i>Microbacterium</i> sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive161383.20251217.10
title: <i>Microbacterium</i> sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive161384.20241212.9.2
title: <i>Microbacterium</i> sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.