cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/d5bpb-26q06
title: Myxococcus xanthus JK328

description: Bactofilin BacMNOP knockout strain. Imaged by Janelia Titan
description: <strong>Tilt Series Date:</strong> 2013-07-22</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Myxococcus xanthus</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1.0°, constant angular increment, dosage: 130.0 eV/Å²,  defocus: -10.0 μm,  magnification: 26000x. </p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain from Martin Thanbichler</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells grown 48 hr in CTT medium at 30 degrees without antibiotics. OD600=0.7</p>
<strong>Sample Preparation:</strong> Vitrobot settings: 100% humidity, 3µl sample, 10 mg/ml BSA treated gold. -3 offset, 4 sec blot time, no drain. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200</p>
  ycw2013-07-22-69_slicer6860.jpg: unknown tube
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-07-22-69/rawdata/</p>07222013_Janelia_Myxo_JK328_20011.mrc,  Tilt Series (Pixel Size 0.42 nm), 3.6 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-07-22-69/rawdata/07222013_Janelia_Myxo_JK328_20011.mrc"
        > <i class="download icon"></i> Download </a></p>

        07222013_Janelia_Myxo_JK328_20011_part131_44.rec,  Reconstruction (Pixel Size 1.68 nm), 430.6 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-07-22-69/3dimage_28562/07222013_Janelia_Myxo_JK328_20011_part131_44.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.f4uk7q
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Baileychromis centropomoides, Barboides gracilis, Barbopsis devecchii, Barbus hondeensis, Enteromius manicensis, Barbus kamaia, Enteromius motebensis, Barbus microbarbis, Labeobarbus microbarbis, Barbus microterolepis, Labeobarbus microterolepis, Barbus myersi, Enteromius radiatus, Barbus paucisquamatus, Labeobarbus paucisquamatus, Barbus tetraspilus, Barilius shariensis, Raiamas shariensis, Bathyaethiops breuseghemi, Bathyaethiops caudomaculatus, Bathyaethiops greeni, Bathybagrus grandis, Bathybagrus graueri, Bathybagrus platycephalus, Bathybagrus sianenna, Bathybagrus stappersii, Bathybagrus tetranema, Bathybates fasciatus, Bathybates ferox, Bathybates graueri, Bathybates hornii, Bathybates leo, Bathybates minor, Bathybates vittatus, Bathyclarias atribranchus, Bathyclarias euryodon, Bathyclarias filicibarbis, Bathyclarias foveolatus, Bathyclarias longibarbis, Bathyclarias nyasensis, Bathyclarias rotundifrons, Bathyclarias worthingtoni, Bathygobius casamancus, Bathygobius fuscus, Bathygobius petrophilus, Bathygobius samberanoensis, Bathygobius soporator, Bedotia albomarginata, Bedotia alveyi, Bedotia geayi, Bedotia leucopteron, Bedotia longianalis, Bedotia madagascariensis, Bedotia marojejy, Bedotia masoala, Bedotia tricolor, Belonoglanis brieni, Belonoglanis tenuis, Belonophago hutsebouti, Belonophago tinanti, Benitochromis batesii, Benitochromis conjunctus, Benitochromis finleyi, Benitochromis nigrodorsalis, Benitochromis riomuniensis, Benitochromis ufermanni, Benthochromis melanoides, Benthochromis tricoti, Boleophthalmus boddarti, Bostrychus africanus, Boulengerochromis microlepis, Boulengeromyrus knoepffleri, Brachyalestes bimaculatus, Brachyalestes carolinae, Brachyalestes comptus, Brachyalestes fwaensis, Brachyalestes imberi, Brycinus imberi, Brachyalestes jacksonii, Brachyalestes kingsleyae, Brachyalestes nurse, Brachypetersius altus, Brachypetersius cadwaladeri, Brachypetersius gabonensis, Brachypetersius huloti, Brachypetersius pseudonummifer, Brevimyrus niger, Brienomyrus brachyistius)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((53.2221 -7.3094,53.175 -6.9401,52.2917 -6.9401,52.2873 -7.3844,52.5484 -7.6243,53.0196 -7.576,53.2221 -7.3094))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005934-250827131500795/datasets/export for details.
DOI: 10.22002/nqskb-y2v88
title: O. tauri MG132 arrest

description: Ostreococcus tauri cryosections
description: <strong>Tilt Series Date:</strong> 2009-10-28</p>
<strong>Data Taken By:</strong> Lu Gan</p>
<strong>Species / Specimen:</strong> Ostreococcus tauri</p>
<strong>Strain:</strong> RCC745</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -10.0 μm,  magnification: 18000x. </p>
<strong>Acquisition Software:</strong> UCSF tomo</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> imod</p>
<strong>Collaborators and Roles:</strong> prepared by Lu Gan at Caltech; high-pressure frozen and cryosectioned by Mark Ladinsky; data collected by Lu Gan; processed by Lu Gan</p>
<strong>Purification / Growth Conditions / Treatment:</strong> 9h in 1mM Hydroxyurea, 12h in 50uM Propyzamide, 70m in 50uM MG132</p>
<strong>Sample Preparation:</strong> Cryoprotectant: 10mg/ml BSA, 2X 10nm gold, 20% Dextran; Cells mixed w/ cryoprotectant shortly before HPF </p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lga2009-10-28-1/3dimage_11613/</p>RCC745_MGtovis_303.rec,  Reconstruction (Pixel Size 1.26 nm), 421.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lga2009-10-28-1/3dimage_11613/RCC745_MGtovis_303.rec"
        > <i class="download icon"></i> Download </a></p>

        RCC745_MGtovis_303.mrc,  Tilt Series (Pixel Size 1.26 nm), 687.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lga2009-10-28-1/rawdata/RCC745_MGtovis_303.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.ctkv9y
title: Occurrence Download

description: A dataset containing 17206 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Drymocallis rupestris"
 ]
}

 The dataset includes 17206 records from 322 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005933-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3f8mqn
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Enteromius argenteus (Günther, 1868)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((20.7576 -24.3688,20.529 -24.0715,20.509 -24.0715,20.509 -28.5786,25.5395 -28.5786,25.5395 -24.0715,25.1306 -24.0715,24.9333 -24.4571,23.8962 -24.2467,22.8065 -24.295,22.3719 -24.7207,22.2323 -25.547,22.0387 -25.7188,21.7833 -25.7784,21.5388 -25.7113,21.3553 -25.5415,20.7576 -24.3688))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023202-250525065834625/datasets/export for details.
DOI: 10.5281/zenodo.15602149
title: ChemProp multi-task models for predicting ADME properties in the Polaris challenge

description: Dataset belonging to the preprint/publication of: 

ChemProp multi-task models for predicting ADME properties in the Polaris challenge
DOI: 10.5281/zenodo.15602150
title: ChemProp multi-task models for predicting ADME properties in the Polaris challenge

description: Dataset belonging to the preprint/publication of: 

ChemProp multi-task models for predicting ADME properties in the Polaris challenge
DOI: 10.5258/soton/d3510
title: Data from Targeting the IRES structure of mRNA for modulating gene translation

description: This dataset contains material analysed in Ferriol Monjo, A. (2025). Targeting the IRES structure of mRNA for modulating gene translation. [Doctoral Thesis, University of Southampton].

Due to the size, approx 13GB, the dataset is available on request. If you would like access, please compete the form: https://library.soton.ac.uk/datarequest
DOI: 10.15468/dl.f5h976
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hydrocynus vittatus Castelnau, 1861",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((15.6372 -28.0032,16.2782 -28.5786,20.509 -28.5786,20.509 -24.0715,15.4933 -24.0715,15.4945 -24.1257,16.0509 -25.6631,15.6372 -28.0032))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022685-250525065834625/datasets/export for details.
DOI: 10.15468/dl.3upan2
title: Occurrence Download

description: A dataset containing 166 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Quercus suber",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 166 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000182-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w2uz2g
title: Occurrence Download

description: A dataset containing 14423 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (South America, North America)",
 "EarliestEpochOrLowestSeries is Pleistocene",
 "PublishingOrg is ff418020-1d67-11d9-8435-b8a03c50a862",
 "TaxonKey is Carnivora"
 ]
}

 The dataset includes 14423 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000177-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25625/aqetjv
title: Emulation of Heterogeneous Kubernetes Clusters Using QEMU

description: Kubernetes, as the current de-facto industry standard for container orchestration, is used for deploying and managing containerized applications in the cloud. It dynamically scales the amount of containers depending on demand. For this, the Kubernetes scheduler de- termines on which underlying hardware the additional resources should be placed. Most Kubernetes clusters run on homogeneous hardware in data centers, and for this scenario most scheduling algorithms are developed. When the underlying system becomes more heterogeneous, scheduling decisions become more complex and time intensive. For testing algorithms that are designed for heterogeneous hardware systems, respective environments are needed. An alternative to buying heterogeneous hardware and adding it to the compute resources is the simulation of clusters and workloads using tools like CloudSim or K8sSim. However, simulations suffer from a low level of detail. In this thesis we present Q8S which can be used to automatically set up a highly avail- able Kubernetes cluster based on user specifications in an OpenStack environment. It uses QEMU for emulating the Kubernetes node’s hardware which offers a higher level of detail than simulations. This enables more thorough testing and analysis of the behavior of scheduling algorithms or applications in heterogeneous clusters. It may also provide training environments for Kubernetes scheduling algorithms using machine learning tech- niques. The evaluation of the bandwidth, CPU and RAM usage of Q8S nodes using the k8s- bench-suite shows that, while the nodes suffer from emulation overhead, the proposed application provides a working Kubernetes cluster with nodes running on heterogeneous, emulated hardware. Q8S is Open Source and can be customized to meet the needs regard- ing the node’s system specifications or other functionalities that are provided by QEMU and libvirt.
DOI: 10.5066/p13rad5g
title: Numerical simulations of lithospheric shortening on the ice-covered moons Europa and Enceladus

description: Jupiter’s moon Europa and Saturn’s moon Enceladus have many commonalities; however, the surfaces of the two moons bear little resemblance to each other. Significantly, although both moons show ample evidence of lithospheric extension (e.g., rifting), only Enceladus has obvious features formed by lithospheric shortening. We hypothesize that this difference is primarily caused by the thermal conditions when tectonic activity occurred. Enceladus’ cold surface favors faulting and the formation of ridges and troughs during lithospheric shortening, whereas Europa’s warmer temperatures lead to folding. The latter are difficult to identify in the sparse available topography data for Europa. The twenty numerical simulations of tectonism on icy moons collected here support that hypothesis. The simulations were performed using the Tekton2.3 finite element code, which solves the non-Newtonian viscoelastic constitutive equations in plain strain. This collection includes the input file, two output files, and a figure showing the distribution of brittle failure and the surface deformation for each simulation. The simulations are described in more detail in the accompanying publication (Bland et al. 2025).
DOI: 10.15468/dl.3acn56
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Micralestes acutidens (Peters, 1852)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((20.2855 -34.7533,20.509 -34.5676,20.509 -32.9007,17.7723 -32.9007,17.8156 -33.0786,18.3471 -33.7176,18.3748 -33.8287,18.2181 -34.0492,18.3197 -34.3408,18.4452 -34.429,18.5435 -34.4213,18.5872 -34.3667,18.5363 -34.167,18.7345 -34.1508,18.7216 -34.3637,18.7808 -34.4521,19.0289 -34.4206,19.0831 -34.4835,19.2655 -34.5017,19.2032 -34.6157,19.2394 -34.6926,19.375 -34.6963,19.6091 -34.8524,19.8251 -34.8396,19.9798 -34.9064,20.1081 -34.8731,20.1517 -34.7847,20.2855 -34.7533))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022777-250525065834625/datasets/export for details.
DOI: 10.15468/dl.6fdcnf
title: Occurrence Download

description: A dataset containing 120683 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Elymus caninus"
 ]
}

 The dataset includes 120683 records from 881 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000121-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wteswf
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ctenopharyngodon idella (Valenciennes, 1844)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((35.628 -23.023,35.6007 -22.9702,35.6007 -23.165,35.628 -23.023))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022943-250525065834625/datasets/export for details.
DOI: 10.5281/zenodo.15540068
title: GenBank Accession Numbers of Phylogenomics of the world's otters

description: This dataset contains the accession numberf for 14 WGS short read  associated with the BioProject PRJNA841998. Scientific name, localities, latitude and longitude are also included.
description: Comparative whole-genome analyses hold great power to illuminate commonalities and differences in the evolution of related species that share similar ecologies. The mustelid subfamily Lutrinae includes 13 currently recognized extant species of otters,1, 2, 3, 4, 5 a semiaquatic group whose evolutionary history is incompletely understood. We assembled a dataset comprising 24 genomes from all living otter species, 14 of which were newly sequenced. We used this dataset to infer phylogenetic relationships and divergence times, to characterize patterns of genome-wide genealogical discordance, and to investigate demographic history and current genomic diversity. We found that genera Lutra, Aonyx, Amblonyx, and Lutrogale form a coherent clade that should be synonymized under Lutra, simplifying the taxonomic structure of the subfamily. The poorly known tropical African Aonyx congicus and the more widespread Aonyx capensis were found to be reciprocally monophyletic (having diverged 440,000 years ago), supporting the validity of the former as a distinct species. We observed variable changes in effective population sizes over time among otters within and among continents, although several species showed similar trends of expansions and declines during the last 100,000 years. This has led to different levels of genomic diversity assessed by overall heterozygosity, genome-wide SNV density, and run of homozygosity burden. Interestingly, there were cases in which diversity metrics were consistent with the current threat status (mostly based on census size), highlighting the potential of genomic data for conservation assessment. Overall, our results shed light on otter evolutionary history and provide a framework for further in-depth comparative genomic studies targeting this group.
description: This study was also funded by the Office of Naval Research Global (award N62909-15-1-N107)
DOI: 10.5281/zenodo.15540069
title: GenBank Accession Numbers of Phylogenomics of the world's otters

description: This dataset contains the accession numberf for 14 WGS short read  associated with the BioProject PRJNA841998. Scientific name, localities, latitude and longitude are also included.
description: Comparative whole-genome analyses hold great power to illuminate commonalities and differences in the evolution of related species that share similar ecologies. The mustelid subfamily Lutrinae includes 13 currently recognized extant species of otters,1, 2, 3, 4, 5 a semiaquatic group whose evolutionary history is incompletely understood. We assembled a dataset comprising 24 genomes from all living otter species, 14 of which were newly sequenced. We used this dataset to infer phylogenetic relationships and divergence times, to characterize patterns of genome-wide genealogical discordance, and to investigate demographic history and current genomic diversity. We found that genera Lutra, Aonyx, Amblonyx, and Lutrogale form a coherent clade that should be synonymized under Lutra, simplifying the taxonomic structure of the subfamily. The poorly known tropical African Aonyx congicus and the more widespread Aonyx capensis were found to be reciprocally monophyletic (having diverged 440,000 years ago), supporting the validity of the former as a distinct species. We observed variable changes in effective population sizes over time among otters within and among continents, although several species showed similar trends of expansions and declines during the last 100,000 years. This has led to different levels of genomic diversity assessed by overall heterozygosity, genome-wide SNV density, and run of homozygosity burden. Interestingly, there were cases in which diversity metrics were consistent with the current threat status (mostly based on census size), highlighting the potential of genomic data for conservation assessment. Overall, our results shed light on otter evolutionary history and provide a framework for further in-depth comparative genomic studies targeting this group.
description: This study was also funded by the Office of Naval Research Global (award N62909-15-1-N107)
DOI: 10.15468/dl.3k7ub9
title: Occurrence Download

description: A dataset containing 370 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Geometry POLYGON((-4.49305 36.66008,-4.44012 36.66008,-4.44012 36.69772,-4.49305 36.69772,-4.49305 36.66008))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 370 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022886-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15428179
title: Evaluation of SWOT Wide-Swath Products in the Chesapeake Bay - A First Comparison with Sentinel-3A, Sentinel-6MF and Tide-Gauges [Sentinel-3A TERPSAR]

description: Sentinel-3A TERPSAR Product used in the study Evaluation of SWOT Wide-Swath Products in the Chesapeake Bay - A First Comparison with Sentinel-3A, Sentinel-6MF and Tide-Gauges. All variables sampled at 20 Hz frequency. Please refer to this updated version of the product for your reference.
DOI: 10.5281/zenodo.15428180
title: Evaluation of SWOT Wide-Swath Products in the Chesapeake Bay - A First Comparison with Sentinel-3A, Sentinel-6MF and Tide-Gauges [Sentinel-3A TERPSAR]

description: [PLEASE REFER TO THE NEWER VERSION OF THE DATABASE FOR YOUR REFERENCE]

Sentinel-3A TERPSAR Product used in the study Evaluation of SWOT Wide-Swath Products in the Chesapeake Bay - A First Comparison with Sentinel-3A, Sentinel-6MF and Tide-Gauges. All variables sampled at 20 Hz frequency.
DOI: 10.60503/d3/jzrfxr
title: Institute of Governmental Studies (IGS) Poll, 2023-07-20

description: The Berkeley IGS Poll is a periodic survey of California public opinion on important matters of politics, public policy, and public issues. The poll, which is disseminated widely, seeks to provide a broad measure of contemporary public opinion, and to generate data for subsequent scholarly analysis. For IGS Poll press releases please visit: eScholarship IGS Poll Press Releases
DOI: 10.15468/dl.vycyfm
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Engraulicypris brevianalis (Boulenger, 1908)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((35.628 -23.023,35.6007 -22.9702,35.6007 -23.165,35.628 -23.023))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022993-250525065834625/datasets/export for details.