cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc2lcvg9
title: CCDC 2394671: Experimental Crystal Structure Determination

description: Related Article: Kinga Szydełko, Sebastian Koniarz, Michał J. Białek, Piotr J. Chmielewski|2025|Dalton Trans.|54|16461|doi:10.1039/d4dt03034f
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.cc2ngk5w
title: CCDC 2456848: Experimental Crystal Structure Determination

description: Related Article: Grzegorz Detlaff, Artur Sikorski, Jarosław Chojnacki, Beata Liberek|2025|Carbohydr.Res.|558||doi:10.1016/j.carres.2025.109693
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.9ghqnz
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-107.6688 22.79913, -107.5188 22.79913, -107.5188 22.94913, -107.6688 22.94913, -107.6688 22.79913))"
 ]
}

 The dataset includes 7 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034264-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17215677
title: United States forensic DNA databases: NDIS, SDIS, and FOIA datasets
title: NDIS time series (2001–2025), SDIS cross-sections, and FOIA-based demographic data.

description: This record contains three datasets describing U.S. forensic DNA databases: an NDIS time series (2001–2025), a 2025 SDIS state cross-section, and 2018 FOIA demographic tables.

The National DNA Index System (NDIS) dataset is a longitudinal series reconstructed from archived FBI webpages, providing jurisdiction-level counts of offender, arrestee, and forensic profiles, along with the number of participating laboratories and investigations aided. The State DNA Index System (SDIS) dataset was compiled through a systematic search of state repositories and statutes conducted in 2025, capturing reported totals, disaggregated counts where available, arrestee-collection status, familial-search policies, and statutory references across all 50 states. The FOIA dataset contains demographic summaries from seven states released in 2018 (Murphy & Tong, 2020), standardized into a tidy long format with race and gender categories harmonized to U.S. Census classifications and provenance flags distinguishing reported from calculated values.

All three datasets are provided as machine-readable CSVs with accompanying data dictionaries and reproducibility notebooks. A provenance manifest documents raw source locations (e.g., Internet Archive snapshots for NDIS, state webpages for SDIS), ensuring transparency even where redistribution of source files is not possible. Figures used in the associated manuscript are also included to illustrate data structure and validation.

 

Note: The largest folder is the NDIS timeseries snapshots. This is zipped within the zipped folder (i.e. nested) so if you unzip the main folder, you will still have to unzip the ndis folder. This is to prevent opening over 10k files unwittingly if you do not immediately need this raw data. Please see the README.md for a description of the file and folder structure. Also the data is available in the GitHub repository and the accompanying Quarto website if you would like to browse without downloading.
DOI: 10.5281/zenodo.17215676
title: United States forensic DNA databases: NDIS, SDIS, and FOIA datasets
title: NDIS time series (2001–2025), SDIS cross-sections, and FOIA-based demographic data.

description: This record contains three datasets describing U.S. forensic DNA databases: an NDIS time series (2001–2025), a 2025 SDIS state cross-section, and 2018 FOIA demographic tables.

The National DNA Index System (NDIS) dataset is a longitudinal series reconstructed from archived FBI webpages, providing jurisdiction-level counts of offender, arrestee, and forensic profiles, along with the number of participating laboratories and investigations aided. The State DNA Index System (SDIS) dataset was compiled through a systematic search of state repositories and statutes conducted in 2025, capturing reported totals, disaggregated counts where available, arrestee-collection status, familial-search policies, and statutory references across all 50 states. The FOIA dataset contains demographic summaries from seven states released in 2018 (Murphy & Tong, 2020), standardized into a tidy long format with race and gender categories harmonized to U.S. Census classifications and provenance flags distinguishing reported from calculated values.

All three datasets are provided as machine-readable CSVs with accompanying data dictionaries and reproducibility notebooks. A provenance manifest documents raw source locations (e.g., Internet Archive snapshots for NDIS, state webpages for SDIS), ensuring transparency even where redistribution of source files is not possible. Figures used in the associated manuscript are also included to illustrate data structure and validation.

 

Note: The largest folder is the NDIS timeseries snapshots. This is zipped within the zipped folder (i.e. nested) so if you unzip the main folder, you will still have to unzip the ndis folder. This is to prevent opening over 10k files unwittingly if you do not immediately need this raw data. Please see the README.md for a description of the file and folder structure. Also the data is available in the GitHub repository and the accompanying Quarto website if you would like to browse without downloading.
DOI: 10.15468/dl.s4cy43
title: Occurrence Download

description: A dataset containing 55 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-107.5188 22.79913, -107.3688 22.79913, -107.3688 22.94913, -107.5188 22.94913, -107.5188 22.79913))"
 ]
}

 The dataset includes 55 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034265-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b57nea
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cyrtocara moorii",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034266-251025141854904/datasets/export for details.
DOI: 10.15468/dl.e7t9dg
title: Occurrence Download

description: A dataset containing 25 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-107.3688 22.79913, -107.2188 22.79913, -107.2188 22.94913, -107.3688 22.94913, -107.3688 22.79913))"
 ]
}

 The dataset includes 25 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034267-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2cf4fd
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Browningia altissima"
 ]
}

 The dataset includes 35 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034268-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pq6tju
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Dallia pectoralis",
 "HasCoordinate is true",
 "Geometry POLYGON((-78 12, -73 12, -73 0, -78 0, -78 12))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034269-251025141854904/datasets/export for details.
DOI: 10.15468/dl.vb9f6d
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Browningia pilleifera"
 ]
}

 The dataset includes 29 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034270-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j6adjv
title: Occurrence Download

description: A dataset containing 1022 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Zygophyllum",
 "Year 1000-2025"
 ]
}

 The dataset includes 1022 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034271-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.53qp7z
title: Occurrence Download

description: A dataset containing 3506292 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Tanzania, United Republic of",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 3506292 records from 1458 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034254-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v4rbvp
title: Occurrence Download

description: A dataset containing 29721 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Issue is one of (Coordinate rounded, Geodetic datum assumed WGS84, Coordinate reprojected, Country derived from coordinates, Continent derived from coordinates, The taxon ID was not used in backbone matching, Different owner institution, Institution collection mismatch, Institution match fuzzy, Collection match fuzzy, Ambiguous institution, Ambiguous collection, Institution match none, Collection match none, Occurrence status inferred from individual count)",
 "OccurrenceStatus is Present",
 "TaxonKey is Abutilon theophrasti Medik."
 ]
}

 The dataset includes 29721 records from 513 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013877-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/12813555
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.15468/dl.xfcx47
title: Occurrence Download

description: A dataset containing 2924368 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "DatasetKey is EOD – eBird Observation Dataset",
 "TaxonKey is Ardeidae"
 ]
}

 The dataset includes 2924368 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025382-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m5qkcr
title: Occurrence Download

description: A dataset containing 408 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is China",
 "TaxonKey is Anser erythropus (Linnaeus, 1758)"
 ]
}

 The dataset includes 408 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001648-250424135625364/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pzzqpr
title: Occurrence Download

description: A dataset containing 65476 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Campanula rotundifolia L.",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 65476 records from 343 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007336-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.4f4qrfjd4
title: Allegheny Woodrat occupancy across Western Virginia, United States

description: The Allegheny woodrat (Neotoma magister), a rock outcrop habitat
 specialist, has suffered drastic reductions in geographic range over the
 past 40 years. Previous research has examined habitat characteristics at
 varying spatial scales, but none have used occupancy modeling to examine
 trends over time. Therefore, we used presence/absence data from live
 trapping to assess environmental variables likely to influence Allegheny
 woodrat occupancy and detection patterns at a regional scale across
 western Virginia, USA, from 2009 to 2011. We observed a shift in occupancy
 and detection rates across years with a peak in 2009, a decline in 2010,
 and an apparent recovery in 2011. We found significant isolation by
 distance effect influencing woodrat occupancy across the region, with
 occupancy linked to sites in closer proximity to other occupied locations.
 Occupancy increased in oak and hickory forests, suggesting woodrat
 occurrence increases in forest types with a higher abundance of hard and
 soft mast-producing species. We found variable effects of elevation over
 time, with higher occupancy at higher elevations in 2009 but at lower
 elevations in 2010, which may be explained by variation in winter severity
 and mast abundance across years. Allegheny woodrat management should
 include activities to promote and retain mast-producing species at higher
 elevations to offset potential subpopulation contractions during harsh
 winters.
description: Live-trapping data for Allegheny woodrats in Virginia (capture
 history for 2009, 2010, 2011), site information (elevation, distance to
 neighbor occupied outcrop, habitat type, etc).
DOI: 10.5061/dryad.z08kprrdk
title: Data from: Larval density, sex and allocation hierarchy affect life-history trait covariances in a bean beetle

description: Life-history theory aims to understand how different environments result
 in differential investment in fitness-related traits. While trade-offs
 between traits are expected, many studies show positive or no correlation
 between pairs of costly traits. One hypothesis that may explain the
 inconsistency of trade-offs in the literature is that trait investment may
 occur in a dichotomous hierarchy (the tree model), that allows for
 differential trait investment weighted by the traits’ respective positions
 within the hierarchy. Previous mathematical models predict different
 covariances between traits depending on their position on the allocation
 tree. While hierarchical differential investment is often used to discuss
 findings in life-history theory, the role of an allocation hierarchy on
 trait covariances has not been directly tested. In turn, this study aims
 to identify trait covariances between behavioral and morphological
 phenotypes on different branches of an allocation tree in the bean beetle,
 Callosobruchus maculatus. While trade-offs between copulatory behaviors
 and morphology were found for both males and females, only traits at the
 base and far from each other in the hierarchy negatively covaried. This
 study empirically shows that trade-offs may be the result of hierarchical
 investment.
description: (1)
 Comma-Separated Values file contaning data used in statistical analysis
 and figure generation for this manuscript with the included R
 script. (2) Script used to generate statistics and
 figures presented in the manuscript (R Core Team 2019, ggplot2
 2011).
DOI: 10.5061/dryad.6wwpzgn0j
title: Quality over quantity: unraveling the contributions to cytoplasmic incompatibility caused by two coinfecting Cardinium symbionts

description: Cardinium hertigii is a common maternally-inherited bacterial endosymbiont
 of arthropods. Some Cardinium strains spread by increasing female fitness
 through the induction of cytoplasmic incompatibility (CI), which kills
 offspring of crosses between infected males and uninfected female hosts.
 CI is a two-step manipulation: first, sperm from male hosts are modified
 by the symbiont in a manner that causes offspring death. Second, when
 females are also infected, the symbiont reverses sperm modification in the
 egg cytoplasm, allowing offspring of infected females to survive and
 spread the symbiont. While Cardinium causes CI in many arthropod hosts,
 most of what is known about Cardinium CI stems from the symbiosis between
 the Cardinium strain cEper1 and its minute parasitoid host, Encarsia
 suzannae. Here, we study a second Cardinium CI system in the wasp Encarsia
 partenopea. Encarsia partenopea harbors two Cardinium strains, cEina2 and
 cEina3, with the cEina3 present at a much lower density than cEina2. Using
 antibiotic treatments and crossing assays, we find that the low-density
 cEina3 strain is responsible for CI, and that cEina3 appears to modify
 sperm during the pupal stage, like the better known cEper1. However,
 cEina3 shows a markedly different localization pattern in male
 reproductive tissues. Instead of infecting sperm cells, cEina3 is found in
 somatic cells at the base of the testis and around the seminal vesicle.
 This localization pattern suggests that cEina3 may use a different sperm
 modification strategy from cEper1, and highlights variation between these
 closely related symbioses.
DOI: 10.5061/dryad.mpg4f4r19
title: Data to support publication figures and animation scripts at GitHub: Modeling weather-driven long-distance dispersal of spruce budworm moths (Choristoneura fumiferana)

description: Long-term studies of insect populations in the North American boreal
 forest have shown the vital importance of long-distance dispersal to the
 maintenance and expansion of insect outbreaks. In this work, we extend
 several concepts established previously in an empirically-based dispersal
 flight model with recent work on the physiology and behavior of the adult
 eastern spruce budworm (SBW) moth, Choristoneura fumiferana (Clem.). An
 outbreak of defoliating SBW in Quebec, ongoing since the mid-2000s,
 already covers millions of hectares of forests in eastern Canada and
 threatens to spread into neighboring areas through annual summertime
 episodes of long-distance dispersal. Such flight events in favorable
 conditions frequently include billions of SBW moths dispersing in the warm
 atmospheric boundary layer, typically starting around sunset and often
 lasting through several hours of wind-driven transport over hundreds of
 kilometers. Successful SBW dispersal to possibly distant host forest areas
 depends acutely on the weather. Here we describe the components and
 results of SBW–pyATM, an open-source individual-based modeling framework
 developed in Python for the simulation of these weather-driven SBW
 dispersal events. Using seasonal SBW phenology results from BioSIM at
 known outbreak locations and high-resolution Weather Research and
 Forecasting (WRF) model output, we focus on modeling dispersal flights
 over two successive nights in July 2013 in southern Quebec. Our flight
 model closely reproduces the SBW spatial patterns and motions observed by
 weather surveillance radar over the St. Lawrence estuary. With SBW–pyATM
 we can estimate landing locations for both male and female SBW and the
 resulting spatial patterns of egg distribution, allowing us eventually to
 forecast future larval defoliation activity in new locations where
 immigration could help overcome local limitations on SBW populations. This
 information could then support forest management decisions where SBW
 outbreaks threaten valuable resources.
description: A README.txt file describing all data assets and supplemental
 animations is included with this submission. Detailed methods are provided
 in the published manuscript, including the published Supplemental
 Materials.
description: Additional information and instructions are provided at
 https://github.com/megarcia/Garcia_etal_2022a along with the python and
 shell scripts that use these data.
DOI: 10.25338/b8r33g
title: The atomic-level physiochemical determinants of T cell receptor dissociation kinetics

description: The force-dependent bond lifetime of a T Cell Receptors (TCR) to
 17 peptide-Major Histocompatibility Complexes (pMHCs) was
 simulated using Steered Molecular Dynamics. Physiochemical descriptors of
 the TCR-pMHC interaction during simulation were then filtered and
 selected to understand the best feature sets that predict bond lifetime.
 This methodology sets precedence on the rational design of TCRs
 via force-dependent bond lifetime enhancement.
description: Data was collected and processed on high performance computers
 (hpc1/hpc2) at the University of California, Davis College of
 Engineering.
description: Datasets for quaternary (data_quaternary_fs.csv) and
 secondary (data_secondary_fs.csv) features for all TCR-pMHC structures.
 Root mean square deviations (RMSD) for the equilibration of all
 TCR-pMHC structures in the format (rmsd_ mutant.png).  Triplicate starting
 configuration of all TCR-pMHC structures before steered molecular dynamics
 simulation in the format (mutant_1.gro, mutant_2.gro, and mutant_3.gro).
 Pearson (pearson_quaternary.csv, pearson_secondary.csv) and Spearman
 (spearman_quaternary.csv, spearman_secondary.csv) correlation coefficients
 between all physiochemical features. Results from hyperparameter search
 and cross-validation include: the elastic net ranked top ten features
 (top_qfeatures_ranked_hp_gridsearch.csv, top_qfeatures_cv.csv,
 top_sfeatures_ranked_hp_gridsearch.csv, and top_sfeatures_cv.csv), the
 elastic net exhaustive search feature set selections
 (top3_qfeatures_hp_gridsearch_cv.csv,
 top3_qfeatures_exhaustivesearch_cv.csv,  top3_qfeatures.csv,
 top5_qfeatures_hp_gridsearch_cv.csv,
 top5_qfeatures_exhaustivesearch_cv.csv, top5_qfeatures.csv, top7_qfeatures_hp_gridsearch_cv.csv, top7_qfeatures_exhaustivesearch_cv.csv, top7_qfeatures.csv, top3_sfeatures_hp_gridsearch_cv.csv, top3_sfeatures_exhaustivesearch_cv.csv, top3_sfeatures.csv, top5_sfeatures_hp_gridsearch_cv.csv, top5_sfeatures_exhaustivesearch_cv.csv, top5_sfeatures.csv, top7_sfeatures_hp_gridsearch_cv.csv, top7_sfeatures_exhaustivesearch_cv.csv, and top7_sfeatures.csv), and the machine learning algorithms (top1_qfeature_best_MLmodel_cv.csv, top1_qfeature_ML_hp_gridsearch_cv.csv, top3_qfeatures_best_MLmodel_cv.csv, top3_qfeatures_ML_hp_gridsearch_cv.csv, top5_qfeatures_best_MLmodel_cv.csv, top5_qfeatures_ML_hp_gridsearch_cv.csv, top7_qfeatures_best_MLmodel_cv.csv, top7_qfeatures_ML_hp_gridsearch_cv.csv, top1_sfeature_best_MLmodel_cv.csv, top1_sfeature_ML_hp_gridsearch_cv.csv, top3_sfeatures_best_MLmodel_cv.csv, top3_sfeatures_ML_hp_gridsearch_cv.csv, top5_sfeatures_best_MLmodel_cv.csv, top5_sfeatures_ML_hp_gridsearch_cv.csv, top7_sfeatures_best_MLmodel_cv.csv, and top7_sfeatures_ML_hp_gridsearch_cv.csv). The README file gives links data to figures in manuscript (README.txt).