cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.15678409
title: Type 2 diabetes polygenic risk score demonstrates context-dependent effects and associations with type 2 diabetes-related risk factors and complications across diverse populations

description: Polygenic risk scores (PRS) hold prognostic value for identifying individuals at higher risk of type 2 diabetes (T2D). However, further characterization is needed to understand the generalizability of T2D PRS in diverse populations across various contexts. We characterized a multi-ancestry T2D PRS among 244,637 cases and 637,891 controls across eight populations from the Population Architecture Genomics and Epidemiology (PAGE) Study and 13 additional biobanks and cohorts. PRS performance was context dependent, with better performance in those who were younger, male, with a family history of T2D, without hypertension, and not obese or overweight. Additionally, the PRS was associated with various diabetes-related cardiometabolic traits and T2D complications, suggesting its utility for stratifying risk of complications and identifying shared genetic architecture between T2D and other diseases. These findings highlight the need to account for context when evaluating PRS as a tool for T2D risk prognostication and potentially generalizable associations of T2D PRS with diabetes-related traits despite differential performance in T2D prediction across diverse populations.

Here, we provide the T2D PRS PheWAS results meta-analyzed across all populations and by population, and PheWAS results in each of the five biobanks: the Icahn School of Medicine at Mount Sinai BioMe biobank in New York City (BioMe), BioVU Biobank (BioVU), Colorado Center for Personalized Medicine Biobank (CCPM), Million Veteran Program (MVP), and Michigan Genomics Initiative (MGI). The MVP PheWAS results were restricted to phecodes with more than 500 cases, and two PheCodes—HIV disease (071 and 071.1) and sickle cell anemia (282.50)—were removed.

Utilizing the PheWAS R package, we ran logistic regression models to assess PRS-phenotype associations, adjusting for age, sex, BMI, and the first ten PCs. For the mapping of the International Classification of Diseases (ICD) 9 and ICD-10 codes to phecodes, we utilized phecodes version 1.2 for ICD-9-CM and the 2018 beta version of ICD-10-CM. Cases were considered valid if they had a minimum phecode count of two. Only phecodes with at least 10 cases were considered. A total of 1,815 unique phenotypes across 17 disease categories were tested across the five biobanks, with 1,777, 1,171, 1,813, and 1,695 phenotypes available in AFR, ASN, EUR, and HIS populations, respectively. Any values smaller than the smallest non-zero value that R can represent are denoted as 5.0E-324.

For questions, please contact Boya Guo (bguo@fredhutch.org) or Burcu F. Darst (bdarst@fredhutch.org).
DOI: 10.5281/zenodo.15998801
title: Type 2 diabetes polygenic risk score demonstrates context-dependent effects and associations with type 2 diabetes-related risk factors and complications across diverse populations

description: Polygenic risk scores (PRS) hold prognostic value for identifying individuals at higher risk of type 2 diabetes (T2D). However, further characterization is needed to understand the generalizability of T2D PRS in diverse populations across various contexts. We characterized a multi-ancestry T2D PRS among 244,637 cases and 637,891 controls across eight populations from the Population Architecture Genomics and Epidemiology (PAGE) Study and 13 additional biobanks and cohorts. PRS performance was context dependent, with better performance in those who were younger, male, with a family history of T2D, without hypertension, and not obese or overweight. Additionally, the PRS was associated with various diabetes-related cardiometabolic traits and T2D complications, suggesting its utility for stratifying risk of complications and identifying shared genetic architecture between T2D and other diseases. These findings highlight the need to account for context when evaluating PRS as a tool for T2D risk prognostication and potentially generalizable associations of T2D PRS with diabetes-related traits despite differential performance in T2D prediction across diverse populations.

Here, we provide the T2D PRS PheWAS results meta-analyzed across all populations and by population, and PheWAS results in each of the five biobanks: the Icahn School of Medicine at Mount Sinai BioMe biobank in New York City (BioMe), BioVU Biobank (BioVU), Colorado Center for Personalized Medicine Biobank (CCPM), Million Veteran Program (MVP), and Michigan Genomics Initiative (MGI). The MVP PheWAS results were restricted to phecodes with more than 500 cases, and two PheCodes—HIV disease (071 and 071.1) and sickle cell anemia (282.50)—were removed.

Utilizing the PheWAS R package, we ran logistic regression models to assess PRS-phenotype associations, adjusting for age, sex, BMI, and the first ten PCs. For the mapping of the International Classification of Diseases (ICD) 9 and ICD-10 codes to phecodes, we utilized phecodes version 1.2 for ICD-9-CM and the 2018 beta version of ICD-10-CM. Cases were considered valid if they had a minimum phecode count of two. Only phecodes with at least 10 cases were considered. A total of 1,815 unique phenotypes across 17 disease categories were tested across the five biobanks, with 1,777, 1,171, 1,813, and 1,695 phenotypes available in AFR, ASN, EUR, and HIS populations, respectively. Any values smaller than the smallest non-zero value that R can represent are denoted as 5.0E-324.

For questions, please contact Boya Guo (bguo@fredhutch.org) or Burcu F. Darst (bdarst@fredhutch.org).
DOI: 10.15468/dl.g2qswe
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aristolochia odoratissima",
 "Country is Ecuador",
 "HasCoordinate is true"
 ]
}

 The dataset includes 16 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025964-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y7jz6q
title: Occurrence Download

description: A dataset containing 1208 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acacia dealbata",
 "Country is Italy",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1208 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025965-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.48texs
title: Occurrence Download

description: A dataset containing 28 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hemerocallis fulva",
 "Country is India",
 "HasCoordinate is true"
 ]
}

 The dataset includes 28 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025966-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bz35uy
title: Occurrence Download

description: A dataset containing 252612 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Lupinus polyphyllus, Lupinus polyphyllus)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 252612 records from 486 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025949-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9tku7h
title: Occurrence Download

description: A dataset containing 23 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acacia dealbata",
 "Country is Lesotho",
 "HasCoordinate is true"
 ]
}

 The dataset includes 23 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025967-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6075/j09w0ftb
title: Data from: Harnessing AI data-driven global weather models for climate attribution: An analysis of the 2017 Oroville Dam extreme atmospheric river

description: This collection contains data used and generated in the study entitled "Harnessing AI data-driven global weather models for climate attribution: An analysis of the 2017 Oroville Dam extreme atmospheric river". This study explores storyline-based climate attribution due to their short inference times, which can accelerate the number of events studied, and provide real time attributions when public attention is heightened. The analysis is framed on the extreme atmospheric river episode of February 2017 that contributed to the Oroville dam spillway incident in Northern California. “Past” and “future” simulations are generated by perturbing the initial conditions with the pre-industrial and the late-21st century temperature climate change signals, respectively. The simulations are compared to results from a dynamical model which represents plausible “pseudo-realities” under both climate environments. In particular, this collection contains 1) the CMIP5 climate change signals for the temperature variables for the pre-industrial and late-21st century emission scenarios, 2) the initial condition fields to run the simulations, 3) the simulations for the "past", "present", and "future" simulations for the AI models, and 4) the mean and standard deviation of the variables computed over the period 1979-2022. The code used to generate the AI-based simulations is available at the following Github repository: https://github.com/CW3E/AI-attribution.
DOI: 10.15468/dl.u8zh4y
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:ADR3412"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025968-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.acytpg
title: Occurrence Download

description: A dataset containing 494 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aves",
 "Geometry POLYGON ((-92.84733 17.52773, -92.85085 17.5132, -92.89539 17.5291, -92.9243 17.54323, -92.93504 17.53965, -92.9183 17.50679, -92.89529 17.49848, -92.89566 17.4685, -92.87051 17.43217, -92.85769 17.41803, -92.85115 17.41889, -92.84371 17.41738, -92.83654 17.41949, -92.82476 17.44154, -92.82418 17.45835, -92.80927 17.4685, -92.82382 17.49801, -92.84733 17.52773))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 }
 ]
}

 The dataset includes 494 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025969-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tqgv26
title: Occurrence Download

description: A dataset containing 371 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Morettia philaeana"
 ]
}

 The dataset includes 371 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025970-250711103210423/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.cc2f370t
title: CCDC 2237425: Experimental Crystal Structure Determination

description: Related Article: Bhabani Shankar Panda, Barsha Samanta, Eeshara Naik, Sabita Nayak, Pratyush Pragyandipta, Seetaram Mohapatra, Pradeep Kumar Naik|2025|J.Mol.Struct.|1347|143205|doi:10.1016/j.molstruc.2025.143205
description: Related Article: Bhabani Shankar Panda|2023|CSD Communication|||
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: 10.25505/fiz.icsd.cc2n0x7v
title: CSD 2443737: Experimental Crystal Structure Determination

description: Related Article: V. K. Gaifulina, E. V. Chernyak, A. A. Ulantikov, Y. M. Gaifulin, V. V. Yanshole, M. R. Ryzhikov, N. G. Naumov|2025|Inorg.Chim.Acta|587|122835|doi:10.1016/j.ica.2025.122835
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.15468/dl.8jps2s
title: Occurrence Download

description: A dataset containing 784 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hemerocallis fulva",
 "Country is Italy",
 "HasCoordinate is true"
 ]
}

 The dataset includes 784 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025973-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vsumkv
title: Occurrence Download

description: A dataset containing 31 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acacia dealbata",
 "Country is Madagascar",
 "HasCoordinate is true"
 ]
}

 The dataset includes 31 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025972-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r83ypv
title: Occurrence Download

description: A dataset containing 378 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Acacia dealbata",
 "Country is New Zealand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 378 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025974-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xshqsn
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hemerocallis fulva",
 "Country is Ireland",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025971-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/13k-la6-9lh
title: Usnea cirrosa Motyka

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.15468/dl.jb8dun
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acanthophtalmus kuhli"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025975-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15999562
title: 51-shadows-on-the-canvas.docx
DOI: 10.5281/zenodo.15999561
title: 51-shadows-on-the-canvas.docx
DOI: 10.15468/dl.ptc4qp
title: Occurrence Download

description: A dataset containing 1228 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Lupinus subcarnosus)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1228 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025976-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wcv2ak
title: Occurrence Download

description: A dataset containing 12486031 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Colombia",
 "Geometry POLYGON((-76.48662 3.60174,-72.53285 3.60174,-72.53285 6.6709,-76.48662 6.6709,-76.48662 3.60174))",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 12486031 records from 1396 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025945-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yakcuy
title: Occurrence Download

description: A dataset containing 526 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "TaxonKey is Zootoca vivipara vivipara"
 ]
}

 The dataset includes 526 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010307-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fte76r
title: Occurrence Download

description: A dataset containing 33 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amorphophallus zenkeri (Engl.) N.E.Br."
 ]
}

 The dataset includes 33 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012371-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qz8fxh
title: Occurrence Download

description: A dataset containing 1106 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aristolochia acuminata Lam."
 ]
}

 The dataset includes 1106 records from 68 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051199-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ggtmz3
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Polygala brachyptera Griseb."
 ]
}

 The dataset includes 29 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0090493-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4tepqz
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepanthes calypso Luer & Hirtz"
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006267-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rezfxc
title: Occurrence Download

description: A dataset containing 4140 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Human Observation, Machine Observation)",
 "CoordinateUncertaintyInMeters 0.0-31.0",
 "Country is United States of America",
 "Geometry POLYGON((-127.51878 21.82371,-60.42614 21.82371,-60.42614 51.99515,-127.51878 51.99515,-127.51878 21.82371))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Sorghum halepense (L.) Pers."
 ]
}

 The dataset includes 4140 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023180-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ajk7ab
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepanthes tricuspidata Luer & Sijm"
 ]
}

 The dataset includes 4 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007351-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gvpag8
title: Occurrence Download

description: A dataset containing 129630 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Belgium",
 "TaxonKey is one of (Aponogeton distachyos L.f., Arthurdendyus triangulatus (Dendy, 1895), Cabomba caroliniana A.Gray, Callosciurus finlaysonii (Horsfield, 1823), Cherax destructor Clark, 1936, Corvus splendens Vieillot, 1817, Crassula helmsii (Kirk) Cockayne, Elodea densa (Planch.) Casp., Eriocheir sinensis H.Milne Edwards, 1853, Erythranthe guttata (DC.) G.L.Nesom, Faxonius immunis (Hagen, 1870), Faxonius juvenilis (Hagen, 1870), Faxonius rusticus (Girard, 1852), Faxonius virilis (Hagen, 1870), Gambusia affinis (Baird & Girard, 1853), Heracleum mantegazzianum Sommier & Levier, Heracleum persicum Desf. ex Fisch., C.A.Mey. & Avé-Lall., Heracleum pubescens (Hoffm.) M.Bieb., Houttuynia cordata Thunb., Hydrocotyle ranunculoides L.f., Impatiens glandulifera Royle, Koenigia polystachya (Wall. ex Meisn.) T.M.Schust. & Reveal, Lagarosiphon major (Ridl.) Moss, Lepomis gibbosus (Linnaeus, 1758), Limnoperna fortunei (Dunker, 1857), Ludwigia grandiflora (Michx.) Greuter & Burdet, Ludwigia peploides (Kunth) P.H.Raven, Lysichiton americanus Hultén & H.St.John, Morone americana (Gmelin, 1789), Muntiacus reevesi (Ogilby, 1839), Myriophyllum aquaticum (Vell.) Verdc., Myriophyllum heterophyllum Michx., Pacifastacus leniusculus (Dana, 1852), Petasites japonicus (Siebold & Zucc.) Maxim., Pontederia cordata L., Procambarus acutus (Girard, 1852), Procambarus clarkii (Girard, 1852), Procambarus virginalis Lyko, 2017, Pseudorasbora parva (Temminck & Schlegel, 1846), Pycnonotus cafer (Linnaeus, 1766), Saururus cernuus L., Sciurus carolinensis Gmelin, 1788, Sciurus niger Linnaeus, 1758, Solenopsis invicta Buren, 1972, Solenopsis richteri Forel, 1909, Threskiornis aethiopicus (Latham, 1790), Vespa velutina Lepeletier, 1836, Zizania latifolia (Griseb.) Hance ex F.Muell.)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000"
 ]
}

 The dataset includes 129630 records from 68 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0090472-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qq3xwc
title: Occurrence Download

description: A dataset containing 406 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Andropogon hypogynus Hack."
 ]
}

 The dataset includes 406 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030044-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.