cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.15203552
title: CMIP6 GSMs Evaluation in the region of Cagayan River Basin.

description: General circulation model (GCM) projections from CMIP6 (Coupled Model Intercomparison Project Phase 6) were used to assess future rainfall conditions.

The NEX-GDDP-CMIP6 (NASA Earth Exchange Global Daily Downscaled Climate Projections) dataset includes downscaled daily outputs from 34 GCMs over land regions with the resolution of 0.25 degree. GCMs are known to have substantial uncertainties, particularly at the regional scale.

 The evaluation compared GCM outputs against observational and reanalysis data across multiple climate variables, including precipitation (pr), near-surface air temperature (tas), surface downwelling longwave radiation (rlds), and surface wind speed (sfcWind).

Observation dataset are bias corrected GSMaP for pr and ER5 for remainings.Each variable was assessed over selected grid cells within and around the Cagayan River Basin, as shown in below figure, based on their relevance to regional precipitation mechanisms. Model performance was evaluated for the historical period (1996–2015) using spatial correlation coefficients (Scorr) and root mean square error (RMSE).

 This multivariable comparison enabled the identification of GCMs that provide the most reliable precipitation projections for the region.
DOI: 10.5281/zenodo.15203553
title: CMIP6 GSMs Evaluation in the region of Cagayan River Basin.

description: General circulation model (GCM) projections from CMIP6 (Coupled Model Intercomparison Project Phase 6) were used to assess future rainfall conditions.

The NEX-GDDP-CMIP6 (NASA Earth Exchange Global Daily Downscaled Climate Projections) dataset includes downscaled daily outputs from 34 GCMs over land regions with the resolution of 0.25 degree. GCMs are known to have substantial uncertainties, particularly at the regional scale.

 The evaluation compared GCM outputs against observational and reanalysis data across multiple climate variables, including precipitation (pr), near-surface air temperature (tas), surface downwelling longwave radiation (rlds), and surface wind speed (sfcWind).

Observation dataset are bias corrected GSMaP for pr and ER5 for remainings.Each variable was assessed over selected grid cells within and around the Cagayan River Basin, as shown in below figure, based on their relevance to regional precipitation mechanisms. Model performance was evaluated for the historical period (1996–2015) using spatial correlation coefficients (Scorr) and root mean square error (RMSE).

 This multivariable comparison enabled the identification of GCMs that provide the most reliable precipitation projections for the region.
DOI: 10.15468/dl.vog6ou
title: Occurrence Download

description: A dataset containing 136 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anemonastrum crinitum (Juz.) Holub"
 ]
}

 The dataset includes 136 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010494-190320150433242/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eeuh7e
title: Occurrence Download

description: A dataset containing 112698 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "DatasetKey is Bumblebees and butterflies in Norway",
 "DatasetKey is Naturalis Biodiversity Center (NL) - Hymenoptera",
 "DatasetKey is iNaturalist Research-grade Observations",
 "DatasetKey is BeeWalk bumblebee distributions for Great Britain 2008-2022",
 "DatasetKey is Artportalen (Swedish Species Observation System)",
 "DatasetKey is Swiss National Apoidea Databank",
 "DatasetKey is Bee, wasp and ant (Hymenoptera: Aculeata) records verified via iRecord",
 "DatasetKey is Wild bees of Belgium",
 "DatasetKey is Patterns of widespread decline in North American bumble bees",
 "DatasetKey is Waarnemingen.be - Hymenoptera occurrences in Flanders and the Brussels Capital Region, Belgium",
 "DatasetKey is NMNH Extant Specimen Records (USNM, US)",
 "DatasetKey is naturgucker",
 "DatasetKey is Observation.org, Nature data from around the World",
 "DatasetKey is UAM Insect Collection (Arctos)",
 "DatasetKey is Essig Museum of Entomology",
 "DatasetKey is Bee Biology and Systematics Laboratory",
 "DatasetKey is Bees of Ireland",
 "DatasetKey is Entomological collections, UiB",
 "DatasetKey is Snow Entomological Museum Collection",
 "DatasetKey is Norwegian Species Observation Service",
 "DatasetKey is hymenoptera",
 "DatasetKey is Suivi Photographique des Insectes Pollinisateurs (SPIPOLL)",
 "DatasetKey is Illinois Natural History Survey Insect Collection",
 "DatasetKey is Insect Species Occurrence Data from Multiple Projects Worldwide with Focus on Bees and Wasps in North America",
 "DatasetKey is Natural History Museum (London) Collection Specimens",
 "DatasetKey is Xerces Society - Bumble Bee Watch",
 "DatasetKey is Bombus of Canada",
 "DatasetKey is Entomology Division, Yale Peabody Museum"
 ]
 },
 "OccurrenceStatus is Present",
 {
 "or" : [
 "TaxonKey is Danaus plexippus (Linnaeus, 1758)",
 "TaxonKey is Bombus fraternus (Smith, 1854)"
 ]
 }
 ]
}

 The dataset includes 112698 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021576-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wmiymq
title: Occurrence Download

description: A dataset containing 16661 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Desmodus rotundus (E.Geoffroy, 1810)"
 ]
}

 The dataset includes 16661 records from 125 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010495-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ljfey1
title: Occurrence Download

description: A dataset containing 3630 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Antarctic Penguin Biogeography Project: Database of abundance and distribution for the Adélie, chinstrap, gentoo, emperor, macaroni, and king penguin south of 60 S"
 ]
}

 The dataset includes 3630 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011720-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zma5uh
title: Occurrence Download

description: A dataset containing 232 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Clidoderma asperrimum (Temminck & Schlegel, 1846)"
 ]
}

 The dataset includes 232 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036059-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bukoqy
title: Occurrence Download

description: A dataset containing 401 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "HasCoordinate is true",
 "TaxonKey is Hyla mathiassoni Cochran & Goin, 1970",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 401 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010495-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.92p7gm
title: Occurrence Download

description: A dataset containing 14486 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anthracothorax prevostii (R.Lesson, 1832)"
 ]
}

 The dataset includes 14486 records from 65 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011721-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fu2fwg
title: Occurrence Download

description: A dataset containing 206 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Trollius laxus Salisb.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 206 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010886-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2dhqam
title: Occurrence Download

description: A dataset containing 100 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Material sample)",
 "OccurrenceStatus is Present",
 "TaxonKey is Trioza erytreae (Del Guercio, 1918)",
 "Year 1991-2024"
 ]
}

 The dataset includes 100 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0058616-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11399774
title: Data for 'Deciphering GB1's Single Mutational Landscape: Insights from MuMi Analysis'

description: Data for 'Deciphering GB1's Single Mutational Landscape: Insights from MuMi Analysis'

 

Tandac F. Guclu*, Ali Rana Atilgan, Canan Atilgan

Faculty of Natural Sciences and Engineering, Sabanci University, Tuzla, 34956, Istanbul, Turkey.

 

*Correspondence: Tandac Furkan Guclu, Faculty of Natural Sciences and Engineering, Sabanci University, Tuzla 34956 Istanbul, Turkey, E-mail: tguclu@sabanciuniv.edu

 

Mutational changes that affect the binding of the C2 fragment of Streptococcal protein G (GB1) to the Fc domain of human IgG (IgG-Fc) have been extensively studied using deep mutational scanning (DMS), and the binding affinity of all single mutations has been measured experimentally in the literature. To investigate the underlying molecular basis, we perform in-silico mutational scanning for all possible single mutations, along with 2-µs-long molecular dynamics (WT-MD) simulations of the wild-type (WT) GB1 in both unbound and IgG-Fc bound forms. We compute the hydrogen bonds between GB1 and IgG-Fc in WT-MD to identify the dominant hydrogen bonds for binding, which we then assess in conformations produced by the Mutation and Minimization (MuMi) method to explain the fitness landscape of GB1 and IgG-Fc binding. Furthermore, we analyze MuMi and WT-MD to investigate the dynamics of binding, focusing on the relative solvent accessibility (RSA) of residues and the probability of residues being located at the binding interface. With these analyses, we explain the strong and weak interactions between GB1 and IgG-Fc and display the structural features of binding.

Inputs, codes, and outputs of each method are deposited as zip files using their respective names: WT-MD, MuMi, AFMi, and MuMi-Dyn. Please see the MuMi_scheme repository for the code to run MuMi analyses. Relative solvent area (RSA) calculations are done using FreeSASA (https://freesasa.github.io/). To run TCL codes, you need VMD (https://www.ks.uiuc.edu/Research/vmd/) software.
DOI: 10.5281/zenodo.11399775
title: Data for 'Deciphering GB1's Single Mutational Landscape: Insights from MuMi Analysis'

description: Data for 'Deciphering GB1's Single Mutational Landscape: Insights from MuMi Analysis'

 

Tandac F. Guclu*, Ali Rana Atilgan, Canan Atilgan

Faculty of Natural Sciences and Engineering, Sabanci University, Tuzla, 34956, Istanbul, Turkey.

 

*Correspondence: Tandac Furkan Guclu, Faculty of Natural Sciences and Engineering, Sabanci University, Tuzla 34956 Istanbul, Turkey, E-mail: tguclu@sabanciuniv.edu

 

Mutational changes that affect the binding of the C2 fragment of Streptococcal protein G (GB1) to the Fc domain of human IgG (IgG-Fc) have been extensively studied using deep mutational scanning (DMS), and the binding affinity of all single mutations has been measured experimentally in the literature. To investigate the underlying molecular basis, we perform in-silico mutational scanning for all possible single mutations, along with 2-µs-long molecular dynamics (WT-MD) simulations of the wild-type (WT) GB1 in both unbound and IgG-Fc bound forms. We compute the hydrogen bonds between GB1 and IgG-Fc in WT-MD to identify the dominant hydrogen bonds for binding, which we then assess in conformations produced by the Mutation and Minimization (MuMi) method to explain the fitness landscape of GB1 and IgG-Fc binding. Furthermore, we analyze MuMi and WT-MD to investigate the dynamics of binding, focusing on the relative solvent accessibility (RSA) of residues and the probability of residues being located at the binding interface. With these analyses, we explain the strong and weak interactions between GB1 and IgG-Fc and display the structural features of binding.

Inputs, codes, and outputs of each method are deposited as zip files using their respective names: WT-MD, MuMi, AFMi, and MuMi-Dyn. Please see the MuMi_scheme repository for the code to run MuMi analyses. Relative solvent area (RSA) calculations are done using FreeSASA (https://freesasa.github.io/). To run TCL codes, you need VMD (https://www.ks.uiuc.edu/Research/vmd/) software.
DOI: 10.15468/dl.jxcbaj
title: Occurrence Download

description: A dataset containing 729 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "TaxonKey is Zygophyllum fabago L.",
 "TaxonKey is Zygophyllum fabago L.",
 "TaxonKey is Zygophyllum fabago L.",
 "TaxonKey is Zygophyllum fabago L.",
 "TaxonKey is Zygophyllum fabago L."
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 729 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010496-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b6d65f
title: Occurrence Download

description: A dataset containing 215 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Valeriana edulis Torr. & A.Gray",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 215 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010888-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q4ltmo
title: Occurrence Download

description: A dataset containing 3303 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "TaxonKey is Bythotrephes longimanus Leydig, 1860",
 "TaxonKey is Cabera leptographa (Wehrli, 1936)",
 "TaxonKey is Cabomba aquatica Aubl.",
 "TaxonKey is Cabomba caroliniana A.Gray",
 "TaxonKey is Cabomba furcata Schult.fil.",
 "TaxonKey is Cabomba palaeformis Fassett"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3303 records from 152 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011721-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jq8dbf
title: Occurrence Download

description: A dataset containing 810 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Switzerland",
 "License is CC-BY-NC 4.0",
 "PublishingOrg is c8d737e0-2ff8-42e8-b8fc-6b805d26fc5f",
 "TaxonKey is Cyanistes caeruleus (Linnaeus, 1758)"
 ]
}

 The dataset includes 810 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0058617-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nyfmsr
title: Occurrence Download

description: A dataset containing 13727 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bacopa Aubl."
 ]
}

 The dataset includes 13727 records from 338 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010496-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nua51k
title: Occurrence Download

description: A dataset containing 31 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Coleção de Nemertea do Museu Nacional - UFRJ"
 ]
}

 The dataset includes 31 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011721-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.69gu6f
title: Occurrence Download

description: A dataset containing 202 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Viola epipsila Ledeb.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 202 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010889-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dzjz1d
title: Occurrence Download

description: A dataset containing 151 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aspidoscelis guttata guttata"
 ]
}

 The dataset includes 151 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010496-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ykau32
title: Occurrence Download

description: A dataset containing 3372 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Senecio lividus L.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3372 records from 53 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011721-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ce59kq
title: Occurrence Download

description: A dataset containing 5599 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Psychotria poeppigiana Müll.Arg."
 ]
}

 The dataset includes 5599 records from 187 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0363945-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f9t8k8
title: Occurrence Download

description: A dataset containing 129 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((69.37031999999999 65.07073733333334, 69.37031999999999 82.15736799999999, 35.32496433333334 82.15736799999999, 35.32496433333334 65.07073733333334, 69.37031999999999 65.07073733333334))",
 "EventDate is 2020-10-01,2020-10-31"
 ]
}

 The dataset includes 129 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030427-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.i9eac5
title: Occurrence Download

description: A dataset containing 15507 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vinca major L."
 ]
}

 The dataset includes 15507 records from 321 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003444-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ma8nmz
title: Occurrence Download

description: A dataset containing 8598 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Muscari armeniacum H.J.Veitch",
 "HasCoordinate is true",
 "Continent is Europe",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000",
 "CoordinateUncertaintyInMeters is less than 10000"
 ]
}

 The dataset includes 8598 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026126-240216155721649/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pzjobe
title: Occurrence Download

description: A dataset containing 375 species occurrences available in GBIF matching the query:
{
 "or" : [
 "TaxonKey is Lophura swinhoii (Gould, 1863)",
 "TaxonKey is Lophura swinhoei (Gould, 1863)"
 ]
}

 The dataset includes 375 records from 58 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003445-150316153013904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2frvc7
title: Occurrence Download

description: A dataset containing 5103 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Drypetes deplanchei (Brongn. & Gris) Merr."
 ]
}

 The dataset includes 5103 records from 64 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0056156-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ntzvxi
title: Occurrence Download

description: A dataset containing 59 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vietnamosasa"
 ]
}

 The dataset includes 59 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003445-150422101436696/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.spz7vk
title: Occurrence Download

description: A dataset containing 258 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Identificación de las plantas útiles como Productos Forestales No Maderables del Bosque seco-Tropical en tres ventanas del Caribe colombiano"
 ]
}

 The dataset includes 258 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045856-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jc04jq
title: Occurrence Download

description: A dataset containing 154 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Quercus castanea Née",
 "DatasetKey is Tropicos MO Specimen Data"
 ]
}

 The dataset includes 154 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003445-150811131857512/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h5fdz2
title: Occurrence Download

description: A dataset containing 155 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Fauna y flora presente en el humedal La Garcera, departamento del Tolima"
 ]
}

 The dataset includes 155 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045907-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.