cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.14583540
title: Data and code associated with Slimon et al. 2025 Ecology paper

description: Entire R project is uploaded as a zip file with correct file structure

 

#code

All code is found in ~/code

Our data analyses are broken into two scripts: "code - main.R" contains the majority of the analyses, whereas "code - supp mat.R" contains analyses mostly associated with the Supplement. 

Our simulation is found in "dormancy sim.R"

#data

"cleaned_Fitnessdata.csv" and "ndvi_szojka_buffer25m2.csv" are used in "code - supp mat.R" and to test how Vulpia's fitness varies across a productivity gradient.

"climate.csv" is used in "code - supp mat.R" to examine how temperature and precipitation vary through time at the Reserve

"plastic dormancy, 2 seeds.csv" is the full output created from "dormancy sim.R" - note, because this is a stochastic model, the exact output will vary each run. 

"percent green.csv" is used in "code - supp mat.R" to examine how primary production (i.e., % of plot containing living plant matter) varied over a 3 year sampling window across plots that varied in overall quality (using the site 'productivity' variable found in "percent green.csv").

"raw env data.csv" and "env.means.all, lat lon.csv" were used in "code - supp mat.R" to test how variable environmental conditions are within and between sites.
DOI: 10.5281/zenodo.7996213
title: moyn413/nifHdada2: v2.0.5

description: New reference sequences added to database.
DOI: 10.6084/m9.figshare.22082219.v4
title: Data and analysis of "Developmental plasticity and the evolutionary rescue of a colonising mite"

description: The excel file contain the raw data in three sheets. THe first sheet contains the overall demographic data we gathered, used to analyse total population size; the second sheet contains the data to analyse srambler arrival day; the third sheet contains the weekly population growth rate. The r-script files import the raw data and contain code to run the analyses and create figures. The fourth sheet in the Excel file contains the metadata on the explanatory and response variables of the analyses.Per capita first day of scrambler expression.R imports the raw data from Raw data.xlsx to analyse treatment effects of the experiment on the first since the experiment started, expressed per total population size (so per capita first scrambler expression), that we first observed a scrambler in a population.First scrambler expression.R imports the raw data from Raw data.xlsx to analyse treatment effects of the experiment on the day since the experiment started that we first observed a scrambler in a population.Population growth.R imports the raw data from Raw data.xlsx to analyse treatment effects of the experiment on population growth quantified as the total population size at week t+1 divided over total population size at week t. .Proportion scramblers.R imports the raw data from Raw data.xlsx to analyse treatment effects of the experiment on the proportion of males that are scramblers.Total population size.R imports the raw data from Raw data.xlsx to analyse treatment effects of the experiment on total population size. Adult population size.R imports the raw data from Raw data.xlsx to analyse treatment effects of the experiment on total adult number. Fecundity.R imports the raw data from Raw data.xlsx to analyse treatment effects of the experiment on the number of eggs produced per female.Testing different time periods.R checks to see if testing for time effects using (1) Week as continuous factor, (2) total time period binned in 7 time intervals and (3), total time period binned in 4 time intervals had any qualitatively different result on scrambler expression. There were no qualitative differences.Number of fighters and scramblers plotted over time.R plots the mean number of fighters and scramblers over time for each treatment combination of environmental quality and founder population size.
DOI: 10.6084/m9.figshare.26543929
title: Datasets used in the Crop Trials Web Dashboard - https://www.avyield.com/

description: These datasets comprise crop yield trial data for multiple crops, including canola, corn, sorghum, soybean, sunflower, and wheat. The data were collected across various locations, primarily in Kansas and other states within the continental US. Each dataset includes detailed yield information for different genotypes, facilitating the analysis of crop performance across various environments. The data are intended to support decision-making in agriculture by allowing users to assess yield trends and make informed choices on crop management.
DOI: 10.6084/m9.figshare.28429010
title: Supplementary Material for: Adjunctive active vitamin D (AVD) decreases kidney function during treatment of secondary hyperparathyroidism (SHPT) with extended-release calcifediol (ERC) in non-dialysis chronic kidney disease (ND-CKD)

description: Introduction: Sustained 30% reductions of intact parathyroid hormone (iPTH) with ERC are associated with slower decline in estimated glomerular filtration rate (eGFR) in ND-CKD patients with SHPT. Such iPTH reductions usually require elevation of serum total 25-hydroxyvitamin D (25D) to ≥50 ng/mL, but achieving these reductions can be limited by the ERC dose ceiling (60 μg/day), raising the question of whether adjunctive (adj) AVD might be appropriate to further reduce iPTH.

Methods: This randomized controlled trial (RCT) examined whether adj AVD could safely increase iPTH reductions achieved with ERC and further reduce the rate of eGFR decline in 78 ND-CKD adults treated with ERC for 38 weeks. Participants had mean age of 66 years, body mass index of 35 kg/m2, 41% were female, 63% White, 36% Black, 19% Hispanic. At ERC initiation, participants had plasma iPTH 85-&lt;500 pg/mL, eGFR 15-&lt;60 mL/min/1.73 m2, serum 25D 10-&lt;30 ng/mL, corrected serum calcium (Ca) 8.4-&lt;9.8 mg/dL, serum phosphorus (P) 2.0-&lt;5.0 mg/dL, and absence of macroalbuminuria (&gt;300 mg/g creatinine). At baseline (BL; week 38), participants had plasma iPTH &gt;70 pg/mL and serum Ca &lt;9.8 mg/dL and were randomized 3:1:1:1 to daily ERC (60 μg) for 14 additional weeks with (n=40) or without (n=38) adj daily oral calcitriol (0.25 μg), doxercalciferol (0.5 μg) or paricalcitol (1.0 μg). Measurements of eGFR, iPTH, 25D, Ca, P and fibroblast growth factor 23 (FGF23) were obtained at BL and through end of treatment (EOT). 

Results: No significant intergroup differences were observed at BL. Mean 25D at BL was 65 ng/mL and rose 14 ng/mL by EOT in both groups (p&lt;0.001). Mean BL iPTH was 137 pg/mL and fell by a further 35.4% (p&lt;0.001) with adj AVD therapy versus 2.2% without. Mean Ca, P and FGF23 increased with adj AVD by 0.40 mg/dL (p&lt;0.001), 0.27 mg/dL (p&lt;0.01) and 49.1 pg/mL (155%; p&lt;0.001), respectively, but remained unchanged with ERC alone. Mean BL eGFR was 25.4 mL/min/1.73m2 and fell by 11.8% (p&lt;0.05) with adj AVD versus 3.0% without. 

Conclusion: Adj AVD at these doses enabled 35% more iPTH reduction in ND-CKD patients with mild to moderate SHPT on long-term ERC treatment but increased mean serum Ca and P by 0.40 and 0.27 mg/dL, respectively, FGF23 by more than 2-fold and eGFR decline by 4-fold, suggesting that adding AVD to ERC has untoward effects that override the nephrosparing impact of iPTH reductions with ERC treatment alone. Corroboration is warranted with a larger, longer RCT.
DOI: 10.7924/g8p26w5g
title: Data and scripts from: The origin of ultrastability in vapor-deposited glasses

description: Glass films created by vapor-depositing molecules onto a substrate can exhibit properties similar to those of ordinary glasses aged for thousands of years. It is believed that enhanced surface mobility is the mechanism that allows vapor deposition to create such exceptional glasses, but it is unclear how this effect is related to the final state of the film. Here we use molecular dynamics simulations to model vapor deposition and an efficient Monte Carlo algorithm to determine the deposition rate needed to create ultra-stable glassy films. We obtain a scaling relation that quantitatively captures the efficiency gain of vapor deposition over bulk annealing, and demonstrates that surface relaxation plays the same role in the formation of vapor-deposited glasses as bulk relaxation does in ordinary glass formation.
DOI: 10.5281/zenodo.13683103
title: DCE-MRI data of focused ultrasound-induced blood-brain barrier opening in mice (real & simulated)

description: RF-spoiled 3D FLASH GASOS DCE-MRI sequences with IRLL pre-contrast sequences acquired at 9.4T Bruker BioSpec USR 94/30 scanner with a surface mouse-brain four-channel array coil, and data simulated based on that acquisition.
DOI: 10.6084/m9.figshare.26411125
title: Lake Kasumigaura circulation model 2020

description: SUNTANS model case used for Masunaga et al. (2024) submitted to Water Resource Research. The data set includes all forcing/input files used in the model.
DOI: 10.1285/i20398573v6n2p223
title: Explaining the Role of Intervening Variables in Turkey's For-eign Policy Behaviour

description: This article aims to offer a neoclassical realist analytical framework to identify the influence of agent-structure interplay on Turkey's foreign policy behavior during JDP-led governments. The main argument is that the adjustments in Turkish behaviors between 2003 to date, analyzed by most scholars starting from the systemic or domestic level alone, could be better explained intertwining the explanans. Considering four intervening variables – national role conception, decision-making model, perception of strategic environment and orientation towards the regional order – this article discusses Turkey's shift from a wary isolationist attitude to a wary interventionist one. The last two decades of Turkey's foreign policy will be analyzed to show why the neoclassical realist analytical lens is particularly useful to grab the different determinants that have affected Turkish foreign policy behavior.
DOI: 10.15468/dl.dhrtwx
title: Occurrence Download

description: A dataset containing 2808 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Theristicus branickii Berlepsch & Stolzmann, 1894"
 ]
}

 The dataset includes 2808 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0133004-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15780/g2rp4q
title: Climate Hazards Center InfraRed Precipitation with Station (CHIRPSv2.0)
title: CHIRPSv2.0
DOI: 10.17632/yxb583nv5d.2
title: The Permanganate-Oxalate Reaction as a Visual Time-Temperature Indicator

description: Code Packages of Manuscript "The Permanganate-Oxalate Reaction as a Visual Time-Temperature Indicator: Reaction Systems for Use Above 0 °C"

SI Code Package 1 can be opened and run in Matlab. It can be viewed with any text editor.
SI Code Package 2 are Python scripts and can be opened and run in Jupyter Notebooks / JupyterLab and several other editors and integrated development environments.
SI Code Package 3: This code package is provided embedded with two macro-enabled Excel files. Within Excel, the VBA editor can be opened using Alt + F11. “Module 1” should then be opened within the Modules folder. Then click in the first line of code in the window to the right and execute the series of subroutines by hitting F5 or the play button in the VBA editor.
SI Code Package 4 is a Python script and can be opened and run in Jupyter Notebooks / JupyterLab and several other editors and integrated development environments.
SI Code Package 5: These are Matlab scripts that, taking ion activities into account, calculate the speciation of Mn(III) at a user-selected perchloric acid concentration, a user-specified concentration of Mn(III)(C2H3O2)3, and a range of Na2C2O2 concentrations over which it finds a maximum percent composition of either Mn(III)mono-oxalate or Mn(III)bisoxalate.

Supplementary Video and Slides: Impact of Continuous Exposure to Light (section 3.3.4 in manuscript). 
Slide 1 includes a video of the indicator's activation, divided into six aliquots to monitor the impact of continuous exposure to light; three aliquots are run while exposed to light, and the other three aliquots are covered from the light with a box. Photographic stills of the reaction over time are shown in slides 2 and 3. Slide 3 also includes two videos showing the ending of both groups.
DOI: 10.15468/dl.b2p8mj
title: Occurrence Download

description: A dataset containing 1768 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Scutellaria columnae All.",
 "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 1768 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006104-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.iyjtwj
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anolis mayeri Fowler, 1918"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016839-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s2pua2
title: Occurrence Download

description: A dataset containing 956 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crotalus basiliscus (Cope, 1864)"
 ]
}

 The dataset includes 956 records from 51 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0099887-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dwbtwd
title: Occurrence Download

description: A dataset containing 25 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliophila cuneata Marais"
 ]
}

 The dataset includes 25 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0062767-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.na203f
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anolis propinguus"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016842-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9m5a2e
title: Occurrence Download

description: A dataset containing 41760 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "TaxonKey is Ilex aquifolium L."
 ]
}

 The dataset includes 41760 records from 74 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0099900-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bqtqm2
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliophila descurva Schltr."
 ]
}

 The dataset includes 30 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0062768-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5vq55t
title: Occurrence Download

description: A dataset containing 13709 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is CardObs : Observations naturalistes issues de l'outil CardObs-Données naturalistes de Bruno OGER"
 ]
}

 The dataset includes 13709 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0109507-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xbyy1i
title: Occurrence Download

description: A dataset containing 34 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "Year 2000-2019",
 "TaxonKey is Primula L."
 ]
}

 The dataset includes 34 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000489-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qs5dz3
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Tomopterna gallmanni Wasonga & Channing, 2013"
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019953-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ygtjfn
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acraea dondoensis Stevenson, 1934"
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016851-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.733gxr
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliophila eximia Marais"
 ]
}

 The dataset includes 22 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0062778-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.idpglo
title: Occurrence Download

description: A dataset containing 8590 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Larosterna inca (R.Lesson & Garnot, 1827)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 8590 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009661-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v37phn
title: Occurrence Download

description: A dataset containing 5232 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "DatasetKey is NMNH Extant Specimen Records (USNM, US)",
 "DatasetKey is University of Alberta Museum of Zoology Amphibian and Reptile Collection (UAMZ)",
 "DatasetKey is SDNHM Herpetology Collection",
 "DatasetKey is CAS Herpetology (HERP)",
 "DatasetKey is Herpetology Collection - Royal Ontario Museum",
 "DatasetKey is MVZ Herp Collection (Arctos)",
 "DatasetKey is Royal BC Museum - Herpetology Collection",
 "DatasetKey is Cowan Tetrapod Collection - Herpetology",
 "DatasetKey is Canadian Museum of Nature Amphibian and Reptile Collection"
 ]
 },
 "GadmGid is CAN.2_1",
 {
 "or" : [
 "TaxonKey is Amphibia",
 "TaxonKey is Reptilia"
 ]
 }
 ]
}

 The dataset includes 5232 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009828-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qrcrq7
title: Occurrence Download

description: A dataset containing 124 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliophila elata Sond."
 ]
}

 The dataset includes 124 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0062773-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ogx0cj
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Year 1970-2019",
 "HasCoordinate is true",
 "TaxonKey is Rhogeessa genowaysi Baker, 1984",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 11 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000497-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2bn9jm
title: Occurrence Download

description: A dataset containing 1196 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Danaea nodosa (L.) Sm.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1196 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0141099-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yz8un5
title: Occurrence Download

description: A dataset containing 172 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliophila digitata L.f."
 ]
}

 The dataset includes 172 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0062771-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z2ph4b
title: Occurrence Download

description: A dataset containing 2620 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Actinidia arguta (Siebold & Zucc.) Planch. ex Miq.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2620 records from 106 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0061194-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gdv9un
title: Occurrence Download

description: A dataset containing 55448 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Actinobacteria"
 ]
}

 The dataset includes 55448 records from 739 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020343-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9mdfqs
title: Occurrence Download

description: A dataset containing 150014 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is North East Scotland Birds (1883-2010)"
 ]
}

 The dataset includes 150014 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020345-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.