cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10572480
title: Dataset for "Environmental drivers of increased ecosystem respiration in a warming tundra"

description: Data for Nature manuscript titled 

“Environmental drivers of increased ecosystem respiration in a warming tundra”

Corresponding author Dr. Sybryn Maes – sybryn.maes@gmail.com 



Github contains all R scripts on https://github.com/mjalava/tundraflux


Part A. Meta-analysis

The bold names refer to scripts (see the Github repository https://github.com/mjalava/tundraflux) and names in italics refer to files in this repository

df_0

-Study design Figure 1 and Extended Fig. 1 from main text

df_1a

-Effect size calculations of response (ER)

-Links to df_1.csv file with raw flux and environmental data

-Only the experiments that state ‘Open Access’ in the excel file Authors_Datasets (sheet 2). For experiments stating ‘Available Upon Request’, you need to contact the authors for the -raw flux data.

df_1b

-Effect size calculations of environmental drivers

-Links to df_1.csv file with raw flux data data (see above) and Dataset_ID.csv (this file includes all dataset IDs to merge the drivers into one dataframe)

df_2a-f

-Meta-analysis (2a) and meta-regression models (2b-f) (ER, N=136)

-Links to df_2.csv file with effect size data and context-dependencies and Forestplot_horiz_weights_fig.csv (this file includes the mean pooled Hedges SMD as well as the individual dataset Hedges SMD to plot figure 2)

-Contains code for Figs. 2-4 and Extended Figs 2-3

df_3

-Meta-regression for experimental warming duration

-Contains code for Fig. 5

df_4a            

-Effect size calculations of autotrophic-heterotrophic respiration partitioning (Ra, Rh, N=9)

-Links to df_3.csv file with raw partitioning data of subset experiments (output file df_4.csv)

df_4b            

-Sub-meta-analysis models (ER, Ra, Rh)

-Links to df_4.csv (input file)

NOTES

·       All additional input files for the meta-analysis R-scripts are included within the folders. 

·       ER, Ra, Rh = ecosystem, autotrophic, and heterotrophic respiration

·       N = sample size (number of datasets)

 

Part B. Upscaling results

For upscaling, the input data is described in the code files (see the Github repository) and the accompanying Readme.txt.

percentageChangeResp_tundraAlpine.tif: modelled change in respiration

baseResp_tundraAlpine.tif: baseline respiration (calculated from the data from literature)

modResp_tundraAlpine.tif: modelled respiration after warming (our calculations: (percentageChangeResp_tundraAlpine+1) * baseResp_tundraAlpine)

changeResp_tundraAlpine.tif: modResp-baseResp

standError_tundraAlpine.tif: standard error of modelled respiration (

standError_tundraAlpine_onlyDataUncertainty.tif: standard error of modelled respiration where only data uncertainty is taken into account
DOI: 10.57703/ce-rcce5
title: Floor 6: CUPS Venho Verde Unpolished (Full Scale)

description: Stylus and SEM Measurements on CUPS Floor Tile
These are commercial flooring tiles. The model of the tile is given in the name of the Digital Surface Twin. The manufacturer and some additional details can be found in the associated publication (see below).
Surface topography data for these tiles were collected on a stylus profilometer (DektakXT, Bruker, Billerica, Massachusetts, USA), and on SEM(Sigma 500VP, Zeiss, Oberkochen, Germany)

This data is associated with the following publication:
Ing, H., Chadha, V., Randolph, A.B., Reifler, K., Jacobs, T.D.B. and Beschorner K.E. Validation of a multiscale hysteresis mechanics model in predicting oily shoe-floor friction across surfaces with varying finishes. ASME Journal of Tribology (2024)
DOI: 10.15468/dl.ukf69g
title: Occurrence Download

description: A dataset listing the 2 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-72.46044 5.88598,-72.42241 4.94032,-71.22434 4.92995,-71.21915 5.88771,-72.46044 5.88598))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Cyatheales"
 ]
}

 The dataset's 2 records were derived from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044640-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gmdcy5
title: Occurrence Download

description: A dataset containing 156171 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, Mexico, United States of America)",
 "EventDate is greater than or equal to 2024-11-25",
 "EventDate is less than or equal to 2024-12-25",
 {
 "not" : {
 "Issue" : [
 "is one of (Basis of record invalid, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate precision invalid, Coordinate uncertainty meters invalid, Country mismatch, Country invalid, Geodetic datum invalid, Presumed swapped coordinate, Presumed negated longitude, Presumed negated latitude, Country coordinate mismatch)"
 ]
 }
 }
 ]
}

 The dataset includes 156171 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044632-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11244912
title: Endogenous LRRK2 and PINK1 function in a convergent neuroprotective ciliogenesis pathway in the brain
title: Raw data for main figures

description: Raw data for Main Figure 1,3,4, and 5. The new version has been revised according to the reviewer suggestions.
DOI: 10.5281/zenodo.11244913
title: Endogenous LRRK2 and PINK1 function in a convergent neuroprotective ciliogenesis pathway in the brain
title: Raw data for main figures

description: Raw data for main figures excuding Figure2 and 5. Each Figure has: PNG file of image; Readme text file and zip file with all the raw data.
DOI: 10.5281/zenodo.14014420
title: Endogenous LRRK2 and PINK1 function in a convergent neuroprotective ciliogenesis pathway in the brain
title: Raw data for main figures

description: Raw data for Main Figure 1, 4 and 5. The new version has been revised according to the reviewer suggestions.
DOI: 10.5281/zenodo.14535133
title: Endogenous LRRK2 and PINK1 function in a convergent neuroprotective ciliogenesis pathway in the brain
title: Raw data for main figures

description: Raw data for Main Figure 1,3,4, and 5. The new version has been revised according to the reviewer suggestions.
DOI: 10.57703/ce-5rett
title: Floor 7: PBS Piemonte Bone Satin (Full Scale)

description: Stylus and SEM Measurements on PBS Floor Tile
These are commercial flooring tiles. The model of the tile is given in the name of the Digital Surface Twin. The manufacturer and some additional details can be found in the associated publication (see below).
Surface topography data for these tiles were collected on a stylus profilometer (DektakXT, Bruker, Billerica, Massachusetts, USA), and on SEM(Sigma 500VP, Zeiss, Oberkochen, Germany)

This data is associated with the following publication:
Ing, H., Chadha, V., Randolph, A.B., Reifler, K., Jacobs, T.D.B. and Beschorner K.E. Validation of a multiscale hysteresis mechanics model in predicting oily shoe-floor friction across surfaces with varying finishes. ASME Journal of Tribology (2024)
DOI: 10.5281/zenodo.14537441
title: Chicago taxi rides

description: Taxi trips from 2019 to 2021, derived from a larger dataset published by the City of Chicago Data Portal.

This subset has been converted into a Parquet file for use in the _Thinking in Arrays_ tutorial presented at SciPy 2022, 2023, and 2024.



Tutorial abstract (2023)

Video of tutorial (2023)

Tutorial materials (2023) and specific lesson that uses this dataset


It has this nested schema:

>>> import awkward as ak
>>> a = ak.from_parquet("data/chicago-taxi.parquet")
>>> a.type.show()
7728 * var * {
    trip: {
        sec: ?float32,
        km: ?float32,
        begin: {
            lon: ?float64,
            lat: ?float64,
            time: ?datetime64[ms]
        },
        end: {
            lon: ?float64,
            lat: ?float64,
            time: ?datetime64[ms]
        },
        path: var * {
            londiff: float32,
            latdiff: float32
        }
    },
    payment: {
        fare: ?float32,
        tips: ?float32,
        total: ?float32,
        type: categorical[type=string]
    },
    company: categorical[type=string]
}

which is 7728 taxis, each with a variable number of trips. Each trip has a length in seconds and kilometers, a begin and end longitude/latitude/time, as well as a variable-length path (relative to the begin position). Each trip also has payment information (type can be "Unknown", "Cash", "Credit Card", "No Charge", "Mobile", "Prcard", "Dispute", "Pcard", "Prepaid"). Each taxi belongs to one of 65 companies.

This dataset was previously published at the following URL: https://pivarski-princeton.s3.us-east-1.amazonaws.com/chicago-taxi.parquet
DOI: 10.5281/zenodo.14537442
title: Chicago taxi rides

description: Taxi trips from 2019 to 2021, derived from a larger dataset published by the City of Chicago Data Portal.

This subset has been converted into a Parquet file for use in the _Thinking in Arrays_ tutorial presented at SciPy 2022, 2023, and 2024.



Tutorial abstract (2023)

Video of tutorial (2023)

Tutorial materials (2023) and specific lesson that uses this dataset


It has this nested schema:

>>> import awkward as ak
>>> a = ak.from_parquet("data/chicago-taxi.parquet")
>>> a.type.show()
7728 * var * {
    trip: {
        sec: ?float32,
        km: ?float32,
        begin: {
            lon: ?float64,
            lat: ?float64,
            time: ?datetime64[ms]
        },
        end: {
            lon: ?float64,
            lat: ?float64,
            time: ?datetime64[ms]
        },
        path: var * {
            londiff: float32,
            latdiff: float32
        }
    },
    payment: {
        fare: ?float32,
        tips: ?float32,
        total: ?float32,
        type: categorical[type=string]
    },
    company: categorical[type=string]
}

which is 7728 taxis, each with a variable number of trips. Each trip has a length in seconds and kilometers, a begin and end longitude/latitude/time, as well as a variable-length path (relative to the begin position). Each trip also has payment information (type can be "Unknown", "Cash", "Credit Card", "No Charge", "Mobile", "Prcard", "Dispute", "Pcard", "Prepaid"). Each taxi belongs to one of 65 companies.

This dataset was previously published at the following URL: https://pivarski-princeton.s3.us-east-1.amazonaws.com/chicago-taxi.parquet
DOI: 10.5281/zenodo.14537256
title: BLM28314:6_DC78
DOI: 10.57703/ce-n94jp
title: Floor 8: PPM Piemonte Pearl Matte (Full Scale)

description: Stylus and SEM Measurements on PPM Floor Tile
These are commercial flooring tiles. The model of the tile is given in the name of the Digital Surface Twin. The manufacturer and some additional details can be found in the associated publication (see below).
Surface topography data for these tiles were collected on a stylus profilometer (DektakXT, Bruker, Billerica, Massachusetts, USA), and on SEM(Sigma 500VP, Zeiss, Oberkochen, Germany)

This data is associated with the following publication:
Ing, H., Chadha, V., Randolph, A.B., Reifler, K., Jacobs, T.D.B. and Beschorner K.E. Validation of a multiscale hysteresis mechanics model in predicting oily shoe-floor friction across surfaces with varying finishes. ASME Journal of Tribology (2024)
DOI: 10.15468/dl.834b2e
title: Occurrence Download

description: A dataset containing 101314 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Human Observation, Specimen)",
 "Geometry POLYGON((-69.93 43.05,-59.08 43.05,-59.08 48.69,-69.93 48.69,-69.93 43.05))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "License is one of (CC0 1.0, CC-BY 4.0, CC-BY-NC 4.0)",
 "OccurrenceStatus is Present",
 "TaxonKey is Fungi"
 ]
}

 The dataset includes 101314 records from 139 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044638-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57703/ce-bzt2h
title: Floor 9: PPP Piemonte Pearl Polished (Full Scale)

description: Stylus and SEM Measurements on PPP Floor Tile
These are commercial flooring tiles. The model of the tile is given in the name of the Digital Surface Twin. The manufacturer and some additional details can be found in the associated publication (see below).
Surface topography data for these tiles were collected on a stylus profilometer (DektakXT, Bruker, Billerica, Massachusetts, USA), and on SEM(Sigma 500VP, Zeiss, Oberkochen, Germany)

This data is associated with the following publication:
Ing, H., Chadha, V., Randolph, A.B., Reifler, K., Jacobs, T.D.B. and Beschorner K.E. Validation of a multiscale hysteresis mechanics model in predicting oily shoe-floor friction across surfaces with varying finishes. ASME Journal of Tribology (2024)
DOI: 10.6084/m9.figshare.28074926
title: Data for Asymmetric Model Selection Approach

description: Data for applications of Asymmetric Model Selection Approach
DOI: 10.6084/m9.figshare.28074926.v1
title: Data for Asymmetric Model Selection Approach

description: Data for applications of Asymmetric Model Selection Approach
DOI: 10.60594/w4cc7m
title: Fort Stewart 2024: Contextual data for Wildland Fire Science Initiative (WFSI) Research Burn Campaign

description: This dataset contains contextual information for the Wildland Fire Science Initiative (WFSI) research burn campaign: Fort Stewart 2024, conducted on February 8-10, 2024, in longleaf pine-wiregrass ecosystems on the Army base, Fort Stewart. WFSI research burn campaigns are collaborative opportunities for researchers in the WFSI community to jointly conduct prescribed fire research and combine expertise. The campaigns are supported by the WFSI Integrated Research Management Team (IRMT) in conjunction with installation’s personnel. The contextual information includes: descriptions of Fort Stewart climatology, plant communities, fuels, and operational information from Fort Stewart prescribed fire organization. Remote Automated Weather Station data from Wright Army Airfield covering all burn days is also included. The contextual information is to be used as an aid to researchers when publishing on WFSI related research campaigns. To find datasets collected as part of the research campaign, search keyword: “Fort Stewart 2024”.
DOI: 10.26300/accq-3a38
title: ENGN1350_Lab1.ino
DOI: 10.57703/ce-4mqh9
title: Floor 10: PPS Piemonte Pearl Satin (Full Scale)

description: Stylus and SEM Measurements on PPS Floor Tile
These are commercial flooring tiles. The model of the tile is given in the name of the Digital Surface Twin. The manufacturer and some additional details can be found in the associated publication (see below).
Surface topography data for these tiles were collected on a stylus profilometer (DektakXT, Bruker, Billerica, Massachusetts, USA), and on SEM(Sigma 500VP, Zeiss, Oberkochen, Germany)

This data is associated with the following publication:
Ing, H., Chadha, V., Randolph, A.B., Reifler, K., Jacobs, T.D.B. and Beschorner K.E. Validation of a multiscale hysteresis mechanics model in predicting oily shoe-floor friction across surfaces with varying finishes. ASME Journal of Tribology (2024)
DOI: 10.15468/dl.e8gew8
title: Occurrence Download

description: A dataset containing 10252 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-142.72713 25.15603,-44.16066 25.15603,-44.16066 61.549,-142.72713 61.549,-142.72713 25.15603))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Craterellus Pers."
 ]
}

 The dataset includes 10252 records from 56 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044644-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qxmvcr
title: Occurrence Download

description: A dataset containing 14639 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Sialia sialis (Linnaeus, 1758)"
 ]
}

 The dataset includes 14639 records from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044645-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.94jxqh
title: Occurrence Download

description: A dataset containing 17031 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Sitta carolinensis Latham, 1790"
 ]
}

 The dataset includes 17031 records from 64 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044646-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eqb9nk
title: Occurrence Download

description: A dataset containing 55 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Larus fuliginosus Gould, 1841"
 ]
}

 The dataset includes 55 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044647-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f7k46v
title: Occurrence Download

description: A dataset containing 10252 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-142.72713 25.15603,-44.16066 25.15603,-44.16066 61.549,-142.72713 61.549,-142.72713 25.15603))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Craterellus Pers."
 ]
}

 The dataset includes 10252 records from 56 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044648-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7266/n7bv7f05
title: CTD hydrographic data, December 2015 and January 2016, Pensacola Shelf
DOI: 10.15468/dl.ywvwp2
title: Occurrence Download

description: A dataset containing 841 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Material sample, Specimen)",
 "TaxonKey is Acinonyx jubatus (Schreber, 1775)"
 ]
}

 The dataset includes 841 records from 85 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044649-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wt9u5r
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-81.61525 46.41294,-82.10597 45.95778,-80.9894 44.03758,-79.82305 43.66065,-78.25844 43.53975,-76.99253 43.82422,-76.5587 43.95935,-76.70094 44.4714,-78.94829 45.65197,-80.7476 46.27782,-81.61525 46.41294))",
 "TaxonKey is Lasiurus cinereus (Palisot de Beauvois, 1796)",
 "Year 1993-2024"
 ]
}

 The dataset includes 16 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044650-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14538133
title: Location and characteristics of the brine pools in the Gulf of Mexico

description: This dataset contains a csv file with the main characteristics of the known brine pools in the Gulf of Mexico, and a geopackage with their locations.
DOI: 10.5281/zenodo.14538134
title: Location and characteristics of the brine pools in the Gulf of Mexico

description: This dataset contains a csv file with the main characteristics of the known brine pools in the Gulf of Mexico, and a geopackage with their locations.
DOI: 10.15468/dl.swyg3m
title: Occurrence Download

description: A dataset containing 55 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Larus fuliginosus Gould, 1841"
 ]
}

 The dataset includes 55 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044651-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22003/xfel.eu-data-900410-00
title: Commissioning SQS Laser
DOI: 10.22003/xfel.eu-data-900444-00
title: Commissioning SQS Laser
DOI: 10.22003/xfel.eu-data-008697-00
title: Attosecond angular streaking
DOI: 10.22003/xfel.eu-data-900471-00
title: DSSC prototype commissioning
DOI: 10.15468/dl.qg3zqv
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Material sample, Specimen)",
 "Country is India",
 "TaxonKey is Acinonyx jubatus (Schreber, 1775)"
 ]
}

 The dataset includes 11 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044652-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.18126/xy1k-q029
title: Data for "Spatially programmed alignment and actuation in printed liquid crystal elastomers"
DOI: 10.15468/dl.u86adn
title: Occurrence Download

description: A dataset containing 65475 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mus musculus Linnaeus, 1758",
 "Country is Australia",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 65475 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044653-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17909/qnf6-wa82
title: HST-Hyperion + 3D-HST/COSMOS
DOI: 10.15468/dl.dgrub9
title: Occurrence Download

description: A dataset containing 17005 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Sphyrna lewini (Griffith & Smith, 1834)",
 "Geometry POLYGON ((-153.63281 31.05293, -151.17188 -15.96133, -71.36719 -15.28419, -73.125 32.24997, -153.63281 31.05293))",
 "Year is greater than or equal to 1998"
 ]
}

 The dataset includes 17005 records from 66 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044654-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cj56z4
title: Occurrence Download

description: A dataset containing 9445 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nissolia Jacq."
 ]
}

 The dataset includes 9445 records from 309 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044655-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.