cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15129/e19896e1-4b1e-41a6-93e9-0d0abef3bc60
title: Data For "Probing the Redox Chemistry of β-diketiminate Supported Aluminium Complexes"

description: Raw data used to plot the results presented in the published paper.
The folder contains 3 separate folders corresponding to each of the experimental techniques used in the paper.
1. Electrochemistry data
2. UVvis data
3. NMR spectra
DOI: 10.15468/dl.42zeh5
title: Occurrence Download

description: A dataset containing 71 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Smelowskia inopinata"
 ]
}

 The dataset includes 71 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022813-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s4syf9
title: Occurrence Download

description: A dataset containing 146 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hedera helix",
 "Country is Argentina",
 "HasCoordinate is true"
 ]
}

 The dataset includes 146 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022816-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b922su
title: Occurrence Download

description: A dataset containing 19 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phlegmatospermum richardsii"
 ]
}

 The dataset includes 19 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022818-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xrdr36
title: Occurrence Download

description: A dataset containing 12147 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phasianus colchicus",
 "Country is Spain",
 "HasCoordinate is true"
 ]
}

 The dataset includes 12147 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022815-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.29429777
title: T2T 单倍型分辨<i>Eucalyptus urophylla （桉树）</i><i>×</i><i>桉树</i>注释文件

description: T2T 单倍型分辨的 <i>Eucalyptus urophylla </i><i>× </i><i>Eucalyptus grandis</i> 注释文件。
DOI: 10.6084/m9.figshare.29429777.v2
title: T2T 单倍型分辨<i>Eucalyptus urophylla （桉树）</i><i>×</i><i>桉树</i>注释文件

description: T2T 单倍型分辨的 <i>Eucalyptus urophylla </i><i>× </i><i>Eucalyptus grandis</i> 注释文件。
DOI: 10.6084/m9.figshare.29429777.v1
title: T2T haplotype-resolved <i>Eucalyptus urophylla </i><i>× </i><i>Eucalyptus grandis</i> annotation files

description: T2T haplotype-resolved <i>Eucalyptus urophylla </i><i>× </i><i>Eucalyptus grandis</i> annotation files.
DOI: 10.5281/zenodo.15967531
title: Data collected on environmental changes and nitrogen removal during simulated sea ice freezing and melting processes

description: The data comes from the results of monitoring water and sediments in the simulation experiment of sea ice freezing and melting. There are 5 tables in the dataset.
DOI: 10.15468/dl.e3qd6k
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:ACF2053"
 ]
}

 The dataset includes 9 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022819-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57903/uj/mfssgn
title: β-lactoglobulin variants as potential carriers of pramoxine: comprehensive structural and biophysical studies - raw data

description: Raw data for spectroscopic and calorimetric measurements underlying the results presented in the manuscript "β-lactoglobulin variants as potential carriers of pramoxine: comprehensive structural and biophysical studies"
DOI: 10.15468/dl.7345ke
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Accipiter gentilis",
 "BasisOfRecord is one of (Human Observation, Specimen)",
 "HasCoordinate is TRUE",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Country is China",
 "StateProvince is \"Tibet\"",
 "DecimalLongitude is greater than or equal to 93",
 "DecimalLongitude is less than or equal to 96",
 "DecimalLatitude is greater than or equal to 28",
 "DecimalLatitude is less than or equal to 30",
 "Year is greater than or equal to 2013",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022820-250711103210423/datasets/export for details.
DOI: 10.6084/m9.figshare.28570433
title: Rcode_src_global_willow.txt

description: R code for random forest analysis in SRC willow global dataset.
DOI: 10.6084/m9.figshare.28570433.v1
title: Rcode_src_global_willow.txt

description: R code for random forest analysis in SRC willow global dataset.
DOI: 10.15468/dl.nz4n9g
title: Occurrence Download

description: A dataset containing 10804781 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((23.05805 65.86972,23.05805 66.03197,22.22859 65.99825,21.4489 65.67229,20.81852 64.84617,21.38255 64.48415,16.72728 62.47048,17.03923 60.62511,18.53899 59.87558,15.99678 59.74245,15.97467 58.66515,16.10629 56.95878,16.10629 56.95878,15.78303 56.29078,14.49418 56.32991,14.10879 55.90196,14.11712 55.48358,13.1032 55.44953,13.1503 55.71827,12.79367 56.1158,13.00212 56.47587,12.86631 56.73747,12.06813 57.6683,11.97863 58.27557,11.28617 59.57978,10.03589 59.91788,9.26117 56.80965,11.19077 55.23815,13.20216 53.48063,18.7374 53.89532,21.4415 54.70265,21.22648 56.38695,23.64168 59.9515,21.69147 60.74632,21.91308 62.66617,25.04874 64.68351,25.71231 65.40439,24.66719 65.89005,23.05805 65.86972))",
 "TaxonKey is Magnoliopsida",
 "Year 2000-2025"
 ]
}

 The dataset includes 10804781 records from 252 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022779-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6sz5e9
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hedera helix",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 14 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022823-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uassvz
title: Occurrence Download

description: A dataset containing 58 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hedera helix",
 "Country is Colombia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 58 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022824-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fm5yg7
title: Occurrence Download

description: A dataset containing 133 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Nephromopsis nivalis",
 "Geometry POLYGON((-8.00174339329464 54.1998526673513, 0.202120938926891 54.1998526673513, 0.202120938926891 61.2628565887411, -8.00174339329464 61.2628565887411, -8.00174339329464 54.1998526673513))",
 "CoordinateUncertaintyInMeters is 0,101",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 133 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022821-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.29580341
title: New ASP data from The influence of soft tissue volume on estimates of skeletal pneumaticity: implications for fossil archosaurs

description: Excel spreadsheet presenting all new ASP data generated for this study.
DOI: 10.6084/m9.figshare.29580341.v1
title: New ASP data from The influence of soft tissue volume on estimates of skeletal pneumaticity: implications for fossil archosaurs

description: Excel spreadsheet presenting all new ASP data generated for this study.
DOI: 10.6084/m9.figshare.29580344
title: Previously published ASP data from The influence of soft tissue volume on estimates of skeletal pneumaticity: implications for fossil archosaurs

description: Excel spreadsheet presenting all previously published ASP data investigated in this study.
DOI: 10.6084/m9.figshare.29580344.v1
title: Previously published ASP data from The influence of soft tissue volume on estimates of skeletal pneumaticity: implications for fossil archosaurs

description: Excel spreadsheet presenting all previously published ASP data investigated in this study.
DOI: 10.15468/dl.p6xp88
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Erysimum slavjankae"
 ]
}

 The dataset includes 11 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022822-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h7sz73
title: Occurrence Download

description: A dataset containing 1189 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phasianus colchicus",
 "Country is Switzerland",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1189 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022825-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9prwxf
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Draba sanctae-martae"
 ]
}

 The dataset includes 14 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022826-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13752869
title: SelectSim Dataset

description: Readme

- There are two supplementary data available in this repository. Descriptions of them are mentioned below.

Supplementary Data 1

- Data Version: GENIE v15- Raw Data available at: https://doi.org/10.7303/syn53210170

- There are 19 folders, each representing an AACR project GENIE Participating Center. Each folder contains .rds R-data files containing the processed GAMs, one for each gene sequencing panel used by that Center. The data of each file include a list with 2 GAMs, one built from missense, and one built from truncating mutations.

- How to read data in R:

`data <- readRDS('MSK/MSK-IMPACT468.rds')`

Supplementary Data 2 

- There are two folders, representing a pan_cancer (for joint analysis of all tumor classes) and tumor_class runs, respectively.

- Both folders contain three subfolders, corresponding to the GENIE Participating Centers MSK and DFCI, and the TCGA cohort (https://www.cancer.gov/ccg/research/genome-sequencing/tcga)

- Each subfolder contains .rds files with processed run_data objects for running SelectSim. These include missense and truncating mutations GAMs, tumor mutational burden estimates for each sample, and sample classes (tumor subtypes). Within each of the three subfolders, there are files containing GAMs built from all available patients and OncoKB genes (n=396, e.g. "pan_can_dfci_primary_run_data_v15.rds"), whereas files within the subsubfolders named "gene_panel" contain GAMs subsetted to the corresponding gene panel and patients sequenced by that panel. Every file's name includes labels corresponding to the cohort (MSK, DFCI, or TCGA), the tumor class (or label "pan-can"), the gene sequencing panel (e.g. "p_505"), and the metastatic status of analyzed patients ("primary" or "meta").

- How to read data in R:

`data <- readRDS('pan_can_tcga_run_data.rds.rds')`

Contact Details

- For any queries:    - Contact: Arvind Iyer (ayalurarvind@gmail.com, arvind.iyer@unil.ch) , Miljan Petrovic (miljan.petrovic@unil.ch)    - Lead Contact: Giovanni Ciriello (giovanni.ciriello@unil.ch) 

Acknowledgments

"The authors would like to acknowledge the American Association for Cancer Research and its financial and material support in the development of the AACR Project GENIE registry, as well as members of the consortium for their commitment to data sharing. Interpretations are the responsibility of the study authors."
DOI: 10.5281/zenodo.13752870
title: SelectSim Dataset

description: Readme

- There are two supplementary data available in this repository. Descriptions of them are mentioned below.

Supplementary Data 1

- Data Version: GENIE v15- Raw Data available at: https://doi.org/10.7303/syn53210170

- There are 19 folders, each representing an AACR project GENIE Participating Center. Each folder contains .rds R-data files containing the processed GAMs, one for each gene sequencing panel used by that Center. The data of each file include a list with 2 GAMs, one built from missense, and one built from truncating mutations.

- How to read data in R:

`data <- readRDS('MSK/MSK-IMPACT468.rds')`

Supplementary Data 2 

- There are two folders, representing a pan_cancer (for joint analysis of all tumor classes) and tumor_class runs, respectively.

- Both folders contain three subfolders, corresponding to the GENIE Participating Centers MSK and DFCI, and the TCGA cohort (https://www.cancer.gov/ccg/research/genome-sequencing/tcga)

- Each subfolder contains .rds files with processed run_data objects for running SelectSim. These include missense and truncating mutations GAMs, tumor mutational burden estimates for each sample, and sample classes (tumor subtypes). Within each of the three subfolders, there are files containing GAMs built from all available patients and OncoKB genes (n=396, e.g. "pan_can_dfci_primary_run_data_v15.rds"), whereas files within the subsubfolders named "gene_panel" contain GAMs subsetted to the corresponding gene panel and patients sequenced by that panel. Every file's name includes labels corresponding to the cohort (MSK, DFCI, or TCGA), the tumor class (or label "pan-can"), the gene sequencing panel (e.g. "p_505"), and the metastatic status of analyzed patients ("primary" or "meta").

- How to read data in R:

`data <- readRDS('pan_can_tcga_run_data.rds.rds')`

Contact Details

- For any queries:    - Contact: Arvind Iyer (ayalurarvind@gmail.com, arvind.iyer@unil.ch) , Miljan Petrovic (miljan.petrovic@unil.ch)    - Lead Contact: Giovanni Ciriello (giovanni.ciriello@unil.ch) 

Acknowledgments

"The authors would like to acknowledge the American Association for Cancer Research and its financial and material support in the development of the AACR Project GENIE registry, as well as members of the consortium for their commitment to data sharing. Interpretations are the responsibility of the study authors."
DOI: 10.15468/dl.f794a3
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Hylopetes sagitta"
 ]
}

 The dataset includes 7 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022827-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pqrv9u
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nothobranchius kadleci"
 ]
}

 The dataset includes 12 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022828-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x6fybg
title: Occurrence Download

description: A dataset containing 751118 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "Geometry POLYGON((99 3,102 3,102 54,99 54,99 3))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 751118 records from 848 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022788-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y9e83f
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Accipiter nisus",
 "BasisOfRecord is one of (Human Observation, Specimen)",
 "HasCoordinate is TRUE",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Country is China",
 "StateProvince is \"Tibet\"",
 "DecimalLongitude is greater than or equal to 93",
 "DecimalLongitude is less than or equal to 96",
 "DecimalLatitude is greater than or equal to 28",
 "DecimalLatitude is less than or equal to 30",
 "Year is greater than or equal to 2013",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022829-250711103210423/datasets/export for details.
DOI: 10.15468/dl.anuym9
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Leiothlypis ruficapilla)",
 "Country is one of (Åland Islands, Albania, Andorra, Austria, Belarus, Belgium, Bosnia and Herzegovina, Bulgaria, Croatia, Czechia, Denmark, Estonia, Faroe Islands, Finland, France, Germany, Gibraltar, Greece, Guernsey, Holy See, Hungary, Iceland, Ireland, Isle of Man, Italy, Jersey, Latvia, Liechtenstein, Lithuania, Luxembourg, Malta, Moldova, Republic of, Monaco, Montenegro, Netherlands, North Macedonia, Norway, Poland, Portugal, Romania, Russian Federation, San Marino, Serbia, Slovakia, Slovenia, Spain, Svalbard and Jan Mayen, Sweden, Switzerland, Ukraine, United Kingdom of Great Britain and Northern Ireland)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022830-250711103210423/datasets/export for details.
DOI: 10.15468/dl.aghyf2
title: Occurrence Download

description: A dataset containing 137 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepidium pseudopapillosum"
 ]
}

 The dataset includes 137 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022831-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.txynq2
title: Occurrence Download

description: A dataset containing 42 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Royal Botanic Gardens, Kew - Herbarium Specimens",
 "OccurrenceStatus is Present",
 "TaxonKey is Ayenia pusilla"
 ]
}

 The dataset includes 42 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022832-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5ax5wq
title: Occurrence Download

description: A dataset containing 2844 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hedera helix",
 "Country is New Zealand",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2844 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022835-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ph8ah4
title: Occurrence Download

description: A dataset containing 201 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hedera helix",
 "Country is Mexico",
 "HasCoordinate is true"
 ]
}

 The dataset includes 201 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022834-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fe4z8a
title: Occurrence Download

description: A dataset containing 597 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crucihimalaya bursifolia"
 ]
}

 The dataset includes 597 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022833-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8dc7zt
title: Occurrence Download

description: A dataset containing 67327 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Isolepis australis, Scirpus australis, Isolepis, Eleogiton, Scirpidiella, Isolepis carinata, Isolepis carinata, Isolepis hookeri, Isolepis hookeri, Isolepis koilolepis)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Machine Observation)"
 ]
 }
 },
 "Continent is Europe",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 67327 records from 777 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022780-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/b8d-mt5-fgt
title: †Pattalophyllia d'Achiardi, 1868

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mhg-j2j-n0v
title: Echinodermata

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/th5-w87-pc2
title: Caryophyllia Lamarck, 1801

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ems-d4t-bx7
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/lbh-fvk-zrz
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/h6b-6gh-zcf
title: Porifera Grant, 1836

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/2k1-2jl-272
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/drs-zcy-dfz
title: Homo sapiens Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/q8j-a5q-e3n
title: Cnidaria

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.