cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.vamn7x
title: Occurrence Download

description: A dataset containing 9154 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pinaceae, Cupressaceae, Taxaceae, Podocarpaceae, Fagaceae, Betulaceae, Juglandaceae, Prunus, Malus, Crataegus, Sorbus, Amelanchier, Ulmaceae, Moraceae, Rhamnaceae, Sapindaceae, Simaroubaceae, Anacardiaceae, Malvaceae, Magnoliaceae, Lauraceae, Salicaceae, Platanaceae, Oleaceae, Bignoniaceae, Cornaceae, Hamamelidaceae, Oxydendrum, Arbutus, Robinia, Cercis, Gleditsia, Gymnocladus, Cladrastis, Albizia, Rutaceae, Aquifoliaceae, Nyssaceae, Araliaceae, Caprifoliaceae, Tamaricaceae, Elaeagnaceae)",
 {
 "or" : [
 "Geometry POLYGON ((-111.0893172289642 40.36094125102542, -111.28813051720417 38.01685033963882, -113.38998005712516 36.58868168639763, -107.33111039105512 36.59988405970193, -108.88618710693942 38.7406966978616, -108.58590164999643 38.75522714091609, -107.69846653331884 38.094790912324115, -107.40821655265461 39.57057247569589, -111.0893172289642 40.36094125102542), (-108.61084823665946 38.863961643570185, -108.98251412209758 38.76211970186801, -108.98328155087994 38.85468117957362, -108.61084823665946 38.863961643570185), (-109.07417494661956 38.53637889214004, -109.21085680384827 38.330978851107304, -109.3308953005144 38.40045829689788, -109.07417494661956 38.53637889214004), (-110.7104114279149 38.14632598483673, -110.67032233245102 37.858246292645326, -110.83841392789206 37.95915511469272, -110.7104114279149 38.14632598483673), (-109.35584698234709 37.87036315177309, -109.35383827232131 37.77638458812533, -109.54573598824562 37.75744842238237, -109.35584698234709 37.87036315177309))"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "Year is greater than or equal to 1980",
 "CoordinateUncertaintyInMeters is less than or equal to 10000"
 ]
}

 The dataset includes 9154 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040786-251025141854904/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.30644857
title: Identification of gut microbes related molecular subtypes and prognostic markers in breast cancer

description: Gut microbe-related genes (GMRGs) are crucial in breast cancer prognosis, immune regulation, and therapy response. A 16-GMRG prognostic model accurately predicts survival and immunotherapy efficacy. Two heterogeneous subtypes with distinct immune landscapes were identified. Drug sensitivity and Mendelian randomization analyses further validated their clinical relevance. These findings offer new insights for personalized breast cancer treatment.
DOI: 10.6084/m9.figshare.30644857.v1
title: Identification of gut microbes related molecular subtypes and prognostic markers in breast cancer

description: Gut microbe-related genes (GMRGs) are crucial in breast cancer prognosis, immune regulation, and therapy response. A 16-GMRG prognostic model accurately predicts survival and immunotherapy efficacy. Two heterogeneous subtypes with distinct immune landscapes were identified. Drug sensitivity and Mendelian randomization analyses further validated their clinical relevance. These findings offer new insights for personalized breast cancer treatment.
DOI: 10.15468/dl.fqhvg7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rhizidiocystis",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040800-251025141854904/datasets/export for details.
DOI: 10.15468/dl.tgs47d
title: Occurrence Download

description: A dataset containing 68376 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hippoglossus hippoglossus",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 68376 records from 85 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040759-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13140/rg.2.2.21862.28485
title: Progression of Vulnerability in Northern Rivers 2022 -2025 Flooding. Adapted from the Pressure and Release (PAR) model by Wisner et al. 2004
DOI: 10.15468/dl.mwajga
title: Occurrence Download

description: A dataset containing 105 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Omphalotus mexicanus"
 ]
}

 The dataset includes 105 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040802-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dxedpj
title: Occurrence Download

description: A dataset containing 1475 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Litoria eucnemis"
 ]
}

 The dataset includes 1475 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040803-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57760/sciencedb.j00001.00926
title: Area Datasets of ‘Grain for Green’ Project in Counties of the Loess Plateau from 1999 to 2020
title: 1999-2020年黄土高原地区县域尺度退耕还林（草）工程 面积数据集

description: The implementation of major ecological projects can lead to widespread land use changes, thereby affecting regional ecosystem services. To investigate the spatiotemporal patterns and trend changes of ecological restoration under the background of the Grain for Green Project (GGP) in the Loess Plateau from 1999 to 2020, this study constructed datasets at the county level based on China's administrative divisions. Specifically, annual land use data were extracted and processed using ArcGIS software, resulting in annual data on GGP areas (including seven types of land use conversion) for each county in the Loess Plateau from 1999 to 2020. This revealed the impact of the GGP on land use patterns. Through data quality control and evaluation, the reliability and scientific validity of the research results were ensured. The data indicated that under the implementation of the GGP, the Loess Plateau region experienced significant vegetation restoration, with 5.26×106 ha of vegetation restored between 1999 and 2020. The vegetation coverage gradually increased, and the ecological environment improved. These data results provide a scientific basis for the protection and management of the ecological environment in the Loess Plateau and offer data support for the implementation of the regional GGP.
description: The implementation of major ecological projects can lead to widespread land use changes, thereby affecting regional ecosystem services. To investigate the spatiotemporal patterns and trend changes of ecological restoration under the background of the Grain for Green Project (GGP) in the Loess Plateau from 1999 to 2020, this study constructed datasets at the county level based on China's administrative divisions. Specifically, annual land use data were extracted and processed using ArcGIS software, resulting in annual data on GGP areas (including seven types of land use conversion) for each county in the Loess Plateau from 1999 to 2020. This revealed the impact of the GGP on land use patterns. Through data quality control and evaluation, the reliability and scientific validity of the research results were ensured. The data indicated that under the implementation of the GGP, the Loess Plateau region experienced significant vegetation restoration, with 5.26×106 ha of vegetation restored between 1999 and 2020. The vegetation coverage gradually increased, and the ecological environment improved. These data results provide a scientific basis for the protection and management of the ecological environment in the Loess Plateau and offer data support for the implementation of the regional GGP.
DOI: 10.15468/dl.689qds
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Schizolpidium",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040807-251025141854904/datasets/export for details.
DOI: 10.15468/dl.9dqhb6
title: Occurrence Download

description: A dataset containing 36934 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hippoglossus stenolepis",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 36934 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040806-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uz6f3s
title: Occurrence Download

description: A dataset containing 410579 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-105.2688 21.44913, -105.1188 21.44913, -105.1188 21.59913, -105.2688 21.59913, -105.2688 21.44913))"
 ]
}

 The dataset includes 410579 records from 238 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040766-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17632368
title: Maize root metagenome project part1
DOI: 10.5281/zenodo.17632369
title: Maize root metagenome project part1
DOI: 10.15468/dl.qq2rhv
title: Occurrence Download

description: A dataset containing 15936 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erysimum capitatum",
 "HasCoordinate is true"
 ]
}

 The dataset includes 15936 records from 179 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040809-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v6j83z
title: Occurrence Download

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

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040810-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/13773277
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.15468/dl.6565vz
title: Occurrence Download

description: A dataset containing 180597 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen, Occurrence evidence)",
 "Country is New Caledonia",
 "DatasetKey is one of (The vascular plants collection (P) at the Herbarium of the Muséum national d'Histoire Naturelle (MNHN - Paris), Herbier de Nouvelle-Calédonie, Pl@ntNet automatically identified occurrences, iNaturalist Research-grade Observations, Herbarium specimens of Université de Montpellier 2, Institut de Botanique (MPU)), United Herbaria of the University and ETH Zurich)",
 "OccurrenceStatus is Present",
 "TaxonKey is Magnoliopsida"
 ]
}

 The dataset includes 180597 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040795-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nebr2v
title: Occurrence Download

description: A dataset containing 924 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erythrina velutina",
 "HasCoordinate is true"
 ]
}

 The dataset includes 924 records from 111 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040813-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t6eq5j
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-108.2688 21.59913, -108.1188 21.59913, -108.1188 21.74913, -108.2688 21.74913, -108.2688 21.59913))"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040812-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25919/63x9-6x10
title: NBDL-HSJ5FXXHN841PQ
DOI: 10.5281/zenodo.17630773
title: Data for: Groundwater recharge as a basis for the assessment of ecosystem services on common land: the case of the Primorska region in Slovenia

description: This dataset accompanies the article Groundwater recharge as a basis for the assessment of ecosystem services on common land: the case of the Primorska region in Slovenia, published in Acta geographica Slovenica (2025, vol. 65, no. 3).

It includes:• GIS outputs of the mGROWA water-balance model (groundwater recharge, 1972–2023, run r158);• shapefile polygons of Common Lands and regional classification (Primorska, Alpska);• overlays with water-protection areas and CLC 2006 land cover;• zonal and weighted statistics for ecosystem-service evaluation;• R script for automated spatial statistics.

Water-protection areas are excluded because they are publicly available from the Slovenian Environment Agency.

Suggested citation:Frantar, P., Herrmann, F., Bogataj, N., & Kozorog, E. (2025). Data for: Groundwater recharge as a basis for the assessment of ecosystem services on common land: the case of the Primorska region in Slovenia [Data set]. Zenodo. https://doi.org/10.5281/zenodo.17630773
DOI: 10.5281/zenodo.17630772
title: Data for: Groundwater recharge as a basis for the assessment of ecosystem services on common land: the case of the Primorska region in Slovenia

description: This dataset accompanies the article Groundwater recharge as a basis for the assessment of ecosystem services on common land: the case of the Primorska region in Slovenia, published in Acta geographica Slovenica (2025, vol. 65, no. 3).

It includes:• GIS outputs of the mGROWA water-balance model (groundwater recharge, 1972–2023, run r158);• shapefile polygons of Common Lands and regional classification (Primorska, Alpska);• overlays with water-protection areas and CLC 2006 land cover;• zonal and weighted statistics for ecosystem-service evaluation;• R script for automated spatial statistics.

Water-protection areas are excluded because they are publicly available from the Slovenian Environment Agency.

Suggested citation:Frantar, P., Herrmann, F., Bogataj, N., & Kozorog, E. (2025). Data for: Groundwater recharge as a basis for the assessment of ecosystem services on common land: the case of the Primorska region in Slovenia [Data set]. Zenodo. https://doi.org/10.5281/zenodo.17630773
DOI: 10.15468/dl.xtcpka
title: Occurrence Download

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

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040814-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.axpcq7
title: Occurrence Download

description: A dataset containing 601714 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "MediaType is Audio",
 "TaxonKey is Aves"
 ]
}

 The dataset includes 601714 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040801-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.65ntqm
title: Occurrence Download

description: A dataset containing 934912 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Aedes"
 ]
}

 The dataset includes 934912 records from 576 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040778-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14223943
title: Barcode library sequencing from a plasmid amplicon - supplementary files

description: Sequencing of a 30N barcode plasmid library, which was used to produce lentiviral particles for in utero next-generation single-cell lineage tracing of ectoderm and mesoderm in mouse embryos. This information is used to flag barcodes that are over-represented in a library and could potentially confound clonal analysis. 

plasmid_lib_R1.fastq.gz is a raw sequencing file of the barcode region PCR amplicon. This file was processed in order to extract 30N barcodes from a specific location in the amplicon and generate a csv. file extracted_barcodes_plasmid.csv. This file also contains counts of how many times a specific barcode is found in the dataset. No correction was done for the barcode similarity (such as Hamming distance).

Scripts for barcode extraction are found at the associated github repository.



 

 
description: Library preparation for DNA sequencing of the amplified barcode region

We used a phased primer strategy for the sequencing library preparation to mitigate the issues with the low complexity of amplicon sequencing libraries on a selected Illumina platform. Phase primers were designed using a tool developed by NGI Sweden facility (see the tech note) to amplify the 30N barcode and its flanking regions (107 bp). The sequencing library was prepared in two rounds of PCR with Q5 Hot Start High-Fidelity 2X Master Mix (NEB, M0494S) to add sequencing adaptors and indexes (following in principle Ratz et al., 2022, Nat Neuroscience), which yielded the product in the range of 243 – 250 bp due to the phased primers. The sequencing library was spiked with 20% NextSeq™ PhiX Control (Illumina, cat. no. 15051973) and sequenced on Illumina NextSeq550 instrument using NextSeq500/550 Mid-Output v2.5 Kit (150 cycles) (cat. no. 20024904). Read 1 was set to 100 nt, read 2 to 50 nt. Only read 1 was considered for further analysis.Sequencing file processing

Quality control of raw sequencing files was performed using FastQC version 0.11.9. The following software packages were used to filter fastq reads and extract 30N barcodes (in the file "extracted_barcodes_plasmid.csv"): Cutadapt (version 4.0) with Python 3.9.5, seqTools (version 1.26.0) in R 4.1.1 and genBaRcode (version1.2.6) in R 4.3.0.
DOI: 10.5281/zenodo.14223944
title: Barcode library sequencing from a plasmid amplicon - supplementary files

description: Sequencing of a 30N barcode plasmid library, which was used to produce lentiviral particles for in utero next-generation single-cell lineage tracing of ectoderm and mesoderm in mouse embryos. This information is used to flag barcodes that are over-represented in a library and could potentially confound clonal analysis. 

plasmid_lib_R1.fastq.gz is a raw sequencing file of the barcode region PCR amplicon. This file was processed in order to extract 30N barcodes from a specific location in the amplicon and generate a csv. file extracted_barcodes_plasmid.csv. This file also contains counts of how many times a specific barcode is found in the dataset. No correction was done for the barcode similarity (such as Hamming distance).

Scripts for barcode extraction are found at the associated github repository.



 

 
description: Library preparation for DNA sequencing of the amplified barcode region

We used a phased primer strategy for the sequencing library preparation to mitigate the issues with the low complexity of amplicon sequencing libraries on a selected Illumina platform. Phase primers were designed using a tool developed by NGI Sweden facility (see the tech note) to amplify the 30N barcode and its flanking regions (107 bp). The sequencing library was prepared in two rounds of PCR with Q5 Hot Start High-Fidelity 2X Master Mix (NEB, M0494S) to add sequencing adaptors and indexes (following in principle Ratz et al., 2022, Nat Neuroscience), which yielded the product in the range of 243 – 250 bp due to the phased primers. The sequencing library was spiked with 20% NextSeq™ PhiX Control (Illumina, cat. no. 15051973) and sequenced on Illumina NextSeq550 instrument using NextSeq500/550 Mid-Output v2.5 Kit (150 cycles) (cat. no. 20024904). Read 1 was set to 100 nt, read 2 to 50 nt. Only read 1 was considered for further analysis.Sequencing file processing

Quality control of raw sequencing files was performed using FastQC version 0.11.9. The following software packages were used to filter fastq reads and extract 30N barcodes (in the file "extracted_barcodes_plasmid.csv"): Cutadapt (version 4.0) with Python 3.9.5, seqTools (version 1.26.0) in R 4.1.1 and genBaRcode (version1.2.6) in R 4.3.0.
DOI: 10.15468/dl.pxr28v
title: Occurrence Download

description: A dataset containing 59766717 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry MULTIPOLYGON(((83.50235 23.56362,88.50236 23.56362,93.50236 23.56362,93.50236 18.56362,98.50236 18.56362,103.50236 18.56362,103.50236 13.56362,103.50236 8.56362,103.50236 3.56362,103.50236 -1.43638,108.50236 -1.43638,113.50236 -1.43638,113.50236 3.56362,118.50236 3.56362,118.50236 8.56362,123.50236 8.56362,123.50236 13.56362,123.50236 18.56362,128.50236 18.56362,128.50236 23.56362,133.50236 23.56362,133.50236 28.56362,133.50236 33.56362,128.50236 33.56362,128.50236 38.56362,133.50236 38.56362,133.50236 43.56362,138.50236 43.56362,138.50236 48.56362,138.50236 53.56362,133.50236 53.56362,128.50236 53.56362,128.50236 58.56362,123.50236 58.56362,118.50236 58.56362,118.50236 53.56362,113.50236 53.56362,113.50236 48.56362,108.50236 48.56362,108.50236 43.56362,103.50236 43.56362,98.50236 43.56362,98.50236 48.56362,93.50236 48.56362,93.50236 53.56362,88.50236 53.56362,83.50235 53.56362,83.50235 48.56362,78.50235 48.56362,78.50235 43.56362,73.50235 43.56362,68.50235 43.56362,68.50235 38.56362,68.50235 33.56362,73.50235 33.56362,73.50235 28.56362,78.50235 28.56362,78.50235 23.56362,83.50235 23.56362)))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "LastInterpreted is less than or equal to 2025-05-20",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 59766717 records from 5975 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011191-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2r78ch
title: Occurrence Download

description: A dataset containing 51604 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is one of (NT, VU, EN, CR, EW, EX, LC, DD)",
 "OccurrenceStatus is Present",
 "TaxonKey is Sus scrofa",
 "Year 2001-2025"
 ]
}

 The dataset includes 51604 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041940-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.