cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.z3vvte
title: Occurrence Download

description: A dataset containing 913930 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sturnus unicolor"
 ]
}

 The dataset includes 913930 records from 234 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023620-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6xcync
title: Occurrence Download

description: A dataset containing 151 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lactuca serriola",
 "Country is Argentina",
 "HasCoordinate is true"
 ]
}

 The dataset includes 151 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023725-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15975359
title: MS-Dataset
DOI: 10.5281/zenodo.15975360
title: MS-Dataset
DOI: 10.15468/dl.hnckb5
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:ABZ3586"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023726-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ee4hbx
title: Occurrence Download

description: A dataset containing 656 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Machine Observation, Human Observation, Material sample, Material citation, Fossil, Specimen, Living Specimen, Occurrence evidence, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Spizocorys fringillaris"
 ]
}

 The dataset includes 656 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023727-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2bqgfz
title: CCDC 2166541: Experimental Crystal Structure Determination

description: Related Article: Felix Langenohl, Jonas Rösler, Sebastian Zühlke, Jan‐Lukas Kirchhoff, Carsten Strohmann|2023|Chem.-Eur.J.|29|e202202935|doi:10.1002/chem.202202935
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bqgh1
title: CCDC 2166543: Experimental Crystal Structure Determination

description: Related Article: Felix Langenohl, Jonas Rösler, Sebastian Zühlke, Jan‐Lukas Kirchhoff, Carsten Strohmann|2023|Chem.-Eur.J.|29|e202202935|doi:10.1002/chem.202202935
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.15468/dl.gbmvez
title: Occurrence Download

description: A dataset containing 130 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rattus rattus",
 "Country is Haiti",
 "HasCoordinate is true"
 ]
}

 The dataset includes 130 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023731-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g85gry
title: Occurrence Download

description: A dataset containing 8034 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Olearia phlogopappa"
 ]
}

 The dataset includes 8034 records from 76 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023728-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.375z8v
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rattus rattus",
 "Country is Guyana",
 "HasCoordinate is true"
 ]
}

 The dataset includes 29 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023730-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7yp7jb
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:AAB1560"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023734-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q5jwdj
title: Occurrence Download

description: A dataset containing 758 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Galium sterneri",
 "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 758 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023733-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15837362
title: A Case for Absolute Gene Expression Estimates in Microbiome Studies using Metatranscriptomics

description: This repository contains the metadata and processed data underlying the analyses and figures presented in the manuscript “A Case for Absolute Gene Expression Estimates in Microbiome Studies using Metatranscriptomics” by Perneel et al. The study discusses the advantages and limitations of relative expression measures, such as TPM (Transcripts Per Million), in microbial metatranscriptomics and demonstrates the ecological insights gained through absolute expression measures like TPL (Transcripts Per Liter) using a seasonal metatranscriptomic dataset generated from surface microeukaryotic plankton in the southern North Sea.  The code analysing this data can be found here.File Descriptions:



ERCC_Controls_Analysis.txt: Information on ERCC spike-in controls, including initial ERCC concentrations (concentration_Mix_1) used to calculate conversion factors from TPM to TPL.

sampling_RNA_Spike_LibPrep.csv: Sample processing metadata including RNA yield, ERCC spike-in volumes added, and library preparation information.

ERCC_tpm.csv: TPM values for ERCC spike-in transcripts only, used to derive per-sample conversion factors for TPM to TPL.

samples_env.csv: metadata for each sample, including environmental measurements.

samples.csv: metadata for each sample.

metatranscriptome.fasta: Metatranscriptome constructed by clustering samples' assemblies (rnaSPAdes) at 95% sequence identity using MMseqs2.

metatranscriptome.pep: Translated proteins from metatranscriptome using TransDecoder.

EukProt_included_data_sets.v03.2021_11_22.txt: Details of the reference data used for taxonomic annotation.

functional_annotation.emapper.annotations: Functional annotation output from EggNOG-mapper for all translated transcripts.

eukprot_DB.firsthit.60plus_alnscore.m8: Taxonomic annotation output for all translated transcripts based on best-hit alignments against the EukProt database, filtered for alingnment scores ≥ 60 % sequence identity.

tpm.csv: Transcripts per Million values for all assembled transcripts across samples, calculated using Kallisto.

transcripts_per_L.csv: Estimated Transcripts Per Liter (TPL) values for all assembled transcripts accross samples, calculated from TPM values using ERCC spike-in controls and sample metadata.

flowcam_data.csv: Cell count and density estimates derived from FlowCam imaging.
DOI: 10.5281/zenodo.15837363
title: A Case for Absolute Gene Expression Estimates in Microbiome Studies using Metatranscriptomics

description: This repository contains the metadata and processed data underlying the analyses and figures presented in the manuscript “A Case for Absolute Gene Expression Estimates in Microbiome Studies using Metatranscriptomics” by Perneel et al. The study discusses the advantages and limitations of relative expression measures, such as TPM (Transcripts Per Million), in microbial metatranscriptomics and demonstrates the ecological insights gained through absolute expression measures like TPL (Transcripts Per Liter) using a seasonal metatranscriptomic dataset generated from surface microeukaryotic plankton in the southern North Sea.  The code analysing this data can be found here.File Descriptions:



ERCC_Controls_Analysis.txt: Information on ERCC spike-in controls, including initial ERCC concentrations (concentration_Mix_1) used to calculate conversion factors from TPM to TPL.

sampling_RNA_Spike_LibPrep.csv: Sample processing metadata including RNA yield, ERCC spike-in volumes added, and library preparation information.

ERCC_tpm.csv: TPM values for ERCC spike-in transcripts only, used to derive per-sample conversion factors for TPM to TPL.

samples_env.csv: metadata for each sample, including environmental measurements.

samples.csv: metadata for each sample.

metatranscriptome.fasta: Metatranscriptome constructed by clustering samples' assemblies (rnaSPAdes) at 95% sequence identity using MMseqs2.

metatranscriptome.pep: Translated proteins from metatranscriptome using TransDecoder.

EukProt_included_data_sets.v03.2021_11_22.txt: Details of the reference data used for taxonomic annotation.

functional_annotation.emapper.annotations: Functional annotation output from EggNOG-mapper for all translated transcripts.

eukprot_DB.firsthit.60plus_alnscore.m8: Taxonomic annotation output for all translated transcripts based on best-hit alignments against the EukProt database, filtered for alingnment scores ≥ 60 % sequence identity.

tpm.csv: Transcripts per Million values for all assembled transcripts across samples, calculated using Kallisto.

transcripts_per_L.csv: Estimated Transcripts Per Liter (TPL) values for all assembled transcripts accross samples, calculated from TPM values using ERCC spike-in controls and sample metadata.

flowcam_data.csv: Cell count and density estimates derived from FlowCam imaging.
DOI: 10.15468/dl.rp8wum
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023735-250711103210423/datasets/export for details.
DOI: 10.15468/dl.b9bseq
title: Occurrence Download

description: A dataset containing 29245 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aves",
 "Geometry POLYGON ((-104.3228 19.64383, -104.368 19.70853, -104.441 19.72599, -104.4605 19.70237, -104.4276 19.6048, -104.4533 19.55344, -104.4369 19.51031, -104.403 19.49696, -104.3876 19.45485, -104.3578 19.4569, -104.3105 19.4415, -104.2961 19.44766, -104.2551 19.44355, -104.2304 19.4302, -104.216 19.45177, -104.1369 19.45896, -104.1113 19.48258, -104.1123 19.49285, -104.0815 19.51442, -104.0702 19.49901, -104.0188 19.50415, -103.9952 19.46923, -103.988 19.42096, -103.9592 19.38809, -103.9305 19.3429, -103.8719 19.35523, -103.8257 19.40452, -103.838 19.44355, -103.8339 19.48053, -103.8791 19.49491, -103.9048 19.54728, -103.9192 19.55755, -103.912 19.56474, -103.9592 19.60069, -104.0055 19.59145, -104.024 19.60583, -104.0394 19.64383, -104.0825 19.66848, -104.0866 19.68388, -104.0989 19.67772, -104.1113 19.69005, -104.138 19.69313, -104.1595 19.70442, -104.1842 19.67977, -104.2017 19.66231, -104.2653 19.6428, -104.253 19.69929, -104.3228 19.64383))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 }
 ]
}

 The dataset includes 29245 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023732-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wsr5bz
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 (Spizella pusilla)",
 "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/0023736-250711103210423/datasets/export for details.
DOI: 10.15468/dl.w6cyfk
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Ovis collium, Ovis ammon collium)",
 "Year 1995-2025"
 ]
}

 The dataset includes 7 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023737-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.st76wm
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023739-250711103210423/datasets/export for details.
DOI: 10.5524/102735
title: Supporting data for "A high-quality reference genome for the Ural Owl (<i>Strix uralensis</i>) enables investigations of cell cultures as a genomic resource for endangered species"

description: Reference genomes have a wide range of applications. Yet, we are from a complete genomic picture for the tree of life. We here contribute another piece to the puzzle by providing a high-quality reference genome for the Ural Owl (<i>Strix uralensis</i>), a species of conservation concern and efforts affected by habitat destruction and climate change.<br> We generated a reference genome assembly for the Ural Owl based on high-fidelity (HiFi) long reads and chromosome conformation capture (Hi-C) data. It figures amongst the best avian genome assemblies currently available (BUSCO completeness of 99.94 %). The primary assembly had a size of 1.38 Gb with a scaffold N50 of 90.1 Mb, while the alternative assembly had a size of 1.3 Gb and a scaffold N50 of 17.0 Mb. We show an exceptionally high repeat content (21.07 %) that is different from those of other bird taxa with repeat extensions. We confirm a Strix characteristic chromosomal fusion and support the observation that bird microchromosomes have a higher density of genes, associated with a reduction in gene length due to shorter introns. An analysis of gene content provides evidence of changes in the keratin gene repertoire as well as modifications of metabolism genes of owls. This opens an avenue of research if this is related to flight adaptations. The population size history of the Ural Owl decreased over long periods of time with increases during the Eemian interglacial and stable size during the last glacial period. Ever since it is declining to its currently lowest effective population size. We also investigated cell culture of progressive passages as a tool for genetic resources. Karyotyping of passages confirmed no large variants, while a SNP analysis revealed a low presence of short variants across cell passages.<br> The established reference genome is a valuable resource for ongoing conservation efforts, but also for (avian) comparative genomics research. Further research is needed to determine whether cell culture passages can be safely used in genomic research.
DOI: 10.15468/dl.fw542s
title: Occurrence Download

description: A dataset containing 778 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Olearia virgata"
 ]
}

 The dataset includes 778 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023738-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7tnphj
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Ovis karelini, Ovis ammon karelini)",
 "Year 1995-2025"
 ]
}

 The dataset includes 10 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023742-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rwvrvg
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023740-250711103210423/datasets/export for details.
DOI: 10.15468/dl.9ybbpw
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023741-250711103210423/datasets/export for details.
DOI: 10.6084/m9.figshare.29582114
title: Analisis Usability Terhadap Aplikasi Mozilla Firefox: Studi Kasus Pengguna Indonesia

description: Penelitian ini bertujuan untuk mengevaluasi tingkat usability dari aplikasi Mozilla Firefox berdasarkan persepsi pengguna di Indonesia dengan pendekatan <i>Partial Least Squares Structural Equation Modeling (PLS-SEM)</i>. Data dikumpulkan dari 60 responden aktif pengguna Firefox melalui kuesioner daring. Hasil analisis menunjukkan bahwa efisiensi, kepuasan, dan kemudahan mengingat (memorability) berpengaruh signifikan terhadap usability. Dataset dan hasil model analisis tersedia dalam dokumen ini sebagai bagian dari publikasi ilmiah.
DOI: 10.6084/m9.figshare.29582114.v1
title: Analisis Usability Terhadap Aplikasi Mozilla Firefox: Studi Kasus Pengguna Indonesia

description: Penelitian ini bertujuan untuk mengevaluasi tingkat usability dari aplikasi Mozilla Firefox berdasarkan persepsi pengguna di Indonesia dengan pendekatan <i>Partial Least Squares Structural Equation Modeling (PLS-SEM)</i>. Data dikumpulkan dari 60 responden aktif pengguna Firefox melalui kuesioner daring. Hasil analisis menunjukkan bahwa efisiensi, kepuasan, dan kemudahan mengingat (memorability) berpengaruh signifikan terhadap usability. Dataset dan hasil model analisis tersedia dalam dokumen ini sebagai bagian dari publikasi ilmiah.
DOI: 10.15468/dl.fdndf7
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Noturus elassochir"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023743-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bud99w
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Ovis polii, Ovis ammon polii)",
 "Year 1995-2025"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023747-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zd3epd
title: Occurrence Download

description: A dataset containing 1 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 (Spinus tristis)",
 "Country is one of (Afghanistan, Armenia, Azerbaijan, Bahrain, Bangladesh, Bhutan, Brunei Darussalam, Cambodia, China, Cyprus, Georgia, Hong Kong, India, Indonesia, Iran (Islamic Republic of), Iraq, Israel, Japan, Jordan, Kazakhstan, Korea (Democratic People’s Republic of), Korea, Republic of, Kuwait, Kyrgyzstan, Lao People’s Democratic Republic, Lebanon, Macao, Malaysia, Maldives, Mongolia, Myanmar, Nepal, Oman, Pakistan, Palestine, State of, Philippines, Qatar, Saudi Arabia, Singapore, Sri Lanka, Syrian Arab Republic, Tajikistan, Thailand, Timor-Leste, Türkiye, Turkmenistan, United Arab Emirates, Uzbekistan, Viet Nam, Yemen)"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023745-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.