cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.g7vemc
title: Occurrence Download

description: A dataset containing 162420 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Korea, Republic of",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "DatasetKey is iNaturalist Research-grade Observations",
 "Year is greater than or equal to 2014"
 ]
}

 The dataset includes 162420 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029539-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.345hrb
title: Occurrence Download

description: A dataset containing 111477943 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "DatasetKey is EOD – eBird Observation Dataset"
 ]
}

 The dataset includes 111477943 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029537-241126133413365/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/10165418
title: FIsheremen data
DOI: 10.21227/vb0b-8f86
title: Test data of Voltage-Controlled Phase Shifter

description: A comparator is used to compare two voltages and produce a digital output signal based on the comparison result. Filters, on the other hand, are designed to allow certain frequencies to pass while attenuating others. During testing, for comparators, parameters such as hysteresis and response time are measured. For filters, characteristics like cutoff frequency, roll-off rate, and attenuation in the stopband are evaluated. Thorough testing of these components helps ensure the overall performance and reliability of the electronic circuits they are incorporated into, enabling the circuits to function accurately and efficiently in various applications.
DOI: 10.15468/dl.dxhjkv
title: Occurrence Download

description: A dataset containing 76702 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Xiphias gladius Linnaeus, 1758",
 "Year is greater than or equal to 2000"
 ]
}

 The dataset includes 76702 records from 65 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029545-241126133413365/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.28004927
title: Supplementary Material for: Seraph-100 hemoperfusion for management of severe COVID-19: Assessment of serum and plasma analytes pre- and post-filtration

description: Introduction 
We report an Intervention/outcome study of 33 severe COVID-19 subjects who received Seraph100 Microbind Affinity Blood Filter (Seraph 100) hemoperfusion therapy (15 survivors, 18 non-survivors) under emergency authorization from the FDA. Our objective was to determine if Seraph 100 hemoperfusion reduces SARS-CoV-2 RNA titers and/or markers of inflammation and/or epi/endothelial damage.a


Methods 
Viral RNA and 78 protein analytes related to endothelial/epithelial damage and/or inflammation were quantified in systemic blood samples from 33 severe COVID-19 subjects collected upon ICU admission and then immediately before and after blood passed through the heparin-based Seraph 100 filter at two time points on the first day of hemoperfusion. Viral RNA titers were quantified using droplet-digital PCR. Protein analytes were quantified using multiplex/multi-analyte panels on MesoScale Discovery and ProteinSimple-Ella platforms. 

Results 
A total of 15/33 subjects had detectable viral RNA in baseline samples (shortly after ICU admission). These initial viremia levels were low, and they did not change uniformly post-perfusion. Five of 55 protein analytes that were up-regulated 1.4-120X at ICU admission relative to healthy controls showed significant decreases across the filter during the indicated time points on the first day of hemoperfusion: IP-10/CXCL10, fms-like tyrosine kinase (Flt-1), MIG/CXCL9, Hepatocyte Growth Factor (HGF) and receptor for advanced glycosylation end-products (RAGE). Paired t-tests identified 25 additional analytes that showed significant decreases (p&lt;0.05) only without Bonferroni correction.

Conclusion
Initial freely circulating SARS-CoV-2 RNA levels of ICU-admitted subjects were low or undetectable. The Seraph 100 filter did not significantly reduce viral RNA titers in their plasma. However, multiple circulating proteins with roles in inflammation, endothelial/epithelial damage and/or angiogenesis decreased significantly across the filter. Larger prospective trials will be required to determine if such transient reductions translate into improved patient outcomes. However, this study did not demonstrate a direct reduction of free SARS-CoV-2 viral RNA by the Seraph 100.
DOI: 10.6084/m9.figshare.28004927.v1
title: Supplementary Material for: Seraph-100 hemoperfusion for management of severe COVID-19: Assessment of serum and plasma analytes pre- and post-filtration

description: Introduction 
We report an Intervention/outcome study of 33 severe COVID-19 subjects who received Seraph100 Microbind Affinity Blood Filter (Seraph 100) hemoperfusion therapy (15 survivors, 18 non-survivors) under emergency authorization from the FDA. Our objective was to determine if Seraph 100 hemoperfusion reduces SARS-CoV-2 RNA titers and/or markers of inflammation and/or epi/endothelial damage.a


Methods 
Viral RNA and 78 protein analytes related to endothelial/epithelial damage and/or inflammation were quantified in systemic blood samples from 33 severe COVID-19 subjects collected upon ICU admission and then immediately before and after blood passed through the heparin-based Seraph 100 filter at two time points on the first day of hemoperfusion. Viral RNA titers were quantified using droplet-digital PCR. Protein analytes were quantified using multiplex/multi-analyte panels on MesoScale Discovery and ProteinSimple-Ella platforms. 

Results 
A total of 15/33 subjects had detectable viral RNA in baseline samples (shortly after ICU admission). These initial viremia levels were low, and they did not change uniformly post-perfusion. Five of 55 protein analytes that were up-regulated 1.4-120X at ICU admission relative to healthy controls showed significant decreases across the filter during the indicated time points on the first day of hemoperfusion: IP-10/CXCL10, fms-like tyrosine kinase (Flt-1), MIG/CXCL9, Hepatocyte Growth Factor (HGF) and receptor for advanced glycosylation end-products (RAGE). Paired t-tests identified 25 additional analytes that showed significant decreases (p&lt;0.05) only without Bonferroni correction.

Conclusion
Initial freely circulating SARS-CoV-2 RNA levels of ICU-admitted subjects were low or undetectable. The Seraph 100 filter did not significantly reduce viral RNA titers in their plasma. However, multiple circulating proteins with roles in inflammation, endothelial/epithelial damage and/or angiogenesis decreased significantly across the filter. Larger prospective trials will be required to determine if such transient reductions translate into improved patient outcomes. However, this study did not demonstrate a direct reduction of free SARS-CoV-2 viral RNA by the Seraph 100.
DOI: 10.15468/dl.uu95e6
title: Occurrence Download

description: A dataset containing 1405571 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "GadmGid is IND.4_1",
 "OccurrenceStatus is Present",
 "Year 2000-2024"
 ]
}

 The dataset includes 1405571 records from 74 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029546-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14110463
title: Solid-state NMR data for the publication "Bonding of Polyethylenimine in Covalent Organic Frameworks for CO2 Capture from Air"

description: This upload contains the solid-state NMR of COF-709 series obtained by using Bruker Avance IV NEO 400 MHz NMR instrument. The instrument used in this work was supported by the National Science Foundation under Grant No. 2018784. Per NSF requirements, the data will be publicly available at the time of publication. This dataset can be opened and processed by using MestreNova NMR or similar softwares.
DOI: 10.5281/zenodo.14110464
title: Solid-state NMR data for the publication "Bonding of Polyethylenimine in Covalent Organic Frameworks for CO2 Capture from Air"

description: This upload contains the solid-state NMR of COF-709 series obtained by using Bruker Avance IV NEO 400 MHz NMR instrument. The instrument used in this work was supported by the National Science Foundation under Grant No. 2018784. Per NSF requirements, the data will be publicly available at the time of publication. This dataset can be opened and processed by using MestreNova NMR software.
DOI: 10.5281/zenodo.14112789
title: Solid-state NMR data for the publication "Bonding of Polyethylenimine in Covalent Organic Frameworks for CO2 Capture from Air"

description: This upload contains the solid-state NMR of COF-709 series obtained by using Bruker Avance IV NEO 400 MHz NMR instrument. The instrument used in this work was supported by the National Science Foundation under Grant No. 2018784. Per NSF requirements, the data will be publicly available at the time of publication. This dataset can be opened and processed by using MestreNova NMR or similar softwares.
DOI: 10.15468/dl.3kdsd2
title: Occurrence Download

description: A dataset containing 1405571 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "GadmGid is IND.4_1",
 "OccurrenceStatus is Present",
 "Year 2000-2024"
 ]
}

 The dataset includes 1405571 records from 74 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029547-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fuedjt
title: Occurrence Download

description: A dataset containing 3326 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "DatasetKey is EOD – eBird Observation Dataset",
 "GadmGid is CHN.3.1.5_1",
 "TaxonKey is Aves"
 ]
}

 The dataset includes 3326 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029548-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14324485
title: Test 3

description: The following dataset includes data for the meta-analyses of our manuscript BRV-05-2024-0214 'Global consequences of dam-induced river fragmentation on diadromous migrants: a systematic review and meta-analysis'.
DOI: 10.5281/zenodo.14324486
title: Test 3

description: The following dataset includes data for the meta-analyses of our manuscript BRV-05-2024-0214 'Global consequences of dam-induced river fragmentation on diadromous migrants: a systematic review and meta-analysis'.
DOI: 10.15468/dl.pyhykm
title: Occurrence Download

description: A dataset containing 10605 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "DatasetKey is EOD – eBird Observation Dataset",
 "GadmGid is CHN.3.1_1",
 "TaxonKey is Aves"
 ]
}

 The dataset includes 10605 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029549-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14324005
title: Test 2

description: The following dataset includes data for the meta-analyses of our manuscript BRV-05-2024-0214 'Global consequences of dam-induced river fragmentation on diadromous migrants: a systematic review and meta-analysis'
DOI: 10.5281/zenodo.14324004
title: Test 2

description: The following dataset includes data for the meta-analyses of our manuscript BRV-05-2024-0214 'Global consequences of dam-induced river fragmentation on diadromous migrants: a systematic review and meta-analysis'
DOI: 10.5281/zenodo.14280101
title: Test 1

description: The following dataset includes data for the meta-analyses of our manuscript BRV-05-2024-0214 'Global consequences of dam-induced river fragmentation on diadromous migrants: a systematic review and meta-analysis'
DOI: 10.5281/zenodo.14280100
title: Test 1

description: The following dataset includes data for the meta-analyses of our manuscript BRV-05-2024-0214 'Global consequences of dam-induced river fragmentation on diadromous migrants: a systematic review and meta-analysis'
DOI: 10.15468/dl.mcrd8s
title: Occurrence Download

description: A dataset containing 20869 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Magallana gigas (Thunberg, 1793)",
 "Year 1974-2024"
 ]
}

 The dataset includes 20869 records from 247 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029550-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5veukn
title: Occurrence Download

description: A dataset containing 10605 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "DatasetKey is EOD – eBird Observation Dataset",
 "GadmGid is CHN.3_1",
 "TaxonKey is Aves"
 ]
}

 The dataset includes 10605 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029551-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14249162
title: Wheat breeding phenotyping and yield dataset

description: This is a wheat breeding phenotyping and yield dataset, including canopy height (CH, m), canopy volume (CV, m3), and leaf area index (LAI) collected in the field; vegetation index (VI) generated by multispectral data acquired by UAV remote sensing; trial site weather (Weather); and yield (Yield, kg). The data comes from field trials.

Data acquisition and processing are described in the relevant part of the manuscript.

This dataset will be continuously updated in the future to help breeders carry out their work efficiently and accelerate the breeding process of excellent varieties.
DOI: 10.5281/zenodo.14249163
title: Wheat breeding phenotyping and yield dataset

description: This is a wheat breeding phenotyping and yield dataset, including canopy height (CH, m), canopy volume (CV, m3), and leaf area index (LAI) collected in the field; vegetation index (VI) generated by multispectral data acquired by UAV remote sensing; trial site weather (Weather); and yield (Yield, kg). The data comes from field trials.

Data acquisition and processing are described in the relevant part of the manuscript.

This dataset will be continuously updated in the future to help breeders carry out their work efficiently and accelerate the breeding process of excellent varieties.
DOI: 10.5281/zenodo.14322630
title: Wheat breeding phenotyping and yield dataset

description: This is a wheat breeding phenotyping and yield dataset, including canopy height (CH, m), canopy volume (CV, m3), and leaf area index (LAI) collected in the field; vegetation index (VI) generated by multispectral data acquired by UAV remote sensing; trial site weather (Weather); and yield (Yield, kg). The data comes from field trials.

Data acquisition and processing are described in the relevant part of the manuscript.

This dataset will be continuously updated in the future to help breeders carry out their work efficiently and accelerate the breeding process of excellent varieties.
DOI: 10.5281/zenodo.14376799
title: Wheat breeding phenotyping and yield dataset

description: This is a wheat breeding phenotyping and yield dataset, including canopy height (CH, m), canopy volume (CV, m3), and leaf area index (LAI) collected in the field; vegetation index (VI) generated by multispectral data acquired by UAV remote sensing; trial site weather (Weather); and yield (Yield, kg). The data comes from field trials.

Data acquisition and processing are described in the relevant part of the manuscript.

This dataset will be continuously updated in the future to help breeders carry out their work efficiently and accelerate the breeding process of excellent varieties.
DOI: 10.5281/zenodo.10688618
title: Protein haplotype sequences obtained by ProHap from the 1000 Genomes Project data set

description: Database of protein sequences obtained using ProHap (https://github.com/ProGenNo/ProHap) on the data set of phased genotypes published by the 1000 Genomes Project, aligned with the GRCh38 genome build (https://www.internationalgenome.org/data-portal/data-collection/grch38). We used Ensembl v.110 for the mapping of coordinates between genes, exons, and transcripts.

This data set contains six compressed directories, five representing the superpopulations included in the 1000 Genomes Project (https://catalog.coriell.org/1/NHGRI/Collections/1000-Genomes-Project-Collection/1000-Genomes-Project), and one created using all the samples included in the 1000 Genomes data set:



AFR - African

AMR - American

EUR - European

SAS - South Asian

EAS - East Asian

ALL - all participants in the 1000 Genomes Project


Each of the directories contains the following files:



F1: The concatenated fasta file ready to be used with search engines, contains the following:



Protein haplotype sequences obtained by ProHap, using alleles with at least 1 % frequency within the selected population

Reference proteome as per Ensembl v. 110

Contaminant sequences from the cRAP project (https://www.thegpm.org/crap/)



F2: Additional information about the haplotype sequences, to be used for mapping identified peptides to the original haplotypes

F3: Translations of haplotype cDNA sequences, before merging with the reference proteome


For further description of the files, please refer to https://github.com/ProGenNo/ProHap/wiki/Output-files.

For the usage of these databases with search engines, and downstream anaylsis of identified peptides, please refer to the project's wiki page: https://github.com/ProGenNo/ProHap/wiki/Using-the-database-for-proteomic-searches.
DOI: 10.5281/zenodo.10149277
title: Protein haplotype sequences obtained by ProHap from the 1000 Genomes Project data set

description: Database of protein sequences obtained using ProHap (https://github.com/ProGenNo/ProHap) on the data set of phased genotypes published by the 1000 Genomes Project, aligned with the GRCh38 genome build (https://www.internationalgenome.org/data-portal/data-collection/grch38). We used Ensembl v.110 for the mapping of coordinates between genes, exons, and transcripts. The complete configuration file for each ProHap run is attached to this repository.

This data set contains six compressed directories, five representing the superpopulations included in the 1000 Genomes Project (https://catalog.coriell.org/1/NHGRI/Collections/1000-Genomes-Project-Collection/1000-Genomes-Project), and one created using all the samples included in the 1000 Genomes data set:



AFR - African

AMR - American

EUR - European

SAS - South Asian

EAS - East Asian

ALL - all participants in the 1000 Genomes Project


Each of the directories contains the following files:



F1: The concatenated fasta file ready to be used with search engines, contains the following:



Protein haplotype sequences obtained by ProHap, using alleles with at least 1 % frequency within the selected population

Reference proteome as per Ensembl v. 110

Contaminant sequences from the cRAP project (https://www.thegpm.org/crap/)

The file is provided in two formats - full and simplified. The simplified fasta contains only the artificial protein identifier and the matching gene name, and is optimised for compatibility with a wide range of tools. For annotation of peptides using the PeptideAnnotator, please provide the header (F1.2) in addition to the simplified fasta file. 



F2: Additional information about the haplotype sequences, to be used for mapping identified peptides to the original haplotypes

F3: Translations of haplotype cDNA sequences, before merging with the reference proteome


For further description of the files, please refer to https://github.com/ProGenNo/ProHap/wiki/Output-files.

For the usage of these databases with search engines, and downstream anaylsis of identified peptides, please refer to the project's wiki page: https://github.com/ProGenNo/ProHap/wiki/Using-the-database-for-proteomic-searches.

When using these databases in your publication, please cite: Vašíček, J., Kuznetsova, K.G., Skiadopoulou, D. et al. ProHap enables human proteomic database generation accounting for population diversity. Nat Methods (2024). https://doi.org/10.1038/s41592-024-02506-0
DOI: 10.5281/zenodo.10149278
title: Protein haplotype sequences obtained by ProHap from the 1000 Genomes Project data set

description: Database of protein sequences obtained using ProHap (https://github.com/ProGenNo/ProHap) on the data set of phased genotypes published by the 1000 Genomes Project, aligned with the GRCh38 genome build (https://www.internationalgenome.org/data-portal/data-collection/grch38). We used Ensembl v.110 for the mapping of coordinates between genes, exons, and transcripts.

This data set contains six compressed directories, five representing the superpopulations included in the 1000 Genomes Project (https://catalog.coriell.org/1/NHGRI/Collections/1000-Genomes-Project-Collection/1000-Genomes-Project), and one created using all the samples included in the 1000 Genomes data set:



AFR - African

AMR - American

EUR - European

SAS - South Asian

EAS - East Asian

ALL - all participants in the 1000 Genomes Project


Each of the directories contains the following files:



F1: The concatenated fasta file ready to be used with search engines, contains the following:



Protein haplotype sequences obtained by ProHap, using alleles with at least 1 % frequency within the selected population

Reference proteome as per Ensembl v. 110

Contaminant sequences from the cRAP project (https://www.thegpm.org/crap/)



F2: Additional information about the haplotype sequences, to be used for mapping identified peptides to the original haplotypes

F3: Translations of haplotype cDNA sequences, before merging with the reference proteome


For further description of the files, please refer to https://github.com/ProGenNo/ProHap/wiki/Output-files.

For the usage of these databases with search engines, and downstream anaylsis of identified peptides, please refer to the project's wiki page: https://github.com/ProGenNo/ProHap/wiki/Using-the-database-for-proteomic-searches.