cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.2u8x9h
title: Occurrence Download

description: A dataset containing 488556 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is 2019_LPO PACA_5"
 ]
}

 The dataset includes 488556 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019272-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ewpz6v
title: Occurrence Download

description: A dataset containing 496324 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Swiss National Apoidea Databank"
 ]
}

 The dataset includes 496324 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019273-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/fb993f
title: Elevation of Divergent Color Polymorphic and Monomorphic Lizard Lineages (Squamata: Agamidae) to Species Level

description: This dataset contains the digitized treatments in Plazi based on the original journal article Dong, Caroline M., Johnston, Greg R., Stuart-Fox, Devi, Moussalli, Adnan, Rankin, Katrina J., McLean, Claire A. (2021): Elevation of Divergent Color Polymorphic and Monomorphic Lizard Lineages (Squamata: Agamidae) to Species Level. Ichthyology & Herpetology 109 (1): 43-54, DOI: 10.1643/h2020064, URL: http://dx.doi.org/10.1643/h2020064
DOI: 10.6084/m9.figshare.26655013.v1
title: Additional file 3 of A novel patient-derived meningioma spheroid model as a tool to study and treat epithelial-to-mesenchymal transition (EMT) in meningiomas

description: Additional file 3. List of significantly deregulated genes (DEG) between 3D and 2D, 3D and Tissue and 2D and Tissue.
DOI: 10.15468/dl.s9ndyu
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((143.377091 -36.73282, 143.377091 -36.739558, 143.381582 -36.739558, 143.381582 -36.73282, 143.377091 -36.73282))"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066076-240626123714530/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.26655046
title: Additional file 3 of Vaccine acceptance, determinants, and attitudes toward vaccine among people experiencing homelessness: a systematic review and meta-analysis

description: Additional file 3: Table S3.
DOI: 10.6084/m9.figshare.26655046.v1
title: Additional file 3 of Vaccine acceptance, determinants, and attitudes toward vaccine among people experiencing homelessness: a systematic review and meta-analysis

description: Additional file 3: Table S3.
DOI: 10.6084/m9.figshare.26655049
title: Additional file 4 of Vaccine acceptance, determinants, and attitudes toward vaccine among people experiencing homelessness: a systematic review and meta-analysis

description: Additional file 4: Table S4.
DOI: 10.6084/m9.figshare.26655049.v1
title: Additional file 4 of Vaccine acceptance, determinants, and attitudes toward vaccine among people experiencing homelessness: a systematic review and meta-analysis

description: Additional file 4: Table S4.
DOI: 10.6084/m9.figshare.26655082
title: Additional file 2 of FRIZZLE PANICLE (FZP) regulates rice spikelets development through modulating cytokinin metabolism

description: Additional file 2.
DOI: 10.6084/m9.figshare.26655082.v1
title: Additional file 2 of FRIZZLE PANICLE (FZP) regulates rice spikelets development through modulating cytokinin metabolism

description: Additional file 2.
DOI: 10.5517/ccdc.csd.cc2jfxyv
title: CCDC 2337088: Experimental Crystal Structure Determination

description: Related Article: Xinxin Liu, Linyushan Ma, Lijing Zhou, Biao Guo, Zhen Zhao|2024|J.Mater.Chem.C|12|11540|doi:10.1039/D4TC01366B
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.cc2jj7jv
title: CCDC 2339307: Experimental Crystal Structure Determination

description: Related Article: Qiao Jiang, Hiroaki Suzuki, Yuki Wada, Xiaohan Wang, Yoichi Murakami, Takaya Matsumoto, Pavel M. Usov, Masaki Kawano|2024|Chem.Commun.|60|8236|doi:10.1039/D4CC01951B
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.cc2jj7kw
title: CCDC 2339308: Experimental Crystal Structure Determination

description: Related Article: Qiao Jiang, Hiroaki Suzuki, Yuki Wada, Xiaohan Wang, Yoichi Murakami, Takaya Matsumoto, Pavel M. Usov, Masaki Kawano|2024|Chem.Commun.|60|8236|doi:10.1039/D4CC01951B
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.cc2jpfh5
title: CCDC 2344297: Experimental Crystal Structure Determination

description: Related Article: Yi Liu, Dan-Dan Huang, Zhi-Zhuan Zhang, Hao-Wei Lin, Ke-Zhao Du, Ze-Ping Wang, Xiao-Ying Huang|2024|J.Mater.Chem.C|12|11426|doi:10.1039/D4TC01344A
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.2bnc8j
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((149.48791 -32.362496, 149.48791 -32.366987, 149.492401 -32.366987, 149.492401 -32.37597, 149.494647 -32.37597, 149.494647 -32.373725, 149.496893 -32.373725, 149.496893 -32.366987, 149.494647 -32.366987, 149.494647 -32.362496, 149.48791 -32.362496))"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066079-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7zhz2g
title: Occurrence Download

description: A dataset containing 1122068 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Benin"
 ]
}

 The dataset includes 1122068 records from 536 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066050-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vhafdg
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((143.293996 -36.737312, 143.293996 -36.739558, 143.298488 -36.739558, 143.298488 -36.737312, 143.293996 -36.737312))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066080-240626123714530/datasets/export for details.
DOI: 10.6084/m9.figshare.26655179
title: Supp data. Glacially influenced provenance and Sturtian affinity revealed by detrital zircon U–Pb ages from sandstones in the Port Askaig Formation, Dalradian Supergroup

description: Supplementary data.
DOI: 10.6084/m9.figshare.26655179.v1
title: Supp data. Glacially influenced provenance and Sturtian affinity revealed by detrital zircon U–Pb ages from sandstones in the Port Askaig Formation, Dalradian Supergroup

description: Supplementary data.
DOI: 10.5281/zenodo.13286184
title: Dataset for "Temperature dependence of Young's modulus, damping and dilatation during repeated thermal cycling of silica refractories for high-temperature thermal energy storage (TES) "
DOI: 10.5281/zenodo.13286183
title: Dataset for "Temperature dependence of Young's modulus, damping and dilatation during repeated thermal cycling of silica refractories for high-temperature thermal energy storage (TES) "
DOI: 10.6084/m9.figshare.26592641
title: Additional file 1 of Vitamin D receptor (VDR) on the cell membrane of mouse macrophages participates in the formation of lipopolysaccharide tolerance: mVDR is related to the effect of artesunate to reverse LPS tolerance

description: Additional file 1.
DOI: 10.6084/m9.figshare.26592641.v1
title: Additional file 1 of Vitamin D receptor (VDR) on the cell membrane of mouse macrophages participates in the formation of lipopolysaccharide tolerance: mVDR is related to the effect of artesunate to reverse LPS tolerance

description: Additional file 1.
DOI: 10.6084/m9.figshare.26655214
title: Additional file 1 of Mean platelet volume and total white blood cells as diagnostic biomarkers for acute appendicitis at Omdurman military hospital: a cross-sectional study − 2021

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26655214.v1
title: Additional file 1 of Mean platelet volume and total white blood cells as diagnostic biomarkers for acute appendicitis at Omdurman military hospital: a cross-sectional study − 2021

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26592671.v1
title: Additional file 3 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 3: Supplementary Table S1. Primer sequences.
DOI: 10.6084/m9.figshare.26592674.v1
title: Additional file 4 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 4: Supplementary Table S2. Comparison of the expression of the three IGF2BPs.
DOI: 10.6084/m9.figshare.26592680
title: Additional file 6 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 6: Supplementary Table S4. gProfiler_metastaseTargets
DOI: 10.6084/m9.figshare.26592680.v1
title: Additional file 6 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 6: Supplementary Table S4. gProfiler_metastaseTargets
DOI: 10.6084/m9.figshare.26592683
title: Additional file 7 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 7: Supplementary Table S5. gProfiler_IntersectionBoth
DOI: 10.6084/m9.figshare.26592683.v1
title: Additional file 7 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 7: Supplementary Table S5. gProfiler_IntersectionBoth
DOI: 10.6084/m9.figshare.26592674
title: Additional file 4 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 4: Supplementary Table S2. Comparison of the expression of the three IGF2BPs.
DOI: 10.6084/m9.figshare.26592677
title: Additional file 5 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 5: Supplementary Table S3. gProfiler_hsapiensprimaryTargets
DOI: 10.6084/m9.figshare.26592677.v1
title: Additional file 5 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 5: Supplementary Table S3. gProfiler_hsapiensprimaryTargets
DOI: 10.6084/m9.figshare.26592671
title: Additional file 3 of A combined computational and functional approach identifies IGF2BP2 as a driver of chemoresistance in a wide array of pre-clinical models of colorectal cancer

description: Additional file 3: Supplementary Table S1. Primer sequences.
DOI: 10.6084/m9.figshare.26566043.v1
title: Additional file 2 of Bisphenol A and bisphenol S both disrupt ovine granulosa cell steroidogenesis but through different molecular pathways

description: Additional file 2: Supplementary Table 1. Comparisons of the effect on progesterone (A) and oestradiol (B) secretion between conditions, including the p-values for all the multiple comparisons of the post-hoc test that followed the ANOVA. * indicates a significant difference and # indicates a tendency. Supplementary Table 2. Total number of reads for each sample. Six biological replicates of ovine granulosa cells were sequences per experimental conditions (Control, 50 µM BPA, 50 µM BPS, 10 µM G1), after 1h of treatment. This analysis generated an average of 23.7 ± 0.5 million reads per sample, and 73.7 ± 0.2 % of the reads were uniquely aligned with the sheep reference genome (Oar_rambouillet_v1.0, chromosomes). Supplementary Table 3. Differentially expressed genes (adjusted p-value ≤ 0.05) between the four comparisons: control versus bisphenol A (BPA), control versus bisphenol S (BPS), BPA versus BPS and G1 versus control. Six biological replicates of ovine granulosa cells were sequenced per experimental conditions (Control, 50 µM BPA, 50 µM BPS, 10 µM G1), after 1h of treatment. Supplementary Table 4. Hierarchical list of differentially expressed genes in the heatmap presented in Figure 2B. Supplementary Table 5. Functional analysis of ovine granulosa cells differentially expressed genes. Functional clusters using hierarchical clustering based on Wang’s semantic similarity between GO terms respecting GO and Ward’s criterion were performed using the ViSEAGO package. Supplementary Table 6. The main biological processes of differentially expressed genes (DEG) after treatment with bisphenol A (BPA) or bisphenol S (BPS). After 1 hour of treatment, in the presence or absence (control) of BPA or BPS at 50 μM, GC (6 replicates / condition) were an RNA-seq analysis made it possible to obtain a list of differential expression genes. Biological processes from gene ontology (GO; p ≤ 0.01) terms was obtained using ViSEAGO. The table shows the 20 GO, corresponding to biological functions, the most disturbed by BPA or BPS. The logarithmic threshold p-value was set at 2, corresponding to a p-value of 0.01. Supplementary Table 7. A Comparison of gene expression at a given culture time between treatments. Gene expression is presented as mean ± SEM and normalized to the control at 12 h (different letters indicate a significant difference between treatments).
DOI: 10.15468/dl.ha8bnj
title: Occurrence Download

description: A dataset containing 96793 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Issue is one of (The taxon ID was not used in backbone matching, The scientific name differs on the record from that found in the checklist, The backbone match found using the taxon IDs differs from what would be found if using the scientific names , Individual count invalid, Individual count conflicts with occurrence status, Country mismatch)",
 "OccurrenceStatus is Present",
 "TaxonKey is Chaetodon Linnaeus, 1758"
 ]
}

 The dataset includes 96793 records from 93 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066077-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.m3srza
title: Occurrence Download

description: A dataset containing 438 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Hong Kong, Macao, Chinese Taipei)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Rosa transmorrisonensis Hayata"
 ]
}

 The dataset includes 438 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0232297-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q6te8c
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tiracola aureata Holloway, 1989",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0217300-220831081235567/datasets/export for details.
DOI: 10.15468/dl.w84jjf
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Coleosoma floridanum Banks, 1900",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0225472-220831081235567/datasets/export for details.
DOI: 10.5281/zenodo.11065281
title: ArXiv OAI-PMH arXivRaw publication metadata

description: This dataset contains OAI-PMH metadata for all ArXiv publications up until 2024-04-23 in the arXivRaw XML format.

The metadata has been harvested using the metha Go package v0.3.3 [1] on go1.18. Specifically, harvesting was run on a small HPC cluster using the following SLURM script. The script had to be scheduled twice due to the connection being reset by the peer (see combined-slurm.out). metha caters for these situations and is able to pick up where it left off with cumulative harvesting.

#!/bin/bash
#SBATCH --job-name=metha
#SBATCH --nodes=1
#SBATCH --cpus-per-task=1
#SBATCH --ntasks=1
#SBATCH --time=10-20:00:00

module purge

echo "Installing Go module."
module add go/go-1.18/go-1.18-gcc-9.4.0-okbjyoy
echo "Installed Go module: $(go version)."

echo "Installing metha."
go install -v github.com/miku/metha/cmd/...@latest
echo "Installed metha: $(<retracted>/go/bin/metha-sync -v)"

echo "Harvesting ArXiv OAI-PMH metadata in format 'arXivRaw' from http://export.arxiv.org/oai2."
<retracted>/go/bin/metha-sync -T 5m -base-dir /scratch/<retracted>/arxiv -format "arXivRaw" http://export.arxiv.org/oai2
# For the second run, '-from' was specified to pick up the harvest where it was left off.
# <retracted>/go/bin/metha-sync -from 2020-09-29 -T 5m -base-dir /scratch/<retracted>/arxiv -format "arXivRaw" http://export.arxiv.org/oai2
echo "Done."
exit 0

Dataset contents

This deposit of the dataset contains the following files:



metha-output-OAI-PMH-arXivRaw-until-2024-03-24.tar.gz: an archive file containing the archive files (gzipped, *.xml.gz) produced by metha, which in turn contain the XML metadata files. The gzipped files contained in the archive are named following the pattern YYYY-MM-DD-<8-digit zero-padded 0-index file count>.xml.gz, e.g., 2024-03-24-00000001.xml.gz.

README.md: This file, containing basic information about the dataset and deposit.

combined-slurm.out: The combined SLURM log for the two consecutive SLURM runs that have produced the dataset. Run-specific information has been retracted.


Reproducibility

As the OAI-PMH metadata is not static but may change at any time, this dataset isn't fully reproducible. However, running the same metha version on the same go version with the same commands should yield very similar results, but will contain newer metadata.

Licenses



All ArXiv OAI-PMH metadata is licensed under CC0-1.0.

combined-slurm.out is licensed under CC0-1.0.

README.md is licensed under CC0-1.0.


Licenses are documented in a machine-readble manner following the REUSE 3.0 Specification. License deeds are included in this deposit as .txt files named using the respective SPDX license identifiers.

[1] Martin Czygan, Thomas Gersch, ACz-UniBi, Justin Kelly, Gunnar Þór Magnússon, dvglc, & Natanael Arndt. (2024). miku/metha: v0.3.3 (v0.3.3). Zenodo. doi:10.5281/zenodo.10940212.
DOI: 10.5281/zenodo.11065282
title: ArXiv OAI-PMH arXivRaw publication metadata

description: This dataset contains OAI-PMH metadata for all ArXiv publications up until 2024-04-23 in the arXivRaw XML format.

The metadata has been harvested using the metha Go package v0.3.3 [1] on go1.18. Specifically, harvesting was run on a small HPC cluster using the following SLURM script. The script had to be scheduled twice due to the connection being reset by the peer (see combined-slurm.out). metha caters for these situations and is able to pick up where it left off with cumulative harvesting.

#!/bin/bash
#SBATCH --job-name=metha
#SBATCH --nodes=1
#SBATCH --cpus-per-task=1
#SBATCH --ntasks=1
#SBATCH --time=10-20:00:00

module purge

echo "Installing Go module."
module add go/go-1.18/go-1.18-gcc-9.4.0-okbjyoy
echo "Installed Go module: $(go version)."

echo "Installing metha."
go install -v github.com/miku/metha/cmd/...@latest
echo "Installed metha: $(<retracted>/go/bin/metha-sync -v)"

echo "Harvesting ArXiv OAI-PMH metadata in format 'arXivRaw' from http://export.arxiv.org/oai2."
<retracted>/go/bin/metha-sync -T 5m -base-dir /scratch/<retracted>/arxiv -format "arXivRaw" http://export.arxiv.org/oai2
# For the second run, '-from' was specified to pick up the harvest where it was left off.
# <retracted>/go/bin/metha-sync -from 2020-09-29 -T 5m -base-dir /scratch/<retracted>/arxiv -format "arXivRaw" http://export.arxiv.org/oai2
echo "Done."
exit 0

Dataset contents

This deposit of the dataset contains the following files:



metha-output-OAI-PMH-arXivRaw-until-2024-03-24.tar.gz: an archive file containing the archive files (gzipped, *.xml.gz) produced by metha, which in turn contain the XML metadata files. The gzipped files contained in the archive are named following the pattern YYYY-MM-DD-<8-digit zero-padded 0-index file count>.xml.gz, e.g., 2024-03-24-00000001.xml.gz.

README.md: This file, containing basic information about the dataset and deposit.

combined-slurm.out: The combined SLURM log for the two consecutive SLURM runs that have produced the dataset. Run-specific information has been retracted.


Reproducibility

As the OAI-PMH metadata is not static but may change at any time, this dataset isn't fully reproducible. However, running the same metha version on the same go version with the same commands should yield very similar results, but will contain newer metadata.

Licenses



All ArXiv OAI-PMH metadata is licensed under CC0-1.0.

combined-slurm.out is licensed under CC0-1.0.

README.md is licensed under CC0-1.0.


Licenses are documented in a machine-readble manner following the REUSE 3.0 Specification. License deeds are included in this deposit as .txt files named using the respective SPDX license identifiers.

[1] Martin Czygan, Thomas Gersch, ACz-UniBi, Justin Kelly, Gunnar Þór Magnússon, dvglc, & Natanael Arndt. (2024). miku/metha: v0.3.3 (v0.3.3). Zenodo. doi:10.5281/zenodo.10940212.