cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.sdw44u
title: Occurrence Download

description: A dataset containing 75 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vexillum moelleri (Küster, 1840)"
 ]
}

 The dataset includes 75 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0103423-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q4w3en
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Blennodia curvipes (F.Muell.) F.Muell."
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050505-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hk79w3
title: Occurrence Download

description: A dataset containing 1386 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhinoclavis vertagus (Linnaeus, 1767)"
 ]
}

 The dataset includes 1386 records from 96 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0097602-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g97kc8
title: Occurrence Download

description: A dataset containing 184 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Liolaemus archeforus Donoso-Barros & Cei, 1971"
 ]
}

 The dataset includes 184 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036817-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y7cqxn
title: Occurrence Download

description: A dataset containing 4352 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Biscutella didyma L."
 ]
}

 The dataset includes 4352 records from 123 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050506-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hba8jr
title: Occurrence Download

description: A dataset containing 18053 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen, Occurrence evidence)",
 "GadmGid is one of (USA.2_1, USA.3_1, USA.5_1, USA.6_1, USA.13_1, BGR.10_1, USA.29_1, USA.32_1, USA.38_1, USA.48_1, USA.45_1, USA.51_1)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Fallopia convolvulus (L.) Á.Löve, Fatoua villosa (Thunb.) Nakai, Ficaria verna Huds., Foeniculum vulgare Mill., Fumaria muralis Koch, Galega officinalis L., Galeopsis tetrahit L., Galinsoga parviflora Cav., Geranium lucidum L., Geranium robertianum L., Gomphocarpus physocarpus E.Mey., Gymnocoronis spilanthoides DC., Gypsophila paniculata L.)"
 ]
}

 The dataset includes 18053 records from 72 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036854-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bgj9hf
title: Occurrence Download

description: A dataset containing 176 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepidium persicum Boiss."
 ]
}

 The dataset includes 176 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0151290-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.umhay4
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ricotia aucheri (Boiss.) B.L.Burtt"
 ]
}

 The dataset includes 79 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050490-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6dnk39
title: Occurrence Download

description: A dataset containing 1146 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Halichoeres notospilus (Günther, 1864)"
 ]
}

 The dataset includes 1146 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0036823-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ju2ysx
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Physaria mcvaughiana (Rollins) O'Kane & Al-Shehbaz"
 ]
}

 The dataset includes 79 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0151327-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aut4b4
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Descurainia peyrousiana Des Moul."
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050527-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5gwqza
title: Occurrence Download

description: A dataset containing 105937 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Rhizophoraceae)"
 ]
}

 The dataset includes 105937 records from 645 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0161383-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57760/sciencedb.30263
title: Measurement of neutron total cross section of 169Tm in the energy range of 1-110 keV
title: Measurement of neutron total cross section of 169Tm in the energy range of 1-110 keV

description: To clarify the discrepancies of the σt of 169Tm in the keV energy region, the measurement was performed at the back streaming white neutron beam line of the China Spallation Neutron Source using the transmission method and the time-of-flight technique. The experimental background was quantitatively determined using a 7Li-glass scintillator with the saturated resonance absorption technique. And the experimental transmission in the unresolved resonance region was corrected for self-shielding effect using the SESH code. As a result, the σt of 169Tm in the 1-110 keV energy range was obtained.
description: To clarify the discrepancies of the σt of 169Tm in the keV energy region, the measurement was performed at the back streaming white neutron beam line of the China Spallation Neutron Source using the transmission method and the time-of-flight technique. The experimental background was quantitatively determined using a 7Li-glass scintillator with the saturated resonance absorption technique. And the experimental transmission in the unresolved resonance region was corrected for self-shielding effect using the SESH code. As a result, the σt of 169Tm in the 1-110 keV energy range was obtained.
DOI: 10.57760/sciencedb.30711
title: Global elevation-dependent warming maps
title: Global elevation-dependent warming maps

description: This study presents global elevation-dependent warming maps based on long-term time series temperature data. By analyzing temperature variations across different elevations worldwide, the research reveals spatial patterns and trends of elevation-gradient warming.
description: This study presents global elevation-dependent warming maps based on long-term time series temperature data. By analyzing temperature variations across different elevations worldwide, the research reveals spatial patterns and trends of elevation-gradient warming.
DOI: 10.5281/zenodo.17437479
title: Supplemental Material for "Discrete time quantum walk of locally interacting walkers"

description: This upload contains all numerical data presented in the article "Discrete time quantum walk of locally interacting walkers".

CONTENT:

1) Fig.xx.txt - data files from which the figures in the manuscript were generated

2) _plots.gnu - GNUPlot script presenting how data in particular files are organized

With the shell command: gnuplot _plots.gnu technical versions of all the plots can be generated
description: This research was supported by the National Science Centre (NCN, Poland) within the OPUS project No. 2023/49/B/ST2/03744 (TS). VM acknowledges a financial support by the MOST Young Scholar Fellowship (Grants No. 112-2636-M-007-008- No. 113-2636-M-007-002- and No. 114-2636-M-007 -001 -), National Center for Theoretical Sciences (Grants No. 113-2124-M-002-003-) from the Ministry of Science and Technology (MOST), Taiwan, and the Yushan Young Scholar Program (as Administrative Support Grant Fellow) from the Ministry of Education, Taiwan.
DOI: 10.5281/zenodo.14044879
title: Ectopic expression of BEX genes in T-cell Acute Lymphoblastic Leukemia : Bioinformatics resources and Docker environments

description: This repository provides Docker containers designed to reproduce the analyses presented in Quessada, Nozais et al. (2025), along with selected intermediate files. Detailed instructions for reproducing the analysis are available on github (https://github.com/mathisnozais/BEX) and raw data and other intermediate files are available in GEO/SRA (GSE303127 / SRP602355 for the RNAseq and GSE303130 / SRP602362 for the CUT&Tag).

This Zenodo hosts the following resources :





Docker images used for the analysis (rna431-2.tar and Seurat440paper.tar)




Confocal microscopy raw images from PLA experiments (Confocal_images.tar.gz)




The thymic single-cell RNA-seq dataset from Park et al. (Science 2019; DOI: 10.1126/science.aay3224), converted from ScanPy to Seurat (Park_dataset.robj)




Preprocessed single-cell RNA-seq data (ThymusWT_clean_cc-regressed_noADT.Robj and BC_BEX_mice.Robj)




TARGET and TCGA transcriptomic data objects and processed matrices (files named XXX_TARGET_XXX)


TO COMPLETE (files named SANDA_GR_X.txt)

GSE29180.bed & GSE25000.bed 

Related to jurkat RNAseq analysis :JKT_CRISPR_featurecounts.txt and dds_CRISPR.rds

gencode.v36.annotation.gtf

h5ad.tar 

individual and consensus CUT&Tag peaks for H3K27ac, H3K4me1 and H3K4me3 in Jurkat cell (BEX WT and BEX KO) : CUTandTag_individual_peak_calling.zip & CUTandTag_consensus_peaks.zip

i-cisTarget ouputs for differentially modified histones regions (named i-cisTarget_XXXXX.zip)

GSEA results for genes associated with differential epigenetic peaks analysed related to the gene expression changes observed in the RNA-seq data for Jurkat cells (BEX KO versus BEX WT) : GSEA_ChIP-histones-gene-sets_VS_RNAseq.txt
DOI: 10.5281/zenodo.14044880
title: Ectopic expression of BEX genes in T-cell Acute Lymphoblastic Leukemia : Bioinformatics resources and Docker environments

description: This repository provides Docker containers designed to reproduce the analyses presented in Quessada, Nozais et al. (2025), along with selected intermediate files. Detailed instructions for reproducing the analysis are available on github (https://github.com/mathisnozais/BEX) and raw data and other intermediate files are available in GEO/SRA (GSE303127 / SRP602355 for the RNAseq and GSE303130 / SRP602362 for the CUT&Tag).

This Zenodo hosts the following resources :





Docker images used for the analysis (rna431-2.tar and Seurat440paper.tar)




Confocal microscopy raw images from PLA experiments (Confocal_images.tar.gz)




The thymic single-cell RNA-seq dataset from Park et al. (Science 2019; DOI: 10.1126/science.aay3224), converted from ScanPy to Seurat (Park_dataset.robj)




Preprocessed single-cell RNA-seq data (ThymusWT_clean_cc-regressed_noADT.Robj and BC_BEX_mice.Robj)




TARGET and TCGA transcriptomic data objects and processed matrices (files named XXX_TARGET_XXX)


TO COMPLETE (files named SANDA_GR_X.txt)

GSE29180.bed & GSE25000.bed 

Related to jurkat RNAseq analysis :JKT_CRISPR_featurecounts.txt and dds_CRISPR.rds

gencode.v36.annotation.gtf

h5ad.tar 

individual and consensus CUT&Tag peaks for H3K27ac, H3K4me1 and H3K4me3 in Jurkat cell (BEX WT and BEX KO) : CUTandTag_individual_peak_calling.zip & CUTandTag_consensus_peaks.zip

i-cisTarget ouputs for differentially modified histones regions (named i-cisTarget_XXXXX.zip)

GSEA results for genes associated with differential epigenetic peaks analysed related to the gene expression changes observed in the RNA-seq data for Jurkat cells (BEX KO versus BEX WT) : GSEA_ChIP-histones-gene-sets_VS_RNAseq.txt
DOI: 10.15156/bio/sh1208068.10fu
title: SH1208068.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1208069.10fu
title: SH1208069.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1208070.10fu
title: SH1208070.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1208071.10fu
title: SH1208071.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1208072.10fu
title: SH1208072.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1208075.10fu
title: SH1208075.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1208076.10fu
title: SH1208076.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1208077.10fu
title: SH1208077.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1208079.10fu
title: SH1208079.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.