cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.9eywpq
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Maesa indica",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 }
 ]
}

 The dataset includes 38 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014022-260208012135463/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.31330009
title: Additional file 1 of Decision-making regarding dental treatments – What factors matter from patients’ perspective? A systematic review

description: Additional file 1: A1. Guideline on literature search, selection, and analysis. A2. Search strategy. A3. PRISMA checklist. A4. SWiM checklist. A5. Search strings for databases, including hits. A6. Characteristics, factors of choice, and references of included articles (N = 233), sorted by number of identified articles per country (descending) within study designs I–V. A7. Methodological characteristics of included articles (N = 233), and search details. A8. Coding scheme, codebook, and framework, including definitions of excluded and summarized codes. A9. Code definitions. A10. Calculation of ICA and ICR. A11. Quality assessment by MMAT: study design I. A12. Quality assessment by MMAT: study design II. A13. Quality assessment by MMAT: study design III. A14. Quality assessment by MMAT: study design IV. A15. Quality assessment by MMAT: study design V. A16. MMAT assessment results description.
DOI: 10.6084/m9.figshare.31330009.v1
title: Additional file 1 of Decision-making regarding dental treatments – What factors matter from patients’ perspective? A systematic review

description: Additional file 1: A1. Guideline on literature search, selection, and analysis. A2. Search strategy. A3. PRISMA checklist. A4. SWiM checklist. A5. Search strings for databases, including hits. A6. Characteristics, factors of choice, and references of included articles (N = 233), sorted by number of identified articles per country (descending) within study designs I–V. A7. Methodological characteristics of included articles (N = 233), and search details. A8. Coding scheme, codebook, and framework, including definitions of excluded and summarized codes. A9. Code definitions. A10. Calculation of ICA and ICR. A11. Quality assessment by MMAT: study design I. A12. Quality assessment by MMAT: study design II. A13. Quality assessment by MMAT: study design III. A14. Quality assessment by MMAT: study design IV. A15. Quality assessment by MMAT: study design V. A16. MMAT assessment results description.
DOI: 10.15468/dl.xcjb7x
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Candelariella lutella",
 "Country is one of (Norway)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1986",
 "Year is less than or equal to 2025",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 },
 {
 "not" : {
 "BasisOfRecord" : [
 "is Machine Observation"
 ]
 }
 }
 ]
}

 The dataset includes 9 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014023-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nzwbhb
title: Occurrence Download

description: A dataset containing 36 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Year is greater than or equal to 1900",
 "TaxonKey is Eragrostis omahekensis"
 ]
}

 The dataset includes 36 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014024-260208012135463/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.31330050
title: Additional file 2 of Elevation-associated shifts in plasma metabolite abundance and lung gene expression in the Xizang plateau frog, Nanorana parkeri

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.31330050.v1
title: Additional file 2 of Elevation-associated shifts in plasma metabolite abundance and lung gene expression in the Xizang plateau frog, Nanorana parkeri

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.31330053
title: Additional file 3 of Elevation-associated shifts in plasma metabolite abundance and lung gene expression in the Xizang plateau frog, Nanorana parkeri

description: Supplementary Material 3.
DOI: 10.6084/m9.figshare.31330053.v1
title: Additional file 3 of Elevation-associated shifts in plasma metabolite abundance and lung gene expression in the Xizang plateau frog, Nanorana parkeri

description: Supplementary Material 3.
DOI: 10.6084/m9.figshare.31330056
title: Additional file 4 of Elevation-associated shifts in plasma metabolite abundance and lung gene expression in the Xizang plateau frog, Nanorana parkeri

description: Supplementary Material 4.
DOI: 10.6084/m9.figshare.31330056.v1
title: Additional file 4 of Elevation-associated shifts in plasma metabolite abundance and lung gene expression in the Xizang plateau frog, Nanorana parkeri

description: Supplementary Material 4.
DOI: 10.15468/dl.493ugc
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Anablepsoides atratus",
 "DecimalLatitude is not null",
 "DecimalLongitude is not null"
 ]
}

 The dataset includes 30 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014025-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18609122
title: Single-cell RNA sequecing of sensory ganglia meningeal leukocytes after neuropathic pain using 10X Genomics plataform
title: Sensory Ganglia Meningeal-Vertebral Bone Marrow Axis Promotes Neuropathic Pain

description: Sorted CD45⁺ meningeal immune cells from dorsal root ganglia (DRGs) were obtained as described in the section “Fluorescence-activated cell sorting (FACS) of DRG meningeal cells” and processed for droplet-based single-cell RNA sequencing using the 10x Genomics Chromium platform. Single-cell suspensions with viability >90% were loaded into the Chromium Controller, and libraries were generated using the Chromium Next GEM Single Cell 3′ Reagent Kits v3.1 according to the manufacturer’s instructions. Following encapsulation and barcoding, cDNA synthesis and amplification were performed, and library quality was assessed using a High Sensitivity D1000 ScreenTape Assay on an Agilent 4200 TapeStation. Libraries were sequenced on an Illumina HiSeq 4000 system.
DOI: 10.5281/zenodo.18609123
title: Single-cell RNA sequecing of sensory ganglia meningeal leukocytes after neuropathic pain using 10X Genomics plataform
title: Sensory Ganglia Meningeal-Vertebral Bone Marrow Axis Promotes Neuropathic Pain

description: Sorted CD45⁺ meningeal immune cells from dorsal root ganglia (DRGs) were obtained as described in the section “Fluorescence-activated cell sorting (FACS) of DRG meningeal cells” and processed for droplet-based single-cell RNA sequencing using the 10x Genomics Chromium platform. Single-cell suspensions with viability >90% were loaded into the Chromium Controller, and libraries were generated using the Chromium Next GEM Single Cell 3′ Reagent Kits v3.1 according to the manufacturer’s instructions. Following encapsulation and barcoding, cDNA synthesis and amplification were performed, and library quality was assessed using a High Sensitivity D1000 ScreenTape Assay on an Agilent 4200 TapeStation. Libraries were sequenced on an Illumina HiSeq 4000 system.
DOI: 10.6084/m9.figshare.31330069
title: Additional file 1 of Seroprevalence of brucellosis in humans and livestock in Sub-Saharan Africa: a systematic review and meta-analysis

description: Supplementary file 1: A scoring technique to assess the risk of bias for the studies.
DOI: 10.6084/m9.figshare.31330069.v1
title: Additional file 1 of Seroprevalence of brucellosis in humans and livestock in Sub-Saharan Africa: a systematic review and meta-analysis

description: Supplementary file 1: A scoring technique to assess the risk of bias for the studies.
DOI: 10.15468/dl.hk6a8w
title: Occurrence Download

description: A dataset containing 25503 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lepomis gulosus",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is MANAGED"
 ]
 }
 },
 {
 "not" : {
 "EstablishmentMeans" : [
 "is not null"
 ]
 }
 }
 ]
 },
 {
 "or" : [
 "OccurrenceStatus is Present",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is not null"
 ]
 }
 }
 ]
 }
 ]
}

 The dataset includes 25503 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014026-260208012135463/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.31330080
title: Additional file 1 of Sjögren’s patient subgroups identified through whole genome DNA methylation profiling

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.31330080.v1
title: Additional file 1 of Sjögren’s patient subgroups identified through whole genome DNA methylation profiling

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.31330083
title: Additional file 2 of Sjögren’s patient subgroups identified through whole genome DNA methylation profiling

description: Supplementary Material 2: FigS1. VAE training loss. FigS2. (A) Hypermethylated DMP pathways in Epithelial and B-cells, (B) Hypermethylated DMR pathways in Epithelial and B-cells. Circle size denotes the number of genes in the pathway, color indicates cell-type, and the blue line denotes FDR significance. Case subgroup 1-3 is the reference group. FigS3. Correlations among clinical features and cell-type proportions.
DOI: 10.6084/m9.figshare.31330083.v1
title: Additional file 2 of Sjögren’s patient subgroups identified through whole genome DNA methylation profiling

description: Supplementary Material 2: FigS1. VAE training loss. FigS2. (A) Hypermethylated DMP pathways in Epithelial and B-cells, (B) Hypermethylated DMR pathways in Epithelial and B-cells. Circle size denotes the number of genes in the pathway, color indicates cell-type, and the blue line denotes FDR significance. Case subgroup 1-3 is the reference group. FigS3. Correlations among clinical features and cell-type proportions.
DOI: 10.6084/m9.figshare.31330089
title: Additional file 1 of Genomes of N2-fixing endosymbionts of unicellular eukaryotes and host-independence

description: Supplementary Material 1. Table S1: Genomes used in this study. Table S2: Proteins and RNA related to selected metabolic pathways. Table S3: Sets of orthologs and their intersections. Table S4: Transport proteins. Table S5: Orthologs used to construct genomic phylogenetic tree.
DOI: 10.6084/m9.figshare.31330089.v1
title: Additional file 1 of Genomes of N2-fixing endosymbionts of unicellular eukaryotes and host-independence

description: Supplementary Material 1. Table S1: Genomes used in this study. Table S2: Proteins and RNA related to selected metabolic pathways. Table S3: Sets of orthologs and their intersections. Table S4: Transport proteins. Table S5: Orthologs used to construct genomic phylogenetic tree.
DOI: 10.6084/m9.figshare.31330107
title: Additional file 1 of A retrospective study of remodeling changes of the temporomandibular joint structures in patients with unilateral posterior tooth loss

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.31330107.v1
title: Additional file 1 of A retrospective study of remodeling changes of the temporomandibular joint structures in patients with unilateral posterior tooth loss

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.31330110
title: Additional file 2 of A retrospective study of remodeling changes of the temporomandibular joint structures in patients with unilateral posterior tooth loss

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.31330110.v1
title: Additional file 2 of A retrospective study of remodeling changes of the temporomandibular joint structures in patients with unilateral posterior tooth loss

description: Supplementary Material 2.
DOI: 10.15468/dl.356k3t
title: Occurrence Download

description: A dataset containing 300 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Olmedia aspera",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 }
 ]
}

 The dataset includes 300 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014027-260208012135463/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.31330113
title: Additional file 1 of Temporal dynamics of the fecal microbiome in wintering seagulls: a One Health perspective

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.31330113.v1
title: Additional file 1 of Temporal dynamics of the fecal microbiome in wintering seagulls: a One Health perspective

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.31330143
title: Additional file 1 of Generating the evidence base for implementation strategies targeting colorectal cancer screening in the accelerating colorectal cancer screening through implementation science (ACCSIS) research projects

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.31330143.v1
title: Additional file 1 of Generating the evidence base for implementation strategies targeting colorectal cancer screening in the accelerating colorectal cancer screening through implementation science (ACCSIS) research projects

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.31330152
title: Additional file 1 of Environmental drivers of bat activity at high latitudes

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.31330152.v1
title: Additional file 1 of Environmental drivers of bat activity at high latitudes

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.31330159
title: Additional file 1 of CCN1 drives asthmatic airway remodeling through amplification of TGF-β1/Smad3 signaling

description: Additional file 1: Table S1. A comprehensive summary of the clinical characteristics of all human study participants. Table S2. siRNA sequences for gene silencing. Table S3. Primers for qRT-PCR. Figure S1. Validation of Lentiviral-Mediated CCN1 Knockdown Efficacy in vivo. Figure S2. Effect of CCN1 modulation on Smad3 phosphorylationin vivo. Figure S1.Validation of Lentiviral-Mediated CCN1 Knockdown Efficacyin vivo. (A, B) To confirm successful target gene suppression, we performed immunofluorescence microscopy on lung sections. These representative images and the associated quantification demonstrate that therapeutic delivery of LV2-shCCN1 resulted in a significant reduction of CCN1 protein expression specifically within the bronchial epithelium of OVA-challenged mice when compared to the non-targeting control. Scale bar = 50 µm. All quantitative data are expressed as the mean ± SD from three independent animal cohorts. Statistical significance was assessed using one-way ANOVA followed by Tukey's multiple comparisons test. *P &lt; 0.05; **P&lt; 0.01 versus the shNC-treated group. Figure S2. Effect of CCN1 modulation on Smad3 phosphorylation in vivo. (A, B) Immunoblotting of whole-lung homogenates revealed that lentiviral-mediated knockdown of CCN1 significantly attenuated the OVA-induced phosphorylation of Smad3 relative to the non-targeting control. (C, D) Conversely, gain-of-function experiments involving the intranasal administration of rmCCN1 produced a marked increase in Smad3 phosphorylation over that observed in the OVA-challenged group that received vehicle alone. All graphical data represent the mean ± SD from three separate experiments. Group-wise statistical comparisons were performed using one-way ANOVA followed by Tukey's multiple comparisons test. *P &lt; 0.05 and **P &lt; 0.01 were considered statistically significant versus the relevant control group.
DOI: 10.6084/m9.figshare.31330159.v1
title: Additional file 1 of CCN1 drives asthmatic airway remodeling through amplification of TGF-β1/Smad3 signaling

description: Additional file 1: Table S1. A comprehensive summary of the clinical characteristics of all human study participants. Table S2. siRNA sequences for gene silencing. Table S3. Primers for qRT-PCR. Figure S1. Validation of Lentiviral-Mediated CCN1 Knockdown Efficacy in vivo. Figure S2. Effect of CCN1 modulation on Smad3 phosphorylationin vivo. Figure S1.Validation of Lentiviral-Mediated CCN1 Knockdown Efficacyin vivo. (A, B) To confirm successful target gene suppression, we performed immunofluorescence microscopy on lung sections. These representative images and the associated quantification demonstrate that therapeutic delivery of LV2-shCCN1 resulted in a significant reduction of CCN1 protein expression specifically within the bronchial epithelium of OVA-challenged mice when compared to the non-targeting control. Scale bar = 50 µm. All quantitative data are expressed as the mean ± SD from three independent animal cohorts. Statistical significance was assessed using one-way ANOVA followed by Tukey's multiple comparisons test. *P &lt; 0.05; **P&lt; 0.01 versus the shNC-treated group. Figure S2. Effect of CCN1 modulation on Smad3 phosphorylation in vivo. (A, B) Immunoblotting of whole-lung homogenates revealed that lentiviral-mediated knockdown of CCN1 significantly attenuated the OVA-induced phosphorylation of Smad3 relative to the non-targeting control. (C, D) Conversely, gain-of-function experiments involving the intranasal administration of rmCCN1 produced a marked increase in Smad3 phosphorylation over that observed in the OVA-challenged group that received vehicle alone. All graphical data represent the mean ± SD from three separate experiments. Group-wise statistical comparisons were performed using one-way ANOVA followed by Tukey's multiple comparisons test. *P &lt; 0.05 and **P &lt; 0.01 were considered statistically significant versus the relevant control group.
DOI: 10.6084/m9.figshare.18972881
title: supplemental-document1.22.docx

description: Supplemental 1
DOI: 10.5281/zenodo.18626573
title: Single-cell transcriptomics of bronchoalveolar lavage reveals divergent macrophage subpopulations and trajectories in interstitial lung disease

description: This repository contains the preprocessed single-cell RNA data from the manuscript Single-cell transcriptomics of bronchoalveolar lavage reveals divergent macrophage subpopulations and trajectories in interstitial lung disease (under submission). 

 

Data Descriptions:




BAL_FINAL.rds
Seurat Object with the entire dataset


BAL_FINAL.h5ad
Scanpy Object with the entire dataset


BAL_FINAL_META.txt
Metadata for each cell


mlm_umap_embeddings.csv
UMAP embeddings for the monocyte-derived clusters


mlm_cluster_metadata.csv
Monocyte-derived macrophage metadata


monomacs_only.rds
Seurat Object with monocyte-like macrophages (MLMs)


ipf_allen2022.full_score.gz
scDRS results for each cell using the Richard Allen et al. 2022 IPF GWAS summary statistics
DOI: 10.6084/m9.figshare.18972881.v1
title: supplemental-document1.22.docx

description: Supplemental 1
DOI: 10.5281/zenodo.15339000
title: Single-cell transcriptomics of bronchoalveolar lavage reveals divergent macrophage subpopulations and trajectories in interstitial lung disease

description: This repository contains the preprocessed single-cell RNA data from the manuscript Single-cell transcriptomics of bronchoalveolar lavage reveals divergent macrophage subpopulations and trajectories in interstitial lung disease (under submission). 

 

Data Descriptions:




BAL_FINAL.rds
Seurat Object with the entire dataset


BAL_FINAL.h5ad
Scanpy Object with the entire dataset


BAL_FINAL_META.txt
Metadata for each cell


mlm_umap_embeddings.csv
UMAP embeddings for the monocyte-derived clusters


mlm_cluster_metadata.csv
Monocyte-derived macrophage metadata


monomacs_only.rds
Seurat Object with monocyte-like macrophages (MLMs)


ipf_allen2022.full_score.gz
scDRS results for each cell using the Richard Allen et al. 2022 IPF GWAS summary statistics
DOI: 10.15468/dl.b4zbt6
title: Occurrence Download

description: A dataset containing 299 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Candelariella coralliza",
 "Country is one of (Norway)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "CoordinateUncertaintyInMeters is less than or equal to 1000",
 "Year is greater than or equal to 1986",
 "Year is less than or equal to 2025",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 },
 {
 "not" : {
 "BasisOfRecord" : [
 "is Machine Observation"
 ]
 }
 }
 ]
}

 The dataset includes 299 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014029-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18627363
title: SEM Withered Plant (BSE Series) — Kikoh Matsuura (Art–Science Archive)

description: Parent (series) record for *SEM Withered Plant (BSE)* by Kikoh Matsuura.  This record serves as the hub for all child datasets in the series.

**Files included:**- A series overview (TXT) documenting scope, naming rules, citation style, and file policy- A machine-readable index (CSV) that will be updated to list child datasets (DOIs, imaging parameters, etc.)- Withered Plant — Declaration (PDF) — issued once / no future revisions / no images- Withered Plant: Phase I (DOI 1–100) — Record (PDF) — fixed record / no future revisions

Each child dataset contains raw, uncompressed BMP images (≈10 per set, number varies) acquired with a personally owned TECHNEX TinySEM M3-i using the BSE detector under high-vacuum conditions.  Child records provide detailed READMEs with exact parameters (accelerating voltage, working distance, vacuum, pixel size, field of view, frame time, coating).

This parent provides a stable concept DOI for the entire *SEM Withered Plant (BSE)* series.  Child datasets link back via *IsPartOf*, and this parent enumerates them via *HasPart*.  

*This series visualizes the hidden order and chance in withered plants through SEM-BSE, leaving a unique trace at the boundary between art and science.*
DOI: 10.15468/dl.472qxx
title: Occurrence Download

description: A dataset containing 11538 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mallotus philippensis",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 }
 ]
}

 The dataset includes 11538 records from 120 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014028-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.