cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.30856245
title: Additional file 1 of Conserved environmental adaptations of stream microbiomes in the hyporheic zone across North America

description: Supplementary Material 1: Stach_et_al_2025_Supplememtary_information: Figure S1: Visualization of the statistical comparison of microbial energy metabolism in sediment and surface water, encoded by the metagenome and expressed by the metatranscriptome. Figure S2: Phylogenetic analysis of homologous genes annotated as methane monooxygenase (mmo) and ammonia monooxygenase (amo), respectively, to decipher the functional annotation of genes retrieved from river metagenomes. Figure S3: Phylogenetic analysis of homologous genes annotated as nitrate reductase (nar) and nitrite oxidoreductase (nxr), respectively, to decipher proper annotation of homologous genes from river ecosystems. Table S1: Statistical testing of environmental impact on gene expression of the microbial community structure in stream sediments. Figure S4 and S5: Significantly upregulated (S4) and downregulated (S5) genes with abs(LFC) &gt; 1 and adj. p-value &lt; 0.05 due to stream order increase. Supplementary Material 2: Table SI1: Meta information of metatranscriptomic and metagenomic samples used in this study. Table SI2: Information on MAGs analyzed in this study. Table SI3: Metagenomic datasets used for building the gene database. Table SI4: Gene identity of genes displayed in UpSetPlot (Figure 4B). Table SI5: List of up- and downregulated genes displayed in Figure 5. Table SI6: Metagenomic and metatranscriptomic counts of metabolic pathways displayed in Figure 2. Table SI7: DRAM distill classification of energy pathways. SI8: Supplementary data for phylogenetic analysis of homologous genes as displayed in Figures S2 and S3. Table SI9: Data on encoded and expressed nitrogen and sulfur pathways as support for Figure 3.
DOI: 10.6084/m9.figshare.30856245.v1
title: Additional file 1 of Conserved environmental adaptations of stream microbiomes in the hyporheic zone across North America

description: Supplementary Material 1: Stach_et_al_2025_Supplememtary_information: Figure S1: Visualization of the statistical comparison of microbial energy metabolism in sediment and surface water, encoded by the metagenome and expressed by the metatranscriptome. Figure S2: Phylogenetic analysis of homologous genes annotated as methane monooxygenase (mmo) and ammonia monooxygenase (amo), respectively, to decipher the functional annotation of genes retrieved from river metagenomes. Figure S3: Phylogenetic analysis of homologous genes annotated as nitrate reductase (nar) and nitrite oxidoreductase (nxr), respectively, to decipher proper annotation of homologous genes from river ecosystems. Table S1: Statistical testing of environmental impact on gene expression of the microbial community structure in stream sediments. Figure S4 and S5: Significantly upregulated (S4) and downregulated (S5) genes with abs(LFC) &gt; 1 and adj. p-value &lt; 0.05 due to stream order increase. Supplementary Material 2: Table SI1: Meta information of metatranscriptomic and metagenomic samples used in this study. Table SI2: Information on MAGs analyzed in this study. Table SI3: Metagenomic datasets used for building the gene database. Table SI4: Gene identity of genes displayed in UpSetPlot (Figure 4B). Table SI5: List of up- and downregulated genes displayed in Figure 5. Table SI6: Metagenomic and metatranscriptomic counts of metabolic pathways displayed in Figure 2. Table SI7: DRAM distill classification of energy pathways. SI8: Supplementary data for phylogenetic analysis of homologous genes as displayed in Figures S2 and S3. Table SI9: Data on encoded and expressed nitrogen and sulfur pathways as support for Figure 3.
DOI: 10.6084/m9.figshare.30856248
title: Additional file 1 of Early peripheral blood gene expression predicts 90-day outcomes following subarachnoid hemorrhage

description: Supplementary Material 1.
DOI: 10.6084/m9.figshare.30856248.v1
title: Additional file 1 of Early peripheral blood gene expression predicts 90-day outcomes following subarachnoid hemorrhage

description: Supplementary Material 1.
DOI: 10.15468/dl.6utg9e
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Polybrachia eastwardae",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 7 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046332-251120083545085/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.30856281
title: Additional file 3 of Assessment of the Pb2+ biosorption potential of the fungus Penicillium citrinum under geothermal conditions

description: Supplementary material 3.
DOI: 10.6084/m9.figshare.30856281.v1
title: Additional file 3 of Assessment of the Pb2+ biosorption potential of the fungus Penicillium citrinum under geothermal conditions

description: Supplementary material 3.
DOI: 10.6084/m9.figshare.30856289
title: Additional file 12 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 12.
DOI: 10.6084/m9.figshare.30856289.v1
title: Additional file 12 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 12.
DOI: 10.6084/m9.figshare.30856292
title: Additional file 13 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 13.
DOI: 10.6084/m9.figshare.30856292.v1
title: Additional file 13 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 13.
DOI: 10.6084/m9.figshare.30856295
title: Additional file 14 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 14.
DOI: 10.6084/m9.figshare.30856295.v1
title: Additional file 14 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 14.
DOI: 10.6084/m9.figshare.30856301
title: Additional file 15 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 15.
DOI: 10.6084/m9.figshare.30856301.v1
title: Additional file 15 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 15.
DOI: 10.6084/m9.figshare.30856304
title: Additional file 16 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 16.
DOI: 10.6084/m9.figshare.30856304.v1
title: Additional file 16 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 16.
DOI: 10.6084/m9.figshare.30856307
title: Additional file 17 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 17.
DOI: 10.6084/m9.figshare.30856307.v1
title: Additional file 17 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 17.
DOI: 10.6084/m9.figshare.30856310.v1
title: Additional file 18 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 18.
DOI: 10.6084/m9.figshare.30856310
title: Additional file 18 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 18.
DOI: 10.6084/m9.figshare.30856313
title: Additional file 19 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 19.
DOI: 10.6084/m9.figshare.30856313.v1
title: Additional file 19 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 19.
DOI: 10.6084/m9.figshare.30856319
title: Additional file 20 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 20.
DOI: 10.6084/m9.figshare.30856319.v1
title: Additional file 20 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 20.
DOI: 10.6084/m9.figshare.30856322
title: Additional file 21 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 21.
DOI: 10.6084/m9.figshare.30856322.v1
title: Additional file 21 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 21.
DOI: 10.6084/m9.figshare.30856325
title: Additional file 22 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 22.
DOI: 10.6084/m9.figshare.30856325.v1
title: Additional file 22 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 22.
DOI: 10.6084/m9.figshare.30856328
title: Additional file 23 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 23.
DOI: 10.6084/m9.figshare.30856328.v1
title: Additional file 23 of Developmental exposure to environmentally relevant PFOS and PFBS disrupts adult behaviour, reproductive fitness, and lipid metabolism in Zebrafish

description: Additional file 23.
DOI: 10.6084/m9.figshare.30856332
title: Additional file 2 of Transcriptional dynamics and chromatin accessibility in the regulation of shade-responsive genes in Arabidopsis

description: Additional file 2: Supplementary tables. Table S1. List of primers used in this study. Table S2a. PIF457 upregulated genes. Table S2b. PIF457 downregulated genes. Table S3. PIF7 direct targets and shade regulated genes. Table S4a. Differentially expressed genes in RNA-seq in response to LRFR. Table S4b. Gene enrichment analysis of the RNA-seq in response to LRFR. Table S4c. TPM of genes from the RNA-seq in response to LRFR. Table S4d. HTSEQ counts of RNA-seq in response to LRFR. Table S5a. Differential analysis of ATAC-seq in response to LRFR. Table S5b. Clustering of differentially accessible regions in ATAC-seq in response to LRFR. Table S5c. MACS3 peak counts for ATAC-seq in response to LRFR
DOI: 10.6084/m9.figshare.30856332.v1
title: Additional file 2 of Transcriptional dynamics and chromatin accessibility in the regulation of shade-responsive genes in Arabidopsis

description: Additional file 2: Supplementary tables. Table S1. List of primers used in this study. Table S2a. PIF457 upregulated genes. Table S2b. PIF457 downregulated genes. Table S3. PIF7 direct targets and shade regulated genes. Table S4a. Differentially expressed genes in RNA-seq in response to LRFR. Table S4b. Gene enrichment analysis of the RNA-seq in response to LRFR. Table S4c. TPM of genes from the RNA-seq in response to LRFR. Table S4d. HTSEQ counts of RNA-seq in response to LRFR. Table S5a. Differential analysis of ATAC-seq in response to LRFR. Table S5b. Clustering of differentially accessible regions in ATAC-seq in response to LRFR. Table S5c. MACS3 peak counts for ATAC-seq in response to LRFR
DOI: 10.6084/m9.figshare.30856343.v1
title: Additional file 3 of Artificial intelligence in pulmonary hypertension: a systematic review

description: Additional file 3.
DOI: 10.6084/m9.figshare.30856343
title: Additional file 3 of Artificial intelligence in pulmonary hypertension: a systematic review

description: Additional file 3.
DOI: 10.6084/m9.figshare.30856361
title: Additional file 2 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 2. Statistics and details of CHILD exposome variables.
DOI: 10.6084/m9.figshare.30856361.v1
title: Additional file 2 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 2. Statistics and details of CHILD exposome variables.
DOI: 10.6084/m9.figshare.30856364
title: Additional file 3 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 3. Results of the genome-exposome contribution analysis to methylome variability in CHILD cord blood samples.
DOI: 10.6084/m9.figshare.30856364.v1
title: Additional file 3 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 3. Results of the genome-exposome contribution analysis to methylome variability in CHILD cord blood samples.
DOI: 10.6084/m9.figshare.30856367
title: Additional file 4 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 4. Results of the genome-exposome contribution analysis to methylome variability in PREDO I cord blood samples.
DOI: 10.6084/m9.figshare.30856367.v1
title: Additional file 4 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 4. Results of the genome-exposome contribution analysis to methylome variability in PREDO I cord blood samples.
DOI: 10.6084/m9.figshare.30856370
title: Additional file 5 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 5. Results of the genome-exposome contribution analysis to methylome variability in PREDO II cord blood samples.
DOI: 10.6084/m9.figshare.30856370.v1
title: Additional file 5 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 5. Results of the genome-exposome contribution analysis to methylome variability in PREDO II cord blood samples.
DOI: 10.6084/m9.figshare.30856373
title: Additional file 6 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 6. Significant cis mQTLs in CHILD cord blood samples (chr1-6; p-value &lt; 1x10-5).
DOI: 10.6084/m9.figshare.30856373.v1
title: Additional file 6 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 6. Significant cis mQTLs in CHILD cord blood samples (chr1-6; p-value &lt; 1x10-5).
DOI: 10.6084/m9.figshare.30856376
title: Additional file 7 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 7. Significant cis mQTLs in CHILD cord blood samples (chr7-22; p-value &lt; 1x10-5).
DOI: 10.6084/m9.figshare.30856376.v1
title: Additional file 7 of RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood

description: Additional file 7. Significant cis mQTLs in CHILD cord blood samples (chr7-22; p-value &lt; 1x10-5).
DOI: 10.15468/dl.wtcujy
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Polybrachia gorbunovi",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046333-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wndguq
title: Occurrence Download

description: A dataset containing 56112710 species occurrences available in GBIF matching the query:
(Query is too complex. Can be viewed on the landing page)

 The dataset includes 56112710 records from 2124 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046320-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pmhjes
title: Occurrence Download

description: A dataset containing 138959 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melampyrum pratense L.",
 "HasCoordinate is TRUE",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 138959 records from 299 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038473-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.snjv63
title: Occurrence Download

description: A dataset containing 1265 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Plethodon cheoah Highton & Peabody, 2000)"
 ]
}

 The dataset includes 1265 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007207-240202131308920/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v26eb7
title: Occurrence Download

description: A dataset containing 10810 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Persicaria longiseta (Bruijn) Kitag."
 ]
}

 The dataset includes 10810 records from 173 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0268541-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zaq3mx
title: Occurrence Download

description: A dataset containing 57913 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melampyrum sylvaticum L.",
 "HasCoordinate is TRUE",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 57913 records from 132 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038475-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g4jzwd
title: Occurrence Download

description: A dataset containing 6556 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Buteo galapagoensis (Gould, 1837)"
 ]
}

 The dataset includes 6556 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010004-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.agwxzb
title: Occurrence Download

description: A dataset containing 189 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dactyloctenium aegyptiacum Willd."
 ]
}

 The dataset includes 189 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0266300-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pdd77u
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bursera hollickii (Britton) Fawc. & Rendle"
 ]
}

 The dataset includes 12 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0147899-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8ameb0
title: Occurrence Download

description: A dataset containing 475078 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crotalus mitchellii Cope, 1861"
 ]
}

 The dataset includes 475078 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038467-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q3n5f4
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ficus pseudoconcinna Chantaras."
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010022-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hjphtv
title: Occurrence Download

description: A dataset containing 2952 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melastoma malabathricum L.",
 "HasCoordinate is TRUE",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 2952 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038476-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s9psx8
title: Occurrence Download

description: A dataset containing 7908 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Cinnyris erythrocercus (Hartlaub, 1857)"
 ]
}

 The dataset includes 7908 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010009-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.