cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26987086.v1
title: Additional file 2 of Microbial life in 25-m-deep boreholes in ancient permafrost illuminated by metagenomics

description: Additional file 2. The file contains six Excel tables: Table S1, Sample and sequencing information; Table S2, Sequence information for MAGs; Table S3, Metabolic potential; Table S4, Key metabolic pathways for MAGs; Table S5, Potential metabolic pathways identifies in MAGs.
DOI: 10.6084/m9.figshare.26987071
title: Additional file 3 of A systematic review and meta-analysis of studies exploring prevalence of non-specific anxiety in undergraduate university students

description: Additional file 3. Dataset showing anxiety prevalence data from each included study.
DOI: 10.6084/m9.figshare.26987092
title: Additional file 2 of Evidence gaps on weight gain in people living with HIV: a scoping review to define a research agenda

description: Supplementary Material 2
DOI: 10.6084/m9.figshare.26987119
title: Additional file 5 of A beginner’s guide on the use of brain organoids for neuroscientists: a systematic review

description: Additional file 5: Individual markers are depicted in relation to the cell type that they were reported to characterise. The ‘Regional identity’ column depicts markers not often used for specific cell type characterisations, but more generally used to determine the identity of the organoid model. Strong marker overlap is evident between precursors cells. NPC: neural precursor cells; RG: radial glia; oRG: outer radial glia; IPC: intermediate progenitor cells; GE: ganglionic eminence; MGE: medial ganglionic eminence; IN: interneuron; DA: dopaminergic; ChP: choroid plexus.
DOI: 10.6084/m9.figshare.26987110.v1
title: Additional file 2 of A beginner’s guide on the use of brain organoids for neuroscientists: a systematic review

description: Additional file 2: Neurodevelopmental and Protocol generation articles. This file contains a table of the 124 articles categorised under ‘Neurodevelopmental studies and Protocol generation’. Each article is analysed for the name(s) of the organoid model(s) reported as well as the identity of each model, the culture durations (age) of each model, and whether the article performed functional assays (Yes/No score).
DOI: 10.6084/m9.figshare.26987086
title: Additional file 2 of Microbial life in 25-m-deep boreholes in ancient permafrost illuminated by metagenomics

description: Additional file 2. The file contains six Excel tables: Table S1, Sample and sequencing information; Table S2, Sequence information for MAGs; Table S3, Metabolic potential; Table S4, Key metabolic pathways for MAGs; Table S5, Potential metabolic pathways identifies in MAGs.
DOI: 10.6084/m9.figshare.26987092.v1
title: Additional file 2 of Evidence gaps on weight gain in people living with HIV: a scoping review to define a research agenda

description: Supplementary Material 2
DOI: 10.6084/m9.figshare.26987101
title: Additional file 2 of Improving breastfeeding support through the implementation of the Baby-Friendly Hospital and Community Initiatives: a scoping review

description: Additional file 2. Overview of studies.
DOI: 10.6084/m9.figshare.26987110
title: Additional file 2 of A beginner’s guide on the use of brain organoids for neuroscientists: a systematic review

description: Additional file 2: Neurodevelopmental and Protocol generation articles. This file contains a table of the 124 articles categorised under ‘Neurodevelopmental studies and Protocol generation’. Each article is analysed for the name(s) of the organoid model(s) reported as well as the identity of each model, the culture durations (age) of each model, and whether the article performed functional assays (Yes/No score).
DOI: 10.6084/m9.figshare.26986927.v1
title: Additional file 5 of Plasmodium falciparum gametocytes display global chromatin remodelling during sexual differentiation

description: Additional file 5: Table S4. List of genes associated with different chromatin states upstream in female gametocytes and ring stage parasites including Gene Ontology analyses.
DOI: 10.6084/m9.figshare.26987035.v1
title: Additional file 4 of Comparative transcriptomic analysis of germinating rice seedlings to individual and combined anaerobic and cold stress

description: Additional file 4: Supplementary Table 7. Differentially expressed genes (DEGs) identified by considering both genotype and treatment effects.
DOI: 10.6084/m9.figshare.26987119.v1
title: Additional file 5 of A beginner’s guide on the use of brain organoids for neuroscientists: a systematic review

description: Additional file 5: Individual markers are depicted in relation to the cell type that they were reported to characterise. The ‘Regional identity’ column depicts markers not often used for specific cell type characterisations, but more generally used to determine the identity of the organoid model. Strong marker overlap is evident between precursors cells. NPC: neural precursor cells; RG: radial glia; oRG: outer radial glia; IPC: intermediate progenitor cells; GE: ganglionic eminence; MGE: medial ganglionic eminence; IN: interneuron; DA: dopaminergic; ChP: choroid plexus.
DOI: 10.6084/m9.figshare.26987077.v1
title: Additional file 1 of Dynamic chromatin architectures provide insights into the genetics of cattle myogenesis

description: Additional file 1: Table S1. Hi-C library stats of CFM and CAM. Table S2. RNA-seq library stats of CFM and CAM. Table S3. Gene expression levels in CFM and CAM. Table S4. The first principal component (PC1) values of CFM and CAM at 1 Mb resolution. Table S5. The locations of topologically associated domains (TADs) of CFM and CAM at 40 kb resolution. Table S6. Stage-specific TAD boundaries of CFM and CAM at 40 kb resolution. Table S7. Loop list of CFM and CAM after merging loops at 5 kb and 10 kb resolutions. Table S8. ATAC-seq library stats of CFM and CAM. Table S9. Individual peak sets of four ATAC-seq samples. Table S10. Differentially accessible regions (DARs) between CFM and CAM. Table S11. Motif enrichment analysis of the differentially accessible regions (DARs). Table S12. Potential enhancers predicted by PSYCHIC at 25 kb resolution (FDR q-value &lt; 0.05). Table S13. Landscape of cis-regulatory elements of cattle muscle genome based on ATAC-seq. Table S14. Stage-specific loops of cattle muscle. Table S15. E-P interactions involved in stage-specific loops. Table S16. Gene Ontology (GO) analysis of E-P genes in stage-specific loops using Metascape. Table S17. Motif enrichment analysis of E-P enhancers in stage-specific loops. Table S18. SRA ID of cattle used for selection sweep analysis. Table S19. Selection sweep signals (regions with ZFST &gt; 3 were used for further analyses). Table S20. Genes and regulatory elements within sweep regions (ZFST &gt; 3). Table S21. Fit-Hi-C loops (loops with FDR q-value &lt; 0.05 were used for Fig. 5A). Table S22. Raw data of Dual-Luciferase reporter assay and PBM proliferation assay. Table S23. Primer sequences used in this study.
DOI: 10.6084/m9.figshare.26987107
title: Additional file 1 of A beginner’s guide on the use of brain organoids for neuroscientists: a systematic review

description: Additional file 1: Categorisation of included articles. This file contains a table of the 302 articles that were included into the study, and which are subsequently categorised into research fields based on the stated aim of the articles.
DOI: 10.6084/m9.figshare.26986987.v1
title: Additional file 7 of Temporal tracking of microglial and monocyte single-cell transcriptomics in lethal flavivirus infection

description: Additional file 7. Genes up- and down-regulated by scRNA-seq microglia clusters.
DOI: 10.6084/m9.figshare.26987173
title: Additional file 10 of Dysregulation of hypoxia-inducible factor 1α in the sympathetic nervous system accelerates diabetic cardiomyopathy

description: Additional file 10: Dataset S1. RNA sequencing: differentially expressed protein coding genes (adjusted P-value padj &lt; 0.01, fold change (FC) &gt; 1.5 cutoff values). Dataset S2. g: Profiler analyses of differentially expressed genes.
DOI: 10.6084/m9.figshare.26987038.v1
title: Additional file 5 of Comparative transcriptomic analysis of germinating rice seedlings to individual and combined anaerobic and cold stress

description: Additional file 5: Supplementary Table 8. GO enrichment analysis in each stress condition.
DOI: 10.6084/m9.figshare.26987113
title: Additional file 3 of A beginner’s guide on the use of brain organoids for neuroscientists: a systematic review

description: Additional file 3: Functional assays described in different brain organoid models. This file contains a table of the articles included for the functional assay analysis. Articles were analysed for the type of assay described, and for the method of organoid preparation. Articles with an * depict assembloid studies.
DOI: 10.6084/m9.figshare.26987206
title: Additional file 2 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 2. List of normalized read abundances of taxa detected with DIAMOND blastx in metagenomes assembled from 12 Musa samples showing unfiltered results, filtering for separate kingdoms, and showing taxon overlap results used in Venn diagrams.
DOI: 10.6084/m9.figshare.26987209
title: Additional file 3 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 3. Pan-community analysis comparing the samples with the largest numbers of unique ‘cloud’ taxa, MBR, BBC, and DCR (which comprise BB and AAA genotypes), showing taxon overlap results used in Venn diagrams.
DOI: 10.6084/m9.figshare.26987209.v1
title: Additional file 3 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 3. Pan-community analysis comparing the samples with the largest numbers of unique ‘cloud’ taxa, MBR, BBC, and DCR (which comprise BB and AAA genotypes), showing taxon overlap results used in Venn diagrams.
DOI: 10.6084/m9.figshare.26987107.v1
title: Additional file 1 of A beginner’s guide on the use of brain organoids for neuroscientists: a systematic review

description: Additional file 1: Categorisation of included articles. This file contains a table of the 302 articles that were included into the study, and which are subsequently categorised into research fields based on the stated aim of the articles.
DOI: 10.6084/m9.figshare.26987128.v1
title: Additional file 3 of A systematic review, umbrella review, and quality assessment on clinical translation of stem cell therapy for knee osteoarthritis: Are we there yet?

description: Additional file 3: Appendix 3. Registration status of clinical studies on stem cell therapy for KOA.
DOI: 10.6084/m9.figshare.26987206.v1
title: Additional file 2 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 2. List of normalized read abundances of taxa detected with DIAMOND blastx in metagenomes assembled from 12 Musa samples showing unfiltered results, filtering for separate kingdoms, and showing taxon overlap results used in Venn diagrams.
DOI: 10.6084/m9.figshare.26987212.v1
title: Additional file 4 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 4. List of all predicted genes across metapangenomes endophytic microbiomes from 12 sampled Musa, by genotype, including full gene clusters and consolidated genes with duplicate copies and unannotated genes removed, showing additional root/leaf and pairwise genotype Venn data.
DOI: 10.6084/m9.figshare.26987215
title: Additional file 5 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 5. Enriched GO category results of shared and unshared root and leaf metapangenomes and core (shared) metapangenomes of root and leaf endophytic microbiomes from 6 Musa genotypes used in Venn diagrams.
DOI: 10.6084/m9.figshare.26987215.v1
title: Additional file 5 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 5. Enriched GO category results of shared and unshared root and leaf metapangenomes and core (shared) metapangenomes of root and leaf endophytic microbiomes from 6 Musa genotypes used in Venn diagrams.
DOI: 10.6084/m9.figshare.26987113.v1
title: Additional file 3 of A beginner’s guide on the use of brain organoids for neuroscientists: a systematic review

description: Additional file 3: Functional assays described in different brain organoid models. This file contains a table of the articles included for the functional assay analysis. Articles were analysed for the type of assay described, and for the method of organoid preparation. Articles with an * depict assembloid studies.
DOI: 10.6084/m9.figshare.26987128
title: Additional file 3 of A systematic review, umbrella review, and quality assessment on clinical translation of stem cell therapy for knee osteoarthritis: Are we there yet?

description: Additional file 3: Appendix 3. Registration status of clinical studies on stem cell therapy for KOA.
DOI: 10.6084/m9.figshare.26987173.v1
title: Additional file 10 of Dysregulation of hypoxia-inducible factor 1α in the sympathetic nervous system accelerates diabetic cardiomyopathy

description: Additional file 10: Dataset S1. RNA sequencing: differentially expressed protein coding genes (adjusted P-value padj &lt; 0.01, fold change (FC) &gt; 1.5 cutoff values). Dataset S2. g: Profiler analyses of differentially expressed genes.
DOI: 10.6084/m9.figshare.26987218.v1
title: Additional file 6 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 6. List of taxon matches and gene matches for which there was a signature of phylosymbiosis from for endophytic microbiomes of Musa samples, showing gene and taxon lists, counts, and complete DIAMOND blastx output.
DOI: 10.6084/m9.figshare.26987224
title: Additional file 2 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 2. All significant single CpGs.
DOI: 10.6084/m9.figshare.26987227
title: Additional file 3 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 3. All significant DMRs.
DOI: 10.6084/m9.figshare.26987212
title: Additional file 4 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 4. List of all predicted genes across metapangenomes endophytic microbiomes from 12 sampled Musa, by genotype, including full gene clusters and consolidated genes with duplicate copies and unannotated genes removed, showing additional root/leaf and pairwise genotype Venn data.
DOI: 10.6084/m9.figshare.26987224.v1
title: Additional file 2 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 2. All significant single CpGs.
DOI: 10.6084/m9.figshare.26987227.v1
title: Additional file 3 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 3. All significant DMRs.
DOI: 10.6084/m9.figshare.26987230
title: Additional file 4 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 4. Bootstrapping results for boys-only analyses.
DOI: 10.6084/m9.figshare.26987230.v1
title: Additional file 4 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 4. Bootstrapping results for boys-only analyses.
DOI: 10.6084/m9.figshare.26987218
title: Additional file 6 of Metapangenomics of wild and cultivated banana microbiome reveals a plethora of host-associated protective functions

description: Additional file 6. List of taxon matches and gene matches for which there was a signature of phylosymbiosis from for endophytic microbiomes of Musa samples, showing gene and taxon lists, counts, and complete DIAMOND blastx output.
DOI: 10.6084/m9.figshare.26987233
title: Additional file 5 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 5. Bootstrapping results for girls-only analyses.
DOI: 10.6084/m9.figshare.26987233.v1
title: Additional file 5 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 5. Bootstrapping results for girls-only analyses.
DOI: 10.6084/m9.figshare.26987236
title: Additional file 6 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 6. Transcription factor classification by JASPAR and MeDReaders.
DOI: 10.15468/dl.rdbxah
title: Occurrence Download

description: A dataset containing 807 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 },
 "TaxonKey is Ficus laurifolia Lam.",
 "Continent is Africa"
 ]
}

 The dataset includes 807 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011651-240906103802322/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.26987236.v1
title: Additional file 6 of The X-factor in ART: does the use of assisted reproductive technologies influence DNA methylation on the X chromosome?

description: Additional file 6. Transcription factor classification by JASPAR and MeDReaders.
DOI: 10.6084/m9.figshare.26987239
title: Additional file 1 of Quantitative evidence synthesis: a practical guide on meta-analysis, meta-regression, and publication bias tests for environmental sciences

description: Additional file 1: The survey of meta-analyses in environmnetal sciences.
DOI: 10.6084/m9.figshare.26987242
title: Additional file 2 of Quantitative evidence synthesis: a practical guide on meta-analysis, meta-regression, and publication bias tests for environmental sciences

description: Additional file 2: The hands-on R tutorial.
DOI: 10.6084/m9.figshare.26987239.v1
title: Additional file 1 of Quantitative evidence synthesis: a practical guide on meta-analysis, meta-regression, and publication bias tests for environmental sciences

description: Additional file 1: The survey of meta-analyses in environmnetal sciences.
DOI: 10.6084/m9.figshare.26987242.v1
title: Additional file 2 of Quantitative evidence synthesis: a practical guide on meta-analysis, meta-regression, and publication bias tests for environmental sciences

description: Additional file 2: The hands-on R tutorial.
DOI: 10.6084/m9.figshare.26987254.v1
title: Additional file 1 of Distribution of ticks in the Western Palearctic: an updated systematic review (2015–2021)

description: Additional file 1: Dataset S1. Extracted data for coordinate-referenced tick records in Europe from 2015 to 2021.
DOI: 10.6084/m9.figshare.26987254
title: Additional file 1 of Distribution of ticks in the Western Palearctic: an updated systematic review (2015–2021)

description: Additional file 1: Dataset S1. Extracted data for coordinate-referenced tick records in Europe from 2015 to 2021.
DOI: 10.15468/dl.4vnkr9
title: Occurrence Download

description: A dataset containing 678 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((0.11856 50.65447,1.46875 50.65447,1.46875 51.55061,0.11856 51.55061,0.11856 50.65447))",
 "TaxonKey is Lissotriton helveticus (Razoumovsky, 1789)"
 ]
}

 The dataset includes 678 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011652-240906103802322/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.26987275
title: Additional file 2 of Inulin diet uncovers complex diet-microbiota-immune cell interactions remodeling the gut epithelium

description: Additional file 2: Table S2. Cell markers for epithelial, immune and stromal cells diferentiation.
DOI: 10.6084/m9.figshare.26987275.v1
title: Additional file 2 of Inulin diet uncovers complex diet-microbiota-immune cell interactions remodeling the gut epithelium

description: Additional file 2: Table S2. Cell markers for epithelial, immune and stromal cells diferentiation.
DOI: 10.6084/m9.figshare.26987293
title: Additional file 2 of Patients with sporadic FTLD exhibit similar increases in lysosomal proteins and storage material as patients with FTD due to GRN mutations

description: Additional file 2: Tables of patient data.
DOI: 10.6084/m9.figshare.26987293.v1
title: Additional file 2 of Patients with sporadic FTLD exhibit similar increases in lysosomal proteins and storage material as patients with FTD due to GRN mutations

description: Additional file 2: Tables of patient data.
DOI: 10.6084/m9.figshare.26987320
title: Additional file 1 of COVID-19 HEART unveiling as atrial fibrillation: pathophysiology, management and future directions for research

description: Additional file 1. Drug-drug interactions in the management of Atrial fibrillation encountered in COVID-19 patients.
DOI: 10.6084/m9.figshare.26987320.v1
title: Additional file 1 of COVID-19 HEART unveiling as atrial fibrillation: pathophysiology, management and future directions for research

description: Additional file 1. Drug-drug interactions in the management of Atrial fibrillation encountered in COVID-19 patients.
DOI: 10.6084/m9.figshare.26987338
title: Additional file 6 of Development of a novel, entirely herbal-based mouthwash effective against common oral bacteria and SARS-CoV-2

description: Additional file 6. Detailed statistical results and p values for the SDS-PAGE, cytotoxicity and disc diffusion. assays.
DOI: 10.6084/m9.figshare.26987338.v1
title: Additional file 6 of Development of a novel, entirely herbal-based mouthwash effective against common oral bacteria and SARS-CoV-2

description: Additional file 6. Detailed statistical results and p values for the SDS-PAGE, cytotoxicity and disc diffusion. assays.
DOI: 10.6084/m9.figshare.26987371.v1
title: Additional file 3 of Telomere-to-Telomere genome assemblies of human-infecting Encephalitozoon species

description: Additional file 3: Table S1. Chromosome lengths, partitions, and features distributions. Table S2. Example of telomere adjacent repeats (TARE) found in the Encephalitozoon chromosomes. Table S3. Subtelomere proteins shared between human-infecting Encephalitozoon spp. Table S4. Summary of computational predictions used to infer proteins listed in Tables 1 and 2.
DOI: 10.6084/m9.figshare.26987371
title: Additional file 3 of Telomere-to-Telomere genome assemblies of human-infecting Encephalitozoon species

description: Additional file 3: Table S1. Chromosome lengths, partitions, and features distributions. Table S2. Example of telomere adjacent repeats (TARE) found in the Encephalitozoon chromosomes. Table S3. Subtelomere proteins shared between human-infecting Encephalitozoon spp. Table S4. Summary of computational predictions used to infer proteins listed in Tables 1 and 2.