cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26989030.v1
title: Additional file 5 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 5: Table S3. Summary of SNPs correlated with ITDR in the CEZ. The result of tblastx giving the closest human Uniprot orthologue is indicated, as well as the results from SNP calling with GATK, variant prediction from SnpEff and the DEG obtained by DESeq2.
DOI: 10.6084/m9.figshare.26989033
title: Additional file 6 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 6: Table S4. a. List of the 159 SNPs in the 143 different contigs presenting a stop gained variants for the three level of contamination: Red (populations in the centre of the CEZ exposed to “higher” dose rate: A,C,D), Yellow (“medium” dose rate for populations BEF), Green (“lower” dose rates, for populations G,H). We indicate the p-value of the Fisher exact test for hardy–Weinberg equilibrium: green circle not significant, yellow circle significant with p-value ranging from 0.01 to 0.05, red circle significant with p-value &lt; 0.01. b. Number of significant Fisher exact test p-value for the three different radioactive contamination area (high = red; yellow = medium; green = low). c. Genotype distribution (Wt = wild type; + stop gained mutation) for the different genes presenting a p-value &lt; 0.01 and for the three different radioactive contamination area.
DOI: 10.6084/m9.figshare.26989033.v1
title: Additional file 6 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 6: Table S4. a. List of the 159 SNPs in the 143 different contigs presenting a stop gained variants for the three level of contamination: Red (populations in the centre of the CEZ exposed to “higher” dose rate: A,C,D), Yellow (“medium” dose rate for populations BEF), Green (“lower” dose rates, for populations G,H). We indicate the p-value of the Fisher exact test for hardy–Weinberg equilibrium: green circle not significant, yellow circle significant with p-value ranging from 0.01 to 0.05, red circle significant with p-value &lt; 0.01. b. Number of significant Fisher exact test p-value for the three different radioactive contamination area (high = red; yellow = medium; green = low). c. Genotype distribution (Wt = wild type; + stop gained mutation) for the different genes presenting a p-value &lt; 0.01 and for the three different radioactive contamination area.
DOI: 10.6084/m9.figshare.26989036
title: Additional file 7 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 7: Table S5. Functional enrichement of differentially expressed contigs in common after categorisation of population living in highly contaminated sites (named as cluster 1: A18, C18, D18 versus G18) and low contaminated sites (named as cluster 2: B18, E18, F18 versus G18). a. KEGG, b. Molecular Function, c. Biological Process.
DOI: 10.6084/m9.figshare.26989036.v1
title: Additional file 7 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 7: Table S5. Functional enrichement of differentially expressed contigs in common after categorisation of population living in highly contaminated sites (named as cluster 1: A18, C18, D18 versus G18) and low contaminated sites (named as cluster 2: B18, E18, F18 versus G18). a. KEGG, b. Molecular Function, c. Biological Process.
DOI: 10.6084/m9.figshare.26989042
title: Additional file 8 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 8: Table S6. Functional enrichment in each of the 9 clusters obtained by hierarchical clustering of differentially expressed contigs (n = 5,735). a. KEGG. b. Biological process. c: Molecular Function.
DOI: 10.6084/m9.figshare.26989042.v1
title: Additional file 8 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 8: Table S6. Functional enrichment in each of the 9 clusters obtained by hierarchical clustering of differentially expressed contigs (n = 5,735). a. KEGG. b. Biological process. c: Molecular Function.
DOI: 10.6084/m9.figshare.26989045
title: Additional file 9 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 9: Table S7. Enrichment of GO Biological Process after dose–response modelling of contig expression by Dromics.
DOI: 10.6084/m9.figshare.26989045.v1
title: Additional file 9 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 9: Table S7. Enrichment of GO Biological Process after dose–response modelling of contig expression by Dromics.
DOI: 10.6084/m9.figshare.26989048
title: Additional file 10 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 10: Table S8. Enrichment of GO Biological Process and GO Molecular functions in module eigengenes obtained from weighted gene co-expression network analysis.
DOI: 10.6084/m9.figshare.26989048.v1
title: Additional file 10 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 10: Table S8. Enrichment of GO Biological Process and GO Molecular functions in module eigengenes obtained from weighted gene co-expression network analysis.
DOI: 10.6084/m9.figshare.26989051
title: Additional file 11 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 11: Table S9. Enrichment of GO Biological Process functions in module eigengenes obtained from weighted gene co-expression network analysis using the matrix of expression filtered for lowly expressed genes and corrected by genetic distances.
DOI: 10.6084/m9.figshare.26989051.v1
title: Additional file 11 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 11: Table S9. Enrichment of GO Biological Process functions in module eigengenes obtained from weighted gene co-expression network analysis using the matrix of expression filtered for lowly expressed genes and corrected by genetic distances.
DOI: 10.6084/m9.figshare.26989054
title: Additional file 12 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 12: Table S10. Concentration of heavy metals and radionuclides measured on the two reference sites near Slavutych (G18 and H18). Recommended guidelines are indicated for each element (when existing). Na: Not available.
DOI: 10.6084/m9.figshare.26989054.v1
title: Additional file 12 of Population transcriptogenomics highlights impaired metabolism and small population sizes in tree frogs living in the Chernobyl Exclusion Zone

description: Additional file 12: Table S10. Concentration of heavy metals and radionuclides measured on the two reference sites near Slavutych (G18 and H18). Recommended guidelines are indicated for each element (when existing). Na: Not available.
DOI: 10.6084/m9.figshare.26989060
title: Additional file 2 of Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy

description: Additional file 2. Information about the 121 blood samples with clinical-demographic data of the patients and assignments to the GEO data set GSE190847.
DOI: 10.6084/m9.figshare.26989060.v1
title: Additional file 2 of Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy

description: Additional file 2. Information about the 121 blood samples with clinical-demographic data of the patients and assignments to the GEO data set GSE190847.
DOI: 10.6084/m9.figshare.26989063
title: Additional file 3 of Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy

description: Additional file 3. Comparison of CD19+ B-cell subpopulation frequencies between the 6 study groups.
DOI: 10.6084/m9.figshare.26989063.v1
title: Additional file 3 of Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy

description: Additional file 3. Comparison of CD19+ B-cell subpopulation frequencies between the 6 study groups.
DOI: 10.6084/m9.figshare.26989066
title: Additional file 4 of Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy

description: Additional file 4. The transcriptome data for B cells of patients with MS and healthy controls with average expression levels per group, results of the differential gene expression analyses and cluster memberships.
DOI: 10.6084/m9.figshare.26989066.v1
title: Additional file 4 of Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy

description: Additional file 4. The transcriptome data for B cells of patients with MS and healthy controls with average expression levels per group, results of the differential gene expression analyses and cluster memberships.
DOI: 10.6084/m9.figshare.26989069
title: Additional file 5 of Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy

description: Additional file 5. Enrichment of Gene Ontology terms for each gene cluster.
DOI: 10.18150/8mp6kp
title: Transcriptome Profile of the Rat Adrenal Gland: Parenchymal and Interstitial Cells

description: Experimental data from a published article entitled "Transcriptome Profile of Rat Adrenal Gland: Parenchymal and Interstitial Cells". This dataset contains transcriptomic data of gene expression from the zona glomerulosa (ZG), zona fasciculata/reticularis (ZF/R) and adrenal medulla (M) of adult male Wistar rats.
DOI: 10.6084/m9.figshare.26989069.v1
title: Additional file 5 of Transcriptome alterations in peripheral blood B cells of patients with multiple sclerosis receiving immune reconstitution therapy

description: Additional file 5. Enrichment of Gene Ontology terms for each gene cluster.
DOI: 10.6084/m9.figshare.26989084.v1
title: Additional file 1 of Fixators dynamization for delayed union and non-union of femur and tibial fractures: a review of techniques, timing and influence factors

description: Additional file 1. Supplementary table S1: Summary of intramedullary nail dynamization.
DOI: 10.6084/m9.figshare.26989084
title: Additional file 1 of Fixators dynamization for delayed union and non-union of femur and tibial fractures: a review of techniques, timing and influence factors

description: Additional file 1. Supplementary table S1: Summary of intramedullary nail dynamization.
DOI: 10.5517/ccdc.csd.cc29hr6s
title: CCDC 2130295: Experimental Crystal Structure Determination

description: Related Article: Yu Ye, Shulei Wu, Zaoduan Wu, Qianqian Lei, Xuan Yang, Hongyu Cai, Tao Jiang, Yuxuan Chen, Mingzu Dai, Zehua Yang|2024|J.Organomet.Chem.|1020|123346|doi:10.1016/j.jorganchem.2024.123346
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.26989099
title: Additional file 4 of Genomic insights into biased allele loss and increased gene numbers after genome duplication in autotetraploid Cyclocarya paliurus

description: Additional file 4. 104 breakpoints across the autotetraploid genome.
DOI: 10.6084/m9.figshare.26989099.v1
title: Additional file 4 of Genomic insights into biased allele loss and increased gene numbers after genome duplication in autotetraploid Cyclocarya paliurus

description: Additional file 4. 104 breakpoints across the autotetraploid genome.
DOI: 10.6084/m9.figshare.26989102
title: Additional file 5 of Genomic insights into biased allele loss and increased gene numbers after genome duplication in autotetraploid Cyclocarya paliurus

description: Additional file 5: Table S11. Details of 102 significantly upregulated genes in autotetraploid C. paliurus.
DOI: 10.6084/m9.figshare.26989102.v1
title: Additional file 5 of Genomic insights into biased allele loss and increased gene numbers after genome duplication in autotetraploid Cyclocarya paliurus

description: Additional file 5: Table S11. Details of 102 significantly upregulated genes in autotetraploid C. paliurus.
DOI: 10.6084/m9.figshare.26989111
title: Additional file 2 of Regulatory changes associated with the head to trunk developmental transition

description: Additional file 2: Table S1. Complete differential analysis results of RNA-seq datasets.
DOI: 10.6084/m9.figshare.26989111.v1
title: Additional file 2 of Regulatory changes associated with the head to trunk developmental transition

description: Additional file 2: Table S1. Complete differential analysis results of RNA-seq datasets.
DOI: 10.6084/m9.figshare.26989117
title: Additional file 4 of Regulatory changes associated with the head to trunk developmental transition

description: Additional file 4: Table S3. Complete differential analysis results of ATAC-seq E7.5 and E8.5 wild type datasets.
DOI: 10.6084/m9.figshare.26989117.v1
title: Additional file 4 of Regulatory changes associated with the head to trunk developmental transition

description: Additional file 4: Table S3. Complete differential analysis results of ATAC-seq E7.5 and E8.5 wild type datasets.
DOI: 10.6084/m9.figshare.26989120
title: Additional file 5 of Regulatory changes associated with the head to trunk developmental transition

description: Additional file 5: Table S5. Complete differential analysis results of ATAC-seq wild type and Raldh2-/- datasets.
DOI: 10.6084/m9.figshare.26989120.v1
title: Additional file 5 of Regulatory changes associated with the head to trunk developmental transition

description: Additional file 5: Table S5. Complete differential analysis results of ATAC-seq wild type and Raldh2-/- datasets.
DOI: 10.6084/m9.figshare.26989141
title: Additional file 1 of Eosinophils in the tumor microenvironment: implications for cancer immunotherapy

description: Additional file 1. The prognostic value of eosinophil-related indixes in cancer and cancer immunotherapy.
DOI: 10.6084/m9.figshare.26989141.v1
title: Additional file 1 of Eosinophils in the tumor microenvironment: implications for cancer immunotherapy

description: Additional file 1. The prognostic value of eosinophil-related indixes in cancer and cancer immunotherapy.
DOI: 10.15468/dl.uq8t9d
title: Occurrence Download

description: A dataset containing 327 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is South Africa",
 "Geometry POLYGON((18.99174 -29.60228,37.59037 -29.60228,37.59037 -22.16283,18.99174 -22.16283,18.99174 -29.60228))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Myrothamnus flabellifolius (Sond.) Welw."
 ]
}

 The dataset includes 327 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011667-240906103802322/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.26989126
title: Additional file 1 of Genome sequencing of 2000 canids by the Dog10K consortium advances the understanding of demography, genome function and architecture

description: Additional file 1: Table S1. Sample metadata and analyses where used. Table S2. Samples with high F2 allele sharing with wolves. Table S3. Variation yet to be discovered based on 100 samples per breed. Table S4. Breed group placement of each sample. Table S5. Runs of homozygosity (ROH) statistics per sample. Table S6. Publicly available test samples used to measure imputation accuracy. Table S7. Copy number variable genes. Table S8. Potential retrogenes. Table S9. Candidate genes either overlapping or within a 100kb distance of a significant site for each targeted ancestry. Table S10. iSAFE top 10 sites per selection signature and ancestry component. Table S11. Observed fraction of theoretically possible SNVs. Table S12. Alignment and filtering strategies for three panels of normal variation. Table S13. Breed categories included in three panels of normal variation. Table S14. Summary of variant counts in Dog10K sample sets. Table S15. Distribution of SNVs across functional classes and Dog10K sample sets. Table S16. Genotypes observed for 76 OMIA variants. Table S17. Allele frequency distributions detected in Dog10K for OMIA categories. Table S18. Variant positions deviating from HWE. Table S19. Animal protocols, approving board, and date of approval. Table S20. Summary of duplicate genes within NCBI release 106. Table S21. Samples used in Ohana selection analysis.
DOI: 10.6084/m9.figshare.26989126.v1
title: Additional file 1 of Genome sequencing of 2000 canids by the Dog10K consortium advances the understanding of demography, genome function and architecture

description: Additional file 1: Table S1. Sample metadata and analyses where used. Table S2. Samples with high F2 allele sharing with wolves. Table S3. Variation yet to be discovered based on 100 samples per breed. Table S4. Breed group placement of each sample. Table S5. Runs of homozygosity (ROH) statistics per sample. Table S6. Publicly available test samples used to measure imputation accuracy. Table S7. Copy number variable genes. Table S8. Potential retrogenes. Table S9. Candidate genes either overlapping or within a 100kb distance of a significant site for each targeted ancestry. Table S10. iSAFE top 10 sites per selection signature and ancestry component. Table S11. Observed fraction of theoretically possible SNVs. Table S12. Alignment and filtering strategies for three panels of normal variation. Table S13. Breed categories included in three panels of normal variation. Table S14. Summary of variant counts in Dog10K sample sets. Table S15. Distribution of SNVs across functional classes and Dog10K sample sets. Table S16. Genotypes observed for 76 OMIA variants. Table S17. Allele frequency distributions detected in Dog10K for OMIA categories. Table S18. Variant positions deviating from HWE. Table S19. Animal protocols, approving board, and date of approval. Table S20. Summary of duplicate genes within NCBI release 106. Table S21. Samples used in Ohana selection analysis.
DOI: 10.6084/m9.figshare.26989162
title: Additional file 2 of Long-read assembled metagenomic approaches improve our understanding on metabolic potentials of microbial community in mangrove sediments

description: Additional file 2: Dataset S1. Sheet1: Sample information; Sheet2: Stats of raw data; Sheet3: Microbial community estimated based on 16S rRNA (for Prokaryotes) and ITS (for Eukaryotes) by graftM search on SILVA database and blastn search on UNITE database, respectively; Sheet4: Specific genes of prokaryotic community.
DOI: 10.6084/m9.figshare.26989162.v1
title: Additional file 2 of Long-read assembled metagenomic approaches improve our understanding on metabolic potentials of microbial community in mangrove sediments

description: Additional file 2: Dataset S1. Sheet1: Sample information; Sheet2: Stats of raw data; Sheet3: Microbial community estimated based on 16S rRNA (for Prokaryotes) and ITS (for Eukaryotes) by graftM search on SILVA database and blastn search on UNITE database, respectively; Sheet4: Specific genes of prokaryotic community.
DOI: 10.6084/m9.figshare.26989165
title: Additional file 3 of Long-read assembled metagenomic approaches improve our understanding on metabolic potentials of microbial community in mangrove sediments

description: Additional file 3: Dataset S2. Sheet1: Assembly details of different sequencing methods; Sheet2: Stats of MAGs derived from different sequencing methods and refined MAGs; Sheet3: Draft MAGs used to compare the effects of different assemble methods; Sheet4: Classification, quality, details, coverage depth, and gene number of refined MAGs; Sheet5: Pathway completeness of all refined MAGs calculated by KEGGDecoder; Sheet6: Gene numbers of each pathway annotated by METABOLIC software; Sheet7: Glycoside hydrolases (GH) identified by CAZy searches of the MAGs. GH families that contain enzymes that are not specifically involved in degradation were specifically identified by Pfam or EC numbers in the annotations; Sheet8: Peptidase genes identified against MEROPS database by METABOLIC software; Sheet9: Anaerobic hydrocarbon degradation genes annotated by METABOLIC software.
DOI: 10.6084/m9.figshare.26989165.v1
title: Additional file 3 of Long-read assembled metagenomic approaches improve our understanding on metabolic potentials of microbial community in mangrove sediments

description: Additional file 3: Dataset S2. Sheet1: Assembly details of different sequencing methods; Sheet2: Stats of MAGs derived from different sequencing methods and refined MAGs; Sheet3: Draft MAGs used to compare the effects of different assemble methods; Sheet4: Classification, quality, details, coverage depth, and gene number of refined MAGs; Sheet5: Pathway completeness of all refined MAGs calculated by KEGGDecoder; Sheet6: Gene numbers of each pathway annotated by METABOLIC software; Sheet7: Glycoside hydrolases (GH) identified by CAZy searches of the MAGs. GH families that contain enzymes that are not specifically involved in degradation were specifically identified by Pfam or EC numbers in the annotations; Sheet8: Peptidase genes identified against MEROPS database by METABOLIC software; Sheet9: Anaerobic hydrocarbon degradation genes annotated by METABOLIC software.
DOI: 10.6084/m9.figshare.26989168
title: Additional file 4 of Long-read assembled metagenomic approaches improve our understanding on metabolic potentials of microbial community in mangrove sediments

description: Additional file 4: Dataset S3. Sheet1: The metabolic characteristics of the major fungal groups annotated against KEGG; Sheet2: Detail information of the carbohydrate-active enzyme family (CAZymes) detected in major fungal groups; Abbreviations: GH, glycosidases or glycosyl hydrolases; PL, polysaccharide lyases; CE, carbohydrate esterases; GT, glycosyltransferases; AA, auxiliary activities; CBM, carbohydrate binding modules; Sheet3: Detail information of the peptidase family genes detected in major fungal groups; Abbreviations: Aspartic (A), Cysteine (C), Metallo (M), Mixed (P), Serine (S) and Threonine (T).