cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5834982.v1
title: Additional file 6: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Differential expression between control-diet sub-groups. List of genes that were differentially expressed between a subset of Finnsheep and Texel; Texel and F1 crosses; and Finnsheep and F1 crosses maintained on a control diet. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.5834979
title: Additional file 26: Table S25. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Constructed narrowed-down database. Dataset of annotated genes associated with Quercus robur and Quercus petraea, as found on the NCBI website. (XLSX 12886Â kb)
DOI: 10.6084/m9.figshare.5834979.v1
title: Additional file 26: Table S25. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Constructed narrowed-down database. Dataset of annotated genes associated with Quercus robur and Quercus petraea, as found on the NCBI website. (XLSX 12886Â kb)
DOI: 10.6084/m9.figshare.5834976
title: Additional file 2: Table S2. of An integrative functional genomics framework for effective identification of novel regulatory variants in genomeâ phenome studies

description: List of PheWAS SNPs located at phosphorylation sites. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5834976.v1
title: Additional file 2: Table S2. of An integrative functional genomics framework for effective identification of novel regulatory variants in genomeâ phenome studies

description: List of PheWAS SNPs located at phosphorylation sites. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5834964
title: Additional file 25: Table S24. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metaproteome analysis of all samples on peptide level. Peptide level read output from Proteome Discoverer software (Thermo Fisher Scientific) version 2.1 for each protein, with a confidence FDR
DOI: 10.6084/m9.figshare.5834964.v1
title: Additional file 25: Table S24. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metaproteome analysis of all samples on peptide level. Peptide level read output from Proteome Discoverer software (Thermo Fisher Scientific) version 2.1 for each protein, with a confidence FDR
DOI: 10.6084/m9.figshare.5834961
title: Additional file 5: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Differential expression between flushing-diet sub-groups. List of genes that were differentially expressed between a subset of Finnsheep and Texel; Finnsheep and F1 crosses; and Texel and F1 crosses maintained on a flushing diet. (XLSX 144 kb)
DOI: 10.6084/m9.figshare.5834961.v1
title: Additional file 5: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Differential expression between flushing-diet sub-groups. List of genes that were differentially expressed between a subset of Finnsheep and Texel; Finnsheep and F1 crosses; and Texel and F1 crosses maintained on a flushing diet. (XLSX 144 kb)
DOI: 10.6084/m9.figshare.5834958
title: Additional file 24: Table S23. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Geneset enrichment analysis results. Genesets identified as significantly differently expressed when comparing symptomatic to non-symptomatic samples, using the GSEA module of the GenePattern software (Broad Institute). (XLSX 1847Â kb)
DOI: 10.6084/m9.figshare.5834958.v1
title: Additional file 24: Table S23. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Geneset enrichment analysis results. Genesets identified as significantly differently expressed when comparing symptomatic to non-symptomatic samples, using the GSEA module of the GenePattern software (Broad Institute). (XLSX 1847Â kb)
DOI: 10.6084/m9.figshare.5834955
title: Additional file 1: Table S1. of An integrative functional genomics framework for effective identification of novel regulatory variants in genomeâ phenome studies

description: List of PheWAS SNPs located at ligand binding sites. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5834955.v1
title: Additional file 1: Table S1. of An integrative functional genomics framework for effective identification of novel regulatory variants in genomeâ phenome studies

description: List of PheWAS SNPs located at ligand binding sites. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5834952
title: Additional file 4: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Between-breed diet effect. List of genes that were differentially expressed between Finnsheep and Texel; Finnsheep and F1 crosses; and Texel and F1 crosses with diet as a second factor. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.5834952.v1
title: Additional file 4: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Between-breed diet effect. List of genes that were differentially expressed between Finnsheep and Texel; Finnsheep and F1 crosses; and Texel and F1 crosses with diet as a second factor. (XLSX 26 kb)
DOI: 10.6084/m9.figshare.5834949
title: Additional file 1: Table S1. of Evaluating antibody functional activity and strain-specificity of vaccine candidates for malaria in pregnancy using in vitro phagocytosis assays

description: The raw data supporting Fig. 1. (XLSX 37 kb)
DOI: 10.6084/m9.figshare.5834949.v1
title: Additional file 1: Table S1. of Evaluating antibody functional activity and strain-specificity of vaccine candidates for malaria in pregnancy using in vitro phagocytosis assays

description: The raw data supporting Fig. 1. (XLSX 37 kb)
DOI: 10.6084/m9.figshare.5834943
title: Additional file 23: Table S22. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Comparative gene expression analysis of metatranscriptomes. List of genes identified as significantly altered in expression comparing the metatranscriptomes of symptomatic to non-symptomatic samples, using the voom function in R (limma package). Reference database for gene annotations was Swissprot. (XLSX 37Â kb)
DOI: 10.6084/m9.figshare.5834943.v1
title: Additional file 23: Table S22. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Comparative gene expression analysis of metatranscriptomes. List of genes identified as significantly altered in expression comparing the metatranscriptomes of symptomatic to non-symptomatic samples, using the voom function in R (limma package). Reference database for gene annotations was Swissprot. (XLSX 37Â kb)
DOI: 10.6084/m9.figshare.5834940
title: Additional file 3: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Within-breed diet effect. List of genes that were differentially expressed between the two diet conditions in Finnsheep, Texel and F1 crosses. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.5834940.v1
title: Additional file 3: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Within-breed diet effect. List of genes that were differentially expressed between the two diet conditions in Finnsheep, Texel and F1 crosses. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.5834931
title: Additional file 22: Table S21. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Common core metatranscriptome of non-symptomatic tissue. Identified genes common to all non-symptomatic samples, but unidentified in symptomatic samples. Based on transcripts assembled using Trinity and annotated using Trinotate. Swissprot was used a reference database. (XLSX 22Â kb)
DOI: 10.6084/m9.figshare.5834931.v1
title: Additional file 22: Table S21. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Common core metatranscriptome of non-symptomatic tissue. Identified genes common to all non-symptomatic samples, but unidentified in symptomatic samples. Based on transcripts assembled using Trinity and annotated using Trinotate. Swissprot was used a reference database. (XLSX 22Â kb)
DOI: 10.6084/m9.figshare.5834928
title: Additional file 2: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Summary of sheep phenotype records that also includes all of the different blood plasma measurements. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.5834928.v1
title: Additional file 2: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Summary of sheep phenotype records that also includes all of the different blood plasma measurements. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.5834922
title: Additional file 21: Table S20. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Common core metatranscriptome of AOD symptomatic tissue. Identified genes common to all symptomatic samples, but unidentified in non-symptomatic samples. Based on transcripts assembled using Trinity and annotated using Trinotate. Swissprot was used a reference database. (XLSX 1420Â kb)
DOI: 10.6084/m9.figshare.5834922.v1
title: Additional file 21: Table S20. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Common core metatranscriptome of AOD symptomatic tissue. Identified genes common to all symptomatic samples, but unidentified in non-symptomatic samples. Based on transcripts assembled using Trinity and annotated using Trinotate. Swissprot was used a reference database. (XLSX 1420Â kb)
DOI: 10.6084/m9.figshare.5834910
title: MOESM7 of Genome-wide analysis reveals a role for TDG in estrogen receptor-mediated enhancer RNA transcription and 3-dimensional reorganization

description: Additional file 7. Gene-list of targets which bind TDG and are regulated by E2.
DOI: 10.6084/m9.figshare.5834910.v1
title: MOESM7 of Genome-wide analysis reveals a role for TDG in estrogen receptor-mediated enhancer RNA transcription and 3-dimensional reorganization

description: Additional file 7. Gene-list of targets which bind TDG and are regulated by E2.
DOI: 10.6084/m9.figshare.5834904
title: Additional file 16: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Summary of SNP annotations from miRNA data using the Ensembl VEP tool. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.5834904.v1
title: Additional file 16: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Summary of SNP annotations from miRNA data using the Ensembl VEP tool. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.5834898
title: Additional file 8 of Commensal microbiota modulate gene expression in the skin

description: Dataset S3. Results from gene ontology analysis. Each worksheet contains differential expression analysis results for features in the mentioned gene ontology categories. Blue and orange cells indicate significant DEGs with and without a twofold change difference in expression, respectively. (XLSX 367Â kb)
DOI: 10.6084/m9.figshare.5834898.v1
title: Additional file 8 of Commensal microbiota modulate gene expression in the skin

description: Dataset S3. Results from gene ontology analysis. Each worksheet contains differential expression analysis results for features in the mentioned gene ontology categories. Blue and orange cells indicate significant DEGs with and without a twofold change difference in expression, respectively. (XLSX 367Â kb)
DOI: 10.6084/m9.figshare.5834895
title: Additional file 20: Table S19. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metatranscriptomic gene annotation of sample ROW1â 2. Identified unique genes in the metatranscriptome of sample ROW1â 2, using transcripts assembled using Trinity and annotating using the Trinotate pipeline. Swissprot was used as reference database. (XLSX 1349Â kb)
DOI: 10.6084/m9.figshare.5834895.v1
title: Additional file 20: Table S19. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metatranscriptomic gene annotation of sample ROW1â 2. Identified unique genes in the metatranscriptome of sample ROW1â 2, using transcripts assembled using Trinity and annotating using the Trinotate pipeline. Swissprot was used as reference database. (XLSX 1349Â kb)
DOI: 10.6084/m9.figshare.5834889
title: Additional file 2: of A heel-strike real-time auditory feedback device to promote motor learning in children who have cerebral palsy: a pilot study to test device accuracy and feasibility to use a music and dance-based learning paradigm

description: Data for individual trials for children with CP (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.5834889.v1
title: Additional file 2: of A heel-strike real-time auditory feedback device to promote motor learning in children who have cerebral palsy: a pilot study to test device accuracy and feasibility to use a music and dance-based learning paradigm

description: Data for individual trials for children with CP (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.5834886
title: Additional file 15: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Summary of SNP annotations from mRNA data using the Ensembl VEP tool. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.5834886.v1
title: Additional file 15: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Summary of SNP annotations from mRNA data using the Ensembl VEP tool. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.5834880
title: Additional file 7: Table S2. of Commensal microbiota modulate gene expression in the skin

description: WGCNA gene module characterization. Top 5 significantly enriched biological process gene ontology terms (Bonferroni pÂ
DOI: 10.6084/m9.figshare.5834880.v1
title: Additional file 7: Table S2. of Commensal microbiota modulate gene expression in the skin

description: WGCNA gene module characterization. Top 5 significantly enriched biological process gene ontology terms (Bonferroni pÂ
DOI: 10.6084/m9.figshare.5834874
title: Additional file 1: Table S1. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metagenomic gene annotation of sample AT2. MG-RAST gene predictions for sample AT2, based on the Swissprot database. MG-RAST ID 4702452.3. (XLSX 497Â kb)
DOI: 10.6084/m9.figshare.5834874.v1
title: Additional file 1: Table S1. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metagenomic gene annotation of sample AT2. MG-RAST gene predictions for sample AT2, based on the Swissprot database. MG-RAST ID 4702452.3. (XLSX 497Â kb)
DOI: 10.6084/m9.figshare.5834871
title: MOESM5 of Genome-wide analysis reveals a role for TDG in estrogen receptor-mediated enhancer RNA transcription and 3-dimensional reorganization

description: Additional file 5. Motif analysis containing all sites of TDG binding.
DOI: 10.6084/m9.figshare.5834871.v1
title: MOESM5 of Genome-wide analysis reveals a role for TDG in estrogen receptor-mediated enhancer RNA transcription and 3-dimensional reorganization

description: Additional file 5. Motif analysis containing all sites of TDG binding.
DOI: 10.6084/m9.figshare.5834868
title: Additional file 1: of A heel-strike real-time auditory feedback device to promote motor learning in children who have cerebral palsy: a pilot study to test device accuracy and feasibility to use a music and dance-based learning paradigm

description: Data for individual trials for typically developing children (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5834868.v1
title: Additional file 1: of A heel-strike real-time auditory feedback device to promote motor learning in children who have cerebral palsy: a pilot study to test device accuracy and feasibility to use a music and dance-based learning paradigm

description: Data for individual trials for typically developing children (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.5834865
title: Additional file 14: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Annotation of novel miRNAs on the basis of cow and human homology. (XLSX 22 kb)
DOI: 10.6084/m9.figshare.5834865.v1
title: Additional file 14: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: Annotation of novel miRNAs on the basis of cow and human homology. (XLSX 22 kb)
DOI: 10.6084/m9.figshare.5834862
title: Additional file 6 of Commensal microbiota modulate gene expression in the skin

description: Dataset S2. Results from WGCNA analysis. Rows contain the features contained in each WGCNA module. Columns contain Ensembl feature id, gene symbol, module name, module color membership, gene significance (GS) for colonization condition (defined as the absolute value of the correlation between the feature and metadata) and associated p value, and module membership (MM) for each module (defined as the correlation of the module eigengene and the gene expression profile) and associated p value, the Entrez gene ID used for gene ontology analysis, and the differential gene expression status. (XLSX 8459Â kb)
DOI: 10.6084/m9.figshare.5834862.v1
title: Additional file 6 of Commensal microbiota modulate gene expression in the skin

description: Dataset S2. Results from WGCNA analysis. Rows contain the features contained in each WGCNA module. Columns contain Ensembl feature id, gene symbol, module name, module color membership, gene significance (GS) for colonization condition (defined as the absolute value of the correlation between the feature and metadata) and associated p value, and module membership (MM) for each module (defined as the correlation of the module eigengene and the gene expression profile) and associated p value, the Entrez gene ID used for gene ontology analysis, and the differential gene expression status. (XLSX 8459Â kb)
DOI: 10.6084/m9.figshare.5834859
title: Additional file 19: Table S18. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metatranscriptomic gene annotation of sample ROW1. Identified unique genes in the metatranscriptome of sample ROW1, using transcripts assembled using Trinity and annotating using the Trinotate pipeline. Swissprot was used as reference database. (XLSX 1123Â kb)
DOI: 10.6084/m9.figshare.5834859.v1
title: Additional file 19: Table S18. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metatranscriptomic gene annotation of sample ROW1. Identified unique genes in the metatranscriptome of sample ROW1, using transcripts assembled using Trinity and annotating using the Trinotate pipeline. Swissprot was used as reference database. (XLSX 1123Â kb)
DOI: 10.6084/m9.figshare.5834856
title: MOESM4 of Genome-wide analysis reveals a role for TDG in estrogen receptor-mediated enhancer RNA transcription and 3-dimensional reorganization

description: Additional file 4. Comparison of TDG peaks ENCODE Transcription Factors.
DOI: 10.6084/m9.figshare.5834856.v1
title: MOESM4 of Genome-wide analysis reveals a role for TDG in estrogen receptor-mediated enhancer RNA transcription and 3-dimensional reorganization

description: Additional file 4. Comparison of TDG peaks ENCODE Transcription Factors.
DOI: 10.6084/m9.figshare.5834850
title: Additional file 18: Table S17. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metatranscriptomic gene annotation of sample AT8. Identified unique genes in the metatranscriptome of sample AT8, using transcripts assembled using Trinity and annotating using the Trinotate pipeline. Swissprot was used as reference database. (XLSX 664Â kb)
DOI: 10.6084/m9.figshare.5834850.v1
title: Additional file 18: Table S17. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metatranscriptomic gene annotation of sample AT8. Identified unique genes in the metatranscriptome of sample AT8, using transcripts assembled using Trinity and annotating using the Trinotate pipeline. Swissprot was used as reference database. (XLSX 664Â kb)
DOI: 10.6084/m9.figshare.5834841
title: Additional file 13: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: List of miRNAs that were differentially expressed between Finnsheep and Texel on a flushing diet. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5834841.v1
title: Additional file 13: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: List of miRNAs that were differentially expressed between Finnsheep and Texel on a flushing diet. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5834832
title: Additional file 12: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: List of miRNAs that were differentially expressed between Finnsheep and Texel on a control diet. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5834832.v1
title: Additional file 12: of Integrated ovarian mRNA and miRNA transcriptome profiling characterizes the genetic basis of prolificacy traits in sheep (Ovis aries)

description: List of miRNAs that were differentially expressed between Finnsheep and Texel on a control diet. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5834829
title: Additional file 17: Table S16. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metatranscriptomic gene annotation of sample AT5. Identified unique genes in the metatranscriptome of sample AT5, using transcripts assembled using Trinity and annotating using the Trinotate pipeline. Swissprot was used as reference database. (XLSX 1134Â kb)
DOI: 10.6084/m9.figshare.5834829.v1
title: Additional file 17: Table S16. of Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

description: Metatranscriptomic gene annotation of sample AT5. Identified unique genes in the metatranscriptome of sample AT5, using transcripts assembled using Trinity and annotating using the Trinotate pipeline. Swissprot was used as reference database. (XLSX 1134Â kb)
DOI: 10.6084/m9.figshare.5834817
title: MOESM2 of Genome-wide analysis reveals a role for TDG in estrogen receptor-mediated enhancer RNA transcription and 3-dimensional reorganization

description: Additional file 2. External file sources used in study.
DOI: 10.6084/m9.figshare.5834817.v1
title: MOESM2 of Genome-wide analysis reveals a role for TDG in estrogen receptor-mediated enhancer RNA transcription and 3-dimensional reorganization

description: Additional file 2. External file sources used in study.