cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.15178464.v1
title: Additional file 10 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 10. wCer1 variant calling. Reference position refers to the wCer1 genome position after the 16 contigs were joined in order. Reads from three libraries: RcerHB (sampled to 10 million reads), RcerIZ (all reads) and RcerAS (sampled to 26 milion reads), were mapped at 97% length and 97% similarity, and RcerIZ and RcerAS were mapped competitively to the genomes of wCer1 and wCer5; and wCer1, wCer2 and wCer5, respectively. Variants were called with a minimum cut-off of 35% frequency, so a frequency of 65% for a variant is considered homozygous. Location of SNPs within genes is based on PROKKA annotation, and determination of copy number (single or multiple copy) was based on Orthofinder assessment of orthogroups including wCer1, wAu and wMel genomes.
DOI: 10.6084/m9.figshare.15178467
title: Additional file 11 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 11. wCer5 variant calling. Reference position refers to the wCer5 genome position after the 57 contigs were joined in order. Reads from two libraries: RcerIZ (all reads) and RcerAS (all reads), were mapped at 97% length and 97% similarity, and RcerIZ and RcerAS were mapped competitively to the genomes of wCer1 and wCer5, and wCer1, wCer2 and wCer5, respectively. Variants were called with a minimum cut-off of 35% so a frequency of 65% for a variant is considered homozygous. Location of SNPs within genes is based on PROKKA annotation, and determination of copy number (single or multiple copy) was based on Orthofinder assessment of orthogroups including wCer5, wMeg and wPip genomes.
DOI: 10.6084/m9.figshare.15178467.v1
title: Additional file 11 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 11. wCer5 variant calling. Reference position refers to the wCer5 genome position after the 57 contigs were joined in order. Reads from two libraries: RcerIZ (all reads) and RcerAS (all reads), were mapped at 97% length and 97% similarity, and RcerIZ and RcerAS were mapped competitively to the genomes of wCer1 and wCer5, and wCer1, wCer2 and wCer5, respectively. Variants were called with a minimum cut-off of 35% so a frequency of 65% for a variant is considered homozygous. Location of SNPs within genes is based on PROKKA annotation, and determination of copy number (single or multiple copy) was based on Orthofinder assessment of orthogroups including wCer5, wMeg and wPip genomes.
DOI: 10.6084/m9.figshare.15178470.v1
title: Additional file 12 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 12. wCer2 variant calling. Reference position refers to the wCer2 genome position after the 11 contigs were joined in order. RcerAS (sampled to 87 million reads) was mapped competitively to the genomes of wCer1, wCer2 and wCer5, respectively at 97% length and 97% similarity. Variants were called with a minimum cut-off of 35% frequency.
DOI: 10.6084/m9.figshare.15178470
title: Additional file 12 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 12. wCer2 variant calling. Reference position refers to the wCer2 genome position after the 11 contigs were joined in order. RcerAS (sampled to 87 million reads) was mapped competitively to the genomes of wCer1, wCer2 and wCer5, respectively at 97% length and 97% similarity. Variants were called with a minimum cut-off of 35% frequency.
DOI: 10.6084/m9.figshare.15178476
title: Additional file 2 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 2. PHASTER identification of prophage regions in wCer1, wCer4 and wCer5.
DOI: 10.6084/m9.figshare.15178476.v1
title: Additional file 2 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 2. PHASTER identification of prophage regions in wCer1, wCer4 and wCer5.
DOI: 10.6084/m9.figshare.15178479
title: Additional file 3 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 3. cifA and cifB locus names from Wolbachia strains present in phylogeny.
DOI: 10.6084/m9.figshare.15178479.v1
title: Additional file 3 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 3. cifA and cifB locus names from Wolbachia strains present in phylogeny.
DOI: 10.6084/m9.figshare.15178482
title: Additional file 4 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 4. Mitochondrial genomes and the polymorphic sites between RcerHB (HT1a), RcerIZ (HT1b) and RcerAS (HT2).
DOI: 10.6084/m9.figshare.15178482.v1
title: Additional file 4 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 4. Mitochondrial genomes and the polymorphic sites between RcerHB (HT1a), RcerIZ (HT1b) and RcerAS (HT2).
DOI: 10.6084/m9.figshare.15178485
title: Additional file 5 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 5. Polymorphisms in mitogenomes of three complete mitogenomes of RcerHB (HT1a), RcerIZ (HT1b) and RcerAS (HT2) and an additional 46 samples with SNP representation at 12 of these poymorphic sites from ddRadSeq data. Sample names and location are from Bakovic et al [53], together with associated data.
DOI: 10.6084/m9.figshare.15178485.v1
title: Additional file 5 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 5. Polymorphisms in mitogenomes of three complete mitogenomes of RcerHB (HT1a), RcerIZ (HT1b) and RcerAS (HT2) and an additional 46 samples with SNP representation at 12 of these poymorphic sites from ddRadSeq data. Sample names and location are from Bakovic et al [53], together with associated data.
DOI: 10.6084/m9.figshare.15178488
title: Additional file 6 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 6. PERMANOVA of mitochondrial genetic distances between samples grouped by presence of Wolbachia strains.
DOI: 10.6084/m9.figshare.15178488.v1
title: Additional file 6 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 6. PERMANOVA of mitochondrial genetic distances between samples grouped by presence of Wolbachia strains.
DOI: 10.6084/m9.figshare.15178491
title: Additional file 7 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 7. FASTA aligned wCer1 consensus sequences from RcerHB, RcerIZ and RcerAS.
DOI: 10.6084/m9.figshare.15178491.v1
title: Additional file 7 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 7. FASTA aligned wCer1 consensus sequences from RcerHB, RcerIZ and RcerAS.
DOI: 10.6084/m9.figshare.15178494.v1
title: Additional file 8 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 8. FASTA aligned wCer5 consensus sequences from RcerIZ and RcerAS.
DOI: 10.6084/m9.figshare.15178497
title: Additional file 9 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 9. FASTA aligned wCer2 consensus sequences from RcerAS, DsimRC45, DsimRC50 and Ccap88.6.
DOI: 10.6084/m9.figshare.15178494
title: Additional file 8 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 8. FASTA aligned wCer5 consensus sequences from RcerIZ and RcerAS.
DOI: 10.6084/m9.figshare.15178497.v1
title: Additional file 9 of Genome analyses of four Wolbachia strains and associated mitochondria of Rhagoletis cerasi expose cumulative modularity of cytoplasmic incompatibility factors and cytoplasmic hitchhiking across host populations

description: Additional file 9. FASTA aligned wCer2 consensus sequences from RcerAS, DsimRC45, DsimRC50 and Ccap88.6.
DOI: 10.6084/m9.figshare.15178499
title: Additional file 1 of RNA-Seq analysis reveals potential regulators of programmed cell death and leaf remodelling in lace plant (Aponogeton madagascariensis)

description: Additional file 1: Dataset S1. Mapping rates of Trinity assembly.
DOI: 10.6084/m9.figshare.15178499.v1
title: Additional file 1 of RNA-Seq analysis reveals potential regulators of programmed cell death and leaf remodelling in lace plant (Aponogeton madagascariensis)

description: Additional file 1: Dataset S1. Mapping rates of Trinity assembly.
DOI: 10.6084/m9.figshare.15178505
title: Additional file 3 of RNA-Seq analysis reveals potential regulators of programmed cell death and leaf remodelling in lace plant (Aponogeton madagascariensis)

description: Additional file 3: Dataset S2. Leaf stage cluster annotation, median expression values, GO term counts and GO enrichment results.
DOI: 10.6084/m9.figshare.15178505.v1
title: Additional file 3 of RNA-Seq analysis reveals potential regulators of programmed cell death and leaf remodelling in lace plant (Aponogeton madagascariensis)

description: Additional file 3: Dataset S2. Leaf stage cluster annotation, median expression values, GO term counts and GO enrichment results.
DOI: 10.6084/m9.figshare.15178511
title: Additional file 5 of RNA-Seq analysis reveals potential regulators of programmed cell death and leaf remodelling in lace plant (Aponogeton madagascariensis)

description: Additional file 5: Dataset S3. NPCD and PCD cell cluster annotation, median expression values, GO term counts, and GO enrichment results.
DOI: 10.6084/m9.figshare.15178511.v1
title: Additional file 5 of RNA-Seq analysis reveals potential regulators of programmed cell death and leaf remodelling in lace plant (Aponogeton madagascariensis)

description: Additional file 5: Dataset S3. NPCD and PCD cell cluster annotation, median expression values, GO term counts, and GO enrichment results.
DOI: 10.6084/m9.figshare.15178514
title: Additional file 6 of RNA-Seq analysis reveals potential regulators of programmed cell death and leaf remodelling in lace plant (Aponogeton madagascariensis)

description: Additional file 6: Dataset S6. qRT-PCR primer information.
DOI: 10.6084/m9.figshare.15178514.v1
title: Additional file 6 of RNA-Seq analysis reveals potential regulators of programmed cell death and leaf remodelling in lace plant (Aponogeton madagascariensis)

description: Additional file 6: Dataset S6. qRT-PCR primer information.
DOI: 10.6084/m9.figshare.15178637.v1
title: Additional file 1 of Transcriptome sequencing and differential expression analysis of seed starch accumulation in Chinese chestnut Metaxenia

description: Additional file 1: Figure S1. Pearson correlation between samples. Figure S2. DEGs and GO annotations in different stages of seeds from three pollination combinations. A: DEGs in different stages. B: GO annotations in different stages. Figure S3. WGCNA of all KEGG pathways. A: Hierarchical clustering of unigenes and module identification. B: Relationships between gene modules and sample groups. Table S1. Statistical analysis of transcriptome sequencing in seeds from three pollination combinations. Table S2. The ten most enriched KO terms of each group are listed.
DOI: 10.6084/m9.figshare.15178637
title: Additional file 1 of Transcriptome sequencing and differential expression analysis of seed starch accumulation in Chinese chestnut Metaxenia

description: Additional file 1: Figure S1. Pearson correlation between samples. Figure S2. DEGs and GO annotations in different stages of seeds from three pollination combinations. A: DEGs in different stages. B: GO annotations in different stages. Figure S3. WGCNA of all KEGG pathways. A: Hierarchical clustering of unigenes and module identification. B: Relationships between gene modules and sample groups. Table S1. Statistical analysis of transcriptome sequencing in seeds from three pollination combinations. Table S2. The ten most enriched KO terms of each group are listed.
DOI: 10.6084/m9.figshare.15178647
title: Additional file 1 of Educational level, ethnicity and mortality rates in Israel: national data linkage study

description: Supplementary tables for paper_new_3. Table S1: Causes of death by educational status and sex (numbers of deaths)Table S2: Causes of death by educational status and population group (percentage and numbers of deaths). Table S3: Hazard ratios from separate cox regression models predicting risk of death by cause for Jews and Others and Arabs aged 25-64 at baseline with 95% confidence interval (CI). Table S4: Hazard ratios from cox regression model predicting risk of death by cause with 95% confidence interval (CI) aged 25-54 at baseline.Table S5: Health influencing factors from the Social Surveys of 2017 and 2010 by educational status (percentage)
DOI: 10.6084/m9.figshare.15178647.v1
title: Additional file 1 of Educational level, ethnicity and mortality rates in Israel: national data linkage study

description: Supplementary tables for paper_new_3. Table S1: Causes of death by educational status and sex (numbers of deaths)Table S2: Causes of death by educational status and population group (percentage and numbers of deaths). Table S3: Hazard ratios from separate cox regression models predicting risk of death by cause for Jews and Others and Arabs aged 25-64 at baseline with 95% confidence interval (CI). Table S4: Hazard ratios from cox regression model predicting risk of death by cause with 95% confidence interval (CI) aged 25-54 at baseline.Table S5: Health influencing factors from the Social Surveys of 2017 and 2010 by educational status (percentage)
DOI: 10.6084/m9.figshare.15178686
title: Additional file 2 of Nanopore sequencing reveals endogenous NMD-targeted isoforms in human cells

description: Additional file 2. Supplemental table 1.
DOI: 10.6084/m9.figshare.15178686.v1
title: Additional file 2 of Nanopore sequencing reveals endogenous NMD-targeted isoforms in human cells

description: Additional file 2. Supplemental table 1.
DOI: 10.6084/m9.figshare.15178709
title: Additional file 2 of Needle penetration test - qualifying examination of 3D printable silicones for vascular models in surgical practice

description: Additional file 2. 3D models.
DOI: 10.6084/m9.figshare.15178709.v1
title: Additional file 2 of Needle penetration test - qualifying examination of 3D printable silicones for vascular models in surgical practice

description: Additional file 2. 3D models.
DOI: 10.6084/m9.figshare.15178715
title: Additional file 2 of A targeted multi-omics approach reveals paraoxonase-1 as a determinant of obesity-associated fatty liver disease

description: Additional file 2. Supplementary statistics table.
DOI: 10.6084/m9.figshare.15178715.v1
title: Additional file 2 of A targeted multi-omics approach reveals paraoxonase-1 as a determinant of obesity-associated fatty liver disease

description: Additional file 2. Supplementary statistics table.
DOI: 10.6084/m9.figshare.15178731
title: Additional file 2 of Straglr: discovering and genotyping tandem repeat expansions using whole genome long-read sequences

description: Additional file 2. Supplementary Table S2. Software versions and parameters used in all analysis in this manuscript.
DOI: 10.6084/m9.figshare.15178734
title: Additional file 3 of Straglr: discovering and genotyping tandem repeat expansions using whole genome long-read sequences

description: Additional file 3. Size estimates of target loci from both PacBio proprietary analysis and Straglr for all sequencing reads in No-Amp targeted sequencing data. (TSV 862 kb)
DOI: 10.6084/m9.figshare.15178734.v1
title: Additional file 3 of Straglr: discovering and genotyping tandem repeat expansions using whole genome long-read sequences

description: Additional file 3. Size estimates of target loci from both PacBio proprietary analysis and Straglr for all sequencing reads in No-Amp targeted sequencing data. (TSV 862 kb)
DOI: 10.6084/m9.figshare.15178731.v1
title: Additional file 2 of Straglr: discovering and genotyping tandem repeat expansions using whole genome long-read sequences

description: Additional file 2. Supplementary Table S2. Software versions and parameters used in all analysis in this manuscript.
DOI: 10.6084/m9.figshare.15178788
title: Additional file 1 of Description of the use of multicriteria to support pricing and reimbursement decisions by European health technology assessment bodies

description: Additional file 1.
DOI: 10.6084/m9.figshare.15178788.v1
title: Additional file 1 of Description of the use of multicriteria to support pricing and reimbursement decisions by European health technology assessment bodies

description: Additional file 1.
DOI: 10.6084/m9.figshare.15178796
title: Additional file 3 of Hepatitis B vaccination coverage in Germany: systematic review

description: Additional file 3. Table of study characteristics. Study characteristics of included publications.
DOI: 10.6084/m9.figshare.15178796.v1
title: Additional file 3 of Hepatitis B vaccination coverage in Germany: systematic review

description: Additional file 3. Table of study characteristics. Study characteristics of included publications.
DOI: 10.6084/m9.figshare.15178799.v1
title: Additional file 4 of Hepatitis B vaccination coverage in Germany: systematic review

description: Additional file 4. Table of risk of bias assessment. Risk assessment of included publications.
DOI: 10.6084/m9.figshare.15178799
title: Additional file 4 of Hepatitis B vaccination coverage in Germany: systematic review

description: Additional file 4. Table of risk of bias assessment. Risk assessment of included publications.
DOI: 10.6084/m9.figshare.15178814
title: Additional file 3 of Prevalence of arbovirus antibodies in young healthy adult population in Brazil

description: Additional file 3: Table S3. Dengue seroprevalence in Brazil reported between 1980 and 2020.
DOI: 10.6084/m9.figshare.15178814.v1
title: Additional file 3 of Prevalence of arbovirus antibodies in young healthy adult population in Brazil

description: Additional file 3: Table S3. Dengue seroprevalence in Brazil reported between 1980 and 2020.
DOI: 10.6084/m9.figshare.15178812
title: Additional file 1 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 1: Table S1. IEI Candidate Genes without Filter.
DOI: 10.6084/m9.figshare.15178812.v1
title: Additional file 1 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 1: Table S1. IEI Candidate Genes without Filter.
DOI: 10.6084/m9.figshare.15178815
title: Additional file 2 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 2: Table S2. IEI Candidate Genes with high (&gt;.9) pLI Filter.
DOI: 10.6084/m9.figshare.15178815.v1
title: Additional file 2 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 2: Table S2. IEI Candidate Genes with high (&gt;.9) pLI Filter.
DOI: 10.6084/m9.figshare.15178818
title: Additional file 3 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 3: Table S3. IEI Candidate Genes with Average in all Immune Cells &gt; 0 TPM Filter.
DOI: 10.6084/m9.figshare.15178818.v1
title: Additional file 3 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 3: Table S3. IEI Candidate Genes with Average in all Immune Cells &gt; 0 TPM Filter.
DOI: 10.6084/m9.figshare.15178821.v1
title: Additional file 4 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 4: Table S4. IEI Candidate Genes with Average in B Cells &gt; 1 TPM Filter.
DOI: 10.6084/m9.figshare.15178821
title: Additional file 4 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 4: Table S4. IEI Candidate Genes with Average in B Cells &gt; 1 TPM Filter.
DOI: 10.6084/m9.figshare.15178824
title: Additional file 5 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 5: Table S5. IEI Candidate Genes with Average in DCs &gt; 1 TPM Filter.
DOI: 10.6084/m9.figshare.15178827
title: Additional file 6 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 6: Table S6. IEI Candidate Genes with Average in Myeloid Cells &gt; 1 TPM Filter.
DOI: 10.6084/m9.figshare.15178824.v1
title: Additional file 5 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 5: Table S5. IEI Candidate Genes with Average in DCs &gt; 1 TPM Filter.
DOI: 10.6084/m9.figshare.15178827.v1
title: Additional file 6 of Expanding the potential genes of inborn errors of immunity through protein interactions

description: Additional file 6: Table S6. IEI Candidate Genes with Average in Myeloid Cells &gt; 1 TPM Filter.