cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3711562_d5.v1
title: Additional file 14: Table S10. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: Prediction results for all possible missense variants in the 13 human mtDNA-encoded polypeptides. Each mutation is described by its position in the revised Cambridge reference sequence (rCRS, NC_012920.1), base change, gene, codon position, wild type amino acid (WT AA), mutant amino acid (M AA), polypeptide amino acid position (AA position) and domain. Feat 1 to 3 indicates the numerical values for the four analyzed attributes. Mitoclass.1 prediction for each mutation is showed as well as PolyPhen-2 prediction and score. (XLS 4726 kb)
DOI: 10.6084/m9.figshare.c.3711565_d5
title: Additional file 5: Table S4. of Genetic affinities among the historical provinces of Romania and Central Europe as revealed by an mtDNA analysis

description: The Fst analyses based on the populations of Europe and Near East analyses. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.c.3711556_d4.v1
title: Additional file 13: Table S12. of Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

description: Primers used in the yeast two-hybrid (Y2H) analysis, subcellular colocalization of SlVPE3 and KTI4, and tobacco (N. benthamiana) expression of SlVPE3 and KTI4. (XLS 15Â kb)
DOI: 10.6084/m9.figshare.c.3711562_d5
title: Additional file 14: Table S10. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: Prediction results for all possible missense variants in the 13 human mtDNA-encoded polypeptides. Each mutation is described by its position in the revised Cambridge reference sequence (rCRS, NC_012920.1), base change, gene, codon position, wild type amino acid (WT AA), mutant amino acid (M AA), polypeptide amino acid position (AA position) and domain. Feat 1 to 3 indicates the numerical values for the four analyzed attributes. Mitoclass.1 prediction for each mutation is showed as well as PolyPhen-2 prediction and score. (XLS 4726 kb)
DOI: 10.6084/m9.figshare.c.3711556_d4
title: Additional file 13: Table S12. of Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

description: Primers used in the yeast two-hybrid (Y2H) analysis, subcellular colocalization of SlVPE3 and KTI4, and tobacco (N. benthamiana) expression of SlVPE3 and KTI4. (XLS 15Â kb)
DOI: 10.6084/m9.figshare.c.3711562_d6.v1
title: Additional file 1: Table S1. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: MtDNA missense variants.1 dataset (mdmv.1). Each mutation is described by its polypeptide RefSeq code (Code), gene (GENE), amino acid position within the polypeptide (AA position), wild type amino acid (WT AA), mutant amino acid (M AA), domain (Domain) and phenotype of the mutation (Phenotype). Numerical scores and predicted phenotypes for the three tested predictors (Provean, Mutpred and PolyPhen-2) are also included. (XLS 608 kb)
DOI: 10.6084/m9.figshare.c.3711562_d6
title: Additional file 1: Table S1. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: MtDNA missense variants.1 dataset (mdmv.1). Each mutation is described by its polypeptide RefSeq code (Code), gene (GENE), amino acid position within the polypeptide (AA position), wild type amino acid (WT AA), mutant amino acid (M AA), domain (Domain) and phenotype of the mutation (Phenotype). Numerical scores and predicted phenotypes for the three tested predictors (Provean, Mutpred and PolyPhen-2) are also included. (XLS 608 kb)
DOI: 10.6084/m9.figshare.c.3711556_d5.v1
title: Additional file 14: Table S13. of Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

description: Primers used for SlVPE3 mutagenesis. (XLS 13Â kb)
DOI: 10.6084/m9.figshare.c.3711556_d5
title: Additional file 14: Table S13. of Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

description: Primers used for SlVPE3 mutagenesis. (XLS 13Â kb)
DOI: 10.6084/m9.figshare.c.3711562_d10.v1
title: Additional file 5: Table S5. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: Training set before oversampling with SMOTE and validation set (each one in a different sheet of the file). Each mutation is described by its gene (GENE), amino acid position within the polypeptide (AA position), wild type amino acid (WT AA), mutant amino acid (M AA), domain (Domain) and phenotype of the mutation (Phenotype). (XLS 316 kb)
DOI: 10.6084/m9.figshare.c.3711562_d11.v1
title: Additional file 6: Table S6. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: Training set after oversampling with SMOTE. 1666 mutations are synthetic samples. Each mutation is described by its phenotype of the mutation (Phenotype), numerical scores for the three features (Feature_1, Feature_2, Feature_3), gene (GENE), amino acid position within the polypeptide (AA position), wild type amino acid (WT AA), mutant amino acid (M AA) and domain (Domain). (XLS 427 kb)
DOI: 10.6084/m9.figshare.c.3711562_d10
title: Additional file 5: Table S5. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: Training set before oversampling with SMOTE and validation set (each one in a different sheet of the file). Each mutation is described by its gene (GENE), amino acid position within the polypeptide (AA position), wild type amino acid (WT AA), mutant amino acid (M AA), domain (Domain) and phenotype of the mutation (Phenotype). (XLS 316 kb)
DOI: 10.6084/m9.figshare.c.3711562_d11
title: Additional file 6: Table S6. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: Training set after oversampling with SMOTE. 1666 mutations are synthetic samples. Each mutation is described by its phenotype of the mutation (Phenotype), numerical scores for the three features (Feature_1, Feature_2, Feature_3), gene (GENE), amino acid position within the polypeptide (AA position), wild type amino acid (WT AA), mutant amino acid (M AA) and domain (Domain). (XLS 427 kb)
DOI: 10.6084/m9.figshare.c.3711556_d10.v1
title: Additional file 5: Table S4. of Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

description: Similarities in the amino acid sequence of tomato vacuolar processing enzymes (VPEs). (XLS 16Â kb)
DOI: 10.6084/m9.figshare.c.3711556_d10
title: Additional file 5: Table S4. of Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

description: Similarities in the amino acid sequence of tomato vacuolar processing enzymes (VPEs). (XLS 16Â kb)
DOI: 10.6084/m9.figshare.c.3711562_d13.v1
title: Additional file 8: Table S7. of Machine learning classifier for identification of damaging missense mutations exclusive to human mitochondrial DNA-encoded polypeptides

description: Conservation Index (CI) in Eukaryota. Each score is described by its gene (GENE), amino acid position within the polypeptide (AA position) and wild type amino acid (WT AA) as well as number of ortholog sequences used in the multiple sequence alignment (Sequences). CI is described as a percentage. The revised Cambridge reference sequence (rCRS, NC_012920.1) was used to define the reference amino acid sequence of each gene. (XLS 453 kb)
DOI: 10.6084/m9.figshare.c.3711556_d11.v1
title: Additional file 6: Table S5. of Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

description: Identification of differentially expressed proteins in the SlVPE3 RNAi tomato fruit using iTRAQ-based quantitative proteomic analysis. (XLS 73Â kb)
DOI: 10.6084/m9.figshare.c.3711556_d11
title: Additional file 6: Table S5. of Post-transcriptional regulation of fruit ripening and disease resistance in tomato by the vacuolar protease SlVPE3

description: Identification of differentially expressed proteins in the SlVPE3 RNAi tomato fruit using iTRAQ-based quantitative proteomic analysis. (XLS 73Â kb)
DOI: 10.6084/m9.figshare.c.3711640_d1.v1
title: Additional file 1: of Melting pot of tick-borne zoonoses: the European hedgehog contributes to the maintenance of various tick-borne diseases in natural cycles urban and suburban areas

description: IGS sequences obtained in this study. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3711643_d1.v1
title: Additional file 1 of Benchmarking and refining probability-based models for nucleosome-DNA interaction

description: Mononucleotide distributions. Table in tab-separated format denoting the mononucleotide probability distributions generated by our Mutation Monte Carlo simulation. (TSV 6 kb)
DOI: 10.6084/m9.figshare.c.3711640_d1
title: Additional file 1: of Melting pot of tick-borne zoonoses: the European hedgehog contributes to the maintenance of various tick-borne diseases in natural cycles urban and suburban areas

description: IGS sequences obtained in this study. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3711640_d2.v1
title: Additional file 2: of Melting pot of tick-borne zoonoses: the European hedgehog contributes to the maintenance of various tick-borne diseases in natural cycles urban and suburban areas

description: groEL sequences obtained in this study. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3711643_d1
title: Additional file 1 of Benchmarking and refining probability-based models for nucleosome-DNA interaction

description: Mononucleotide distributions. Table in tab-separated format denoting the mononucleotide probability distributions generated by our Mutation Monte Carlo simulation. (TSV 6 kb)
DOI: 10.6084/m9.figshare.c.3711640_d2
title: Additional file 2: of Melting pot of tick-borne zoonoses: the European hedgehog contributes to the maintenance of various tick-borne diseases in natural cycles urban and suburban areas

description: groEL sequences obtained in this study. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3711643_d2.v1
title: Additional file 2 of Benchmarking and refining probability-based models for nucleosome-DNA interaction

description: Dinucleotide distributions. Table in tab-separated format denoting the dinucleotide probability distributions generated by our Mutation Monte Carlo simulation. (TSV 25 kb)
DOI: 10.15468/dl.k67vfm
title: Occurrence Download

description: A dataset containing 1582 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Caranx ruber (Bloch, 1793)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1900",
 "CoordinateUncertaintyInMeters is less than or equal to 10000"
 ]
}

 The dataset includes 1582 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038368-241126133413365/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.c.3711697_d1.v1
title: Additional file 1: Table S1. of Cyproterone acetate enhances TRAIL-induced androgen-independent prostate cancer cell apoptosis via up-regulation of death receptor 5

description: Primer pairs for RT-PCR or construction of plasmids. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3711697_d1
title: Additional file 1: Table S1. of Cyproterone acetate enhances TRAIL-induced androgen-independent prostate cancer cell apoptosis via up-regulation of death receptor 5

description: Primer pairs for RT-PCR or construction of plasmids. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3711706_d2
title: Additional file 11: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Total_cholesterol_significant_SNPS. (XLSX 92 kb)
DOI: 10.6084/m9.figshare.c.3711724_d1
title: Additional file 1: of Right ventricular ejection fraction measurements using two-dimensional transthoracic echocardiography by applying an ellipsoid model

description: RVEF calc for each observer. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3711712_d2
title: MOESM2 of ExCAPE-DB: an integrated large scale dataset facilitating Big Data analysis in chemogenomics

description: Additional file 2: Table S1. The list of selected activity types in the PubChem.
DOI: 10.6084/m9.figshare.c.3711706_d3.v1
title: Additional file 12: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Urea_significant_SNPS. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3711712_d3
title: MOESM3 of ExCAPE-DB: an integrated large scale dataset facilitating Big Data analysis in chemogenomics

description: Additional file 3: Table S2. The list of targets in the final dataset.
DOI: 10.6084/m9.figshare.c.3711706_d5.v1
title: Additional file 14: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Body_Fat_significant_SNPS. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3711706_d3
title: Additional file 12: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Urea_significant_SNPS. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3711706_d5
title: Additional file 14: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Body_Fat_significant_SNPS. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3711706_d4
title: Additional file 13: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Waist_Hip_Ratio_significant_SNPS. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.c.3711706_d8.v1
title: Additional file 3: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Body_Mass_Index_significant_SNPS. (XLSX 36 kb)
DOI: 10.6084/m9.figshare.c.3711706_d8
title: Additional file 3: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Body_Mass_Index_significant_SNPS. (XLSX 36 kb)
DOI: 10.6084/m9.figshare.c.3711706_d10.v1
title: Additional file 5: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Heart_Rate_significant_SNPS. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3711706_d9.v1
title: Additional file 4: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Diastolic_Blood_Pressure_significant_SNPS. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.c.3711706_d11.v1
title: Additional file 6: of Exploration of haplotype research consortium imputation for genome-wide association studies in 20,032 Generation Scotland participants

description: GS_HRC_imputed_Serum_Creatinine_significant_SNPS. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3712687_d3.v1
title: Additional file 3: of Analysis of the three-dimensional anatomical variance of the distal radius using 3D shape models

description: Animated illustrations of the first five modes of all radius models. A: Female left radii model; B: Female right radii model; C: Male left radii model; D: Male right radii model. (ZIP 9547 kb)
DOI: 10.6084/m9.figshare.c.3712687_d3
title: Additional file 3: of Analysis of the three-dimensional anatomical variance of the distal radius using 3D shape models

description: Animated illustrations of the first five modes of all radius models. A: Female left radii model; B: Female right radii model; C: Male left radii model; D: Male right radii model. (ZIP 9547 kb)
DOI: 10.15468/dl.gnpd42
title: Occurrence Download

description: A dataset containing 85 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Carapus acus (Brünnich, 1768)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1900",
 "CoordinateUncertaintyInMeters is less than or equal to 10000"
 ]
}

 The dataset includes 85 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038369-241126133413365/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.c.3712717_d3
title: Additional file 3: of Intestinal dysbiosis in preterm infants preceding necrotizing enterocolitis: a systematic review and meta-analysis

description: Characteristics of studies included in the meta-analysis. This excel document describes the details of the data from 8 studies that were included in the meta-analysis. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3712726_d1.v1
title: Additional file 10: of Analysis of triglyceride synthesis unveils a green algal soluble diacylglycerol acyltransferase and provides clues to potential enzymatic components of the chloroplast pathway

description: Phylogenetic analysis of DGAT3 and related proteins in algae and other representative taxa. (TXT 24 kb)
DOI: 10.6084/m9.figshare.c.3712717_d5.v1
title: Additional file 5: of Intestinal dysbiosis in preterm infants preceding necrotizing enterocolitis: a systematic review and meta-analysis

description: Zip file containing sequence data shared by authors for Mshvildadze [30], Mai [31], Normann [34], and Torraza [56]. (ZIP 83304Â kb)
DOI: 10.6084/m9.figshare.c.3712726_d2.v1
title: Additional file 1: of Analysis of triglyceride synthesis unveils a green algal soluble diacylglycerol acyltransferase and provides clues to potential enzymatic components of the chloroplast pathway

description: Sources of the proteome files used for TAG pathway biocomputational HHMER iterative profiling. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.c.3712726_d1
title: Additional file 10: of Analysis of triglyceride synthesis unveils a green algal soluble diacylglycerol acyltransferase and provides clues to potential enzymatic components of the chloroplast pathway

description: Phylogenetic analysis of DGAT3 and related proteins in algae and other representative taxa. (TXT 24 kb)
DOI: 10.6084/m9.figshare.c.3712735_d1.v1
title: Additional file 1: of Occupational exposure to particles and mitochondrial DNA - relevance for blood pressure

description: Raw data of mtDNA copy number and methylation in D-loop and MT-TF in Excel. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3712717_d5
title: Additional file 5: of Intestinal dysbiosis in preterm infants preceding necrotizing enterocolitis: a systematic review and meta-analysis

description: Zip file containing sequence data shared by authors for Mshvildadze [30], Mai [31], Normann [34], and Torraza [56]. (ZIP 83304Â kb)
DOI: 10.6084/m9.figshare.c.3712726_d2
title: Additional file 1: of Analysis of triglyceride synthesis unveils a green algal soluble diacylglycerol acyltransferase and provides clues to potential enzymatic components of the chloroplast pathway

description: Sources of the proteome files used for TAG pathway biocomputational HHMER iterative profiling. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.c.3712726_d3.v1
title: Additional file 2: of Analysis of triglyceride synthesis unveils a green algal soluble diacylglycerol acyltransferase and provides clues to potential enzymatic components of the chloroplast pathway

description: Number of LCAT superfamily homologous sequences identified in algae by HMMER iterative data mining. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.c.3712735_d1
title: Additional file 1: of Occupational exposure to particles and mitochondrial DNA - relevance for blood pressure

description: Raw data of mtDNA copy number and methylation in D-loop and MT-TF in Excel. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3712738_d4.v1
title: Additional file 4: of Asymmetric cellular memory in bacteria exposed to antibiotics

description: In the following plots the distribution of trait values at the end of a simulation of 10’000 individuals are shown. Each row corresponds to a single simulation run, each column to a trait. The title marks the type of environment that was used (see Fig. 6-9). Finding subpopulations with high basal protection in informative environments (Figure 8.1 right panel: blue bars with high basal protection) possibly indicates the evolution of a bet-hedging strategy. Figure S8.1. Trait distributions from single simulations in non-informative and informative environments. Trait (columns) distributions of the 20 simulation runs (rows) in a non-informative environment (left, see Fig. 7a) and 20 simulations runs in an informative environments (right, see Fig. 7b). Figure S8.2 Trait distributions from single simulations in one informative and two informative environments. Trait (columns) distributions of the 20 simulation runs (rows) in one informative environment (left, see Fig. 9a) and 20 simulations runs in two informative environments (right, see Fig. 9b). (ZIP 21 kb)
DOI: 10.6084/m9.figshare.c.3712738_d4
title: Additional file 4: of Asymmetric cellular memory in bacteria exposed to antibiotics

description: In the following plots the distribution of trait values at the end of a simulation of 10’000 individuals are shown. Each row corresponds to a single simulation run, each column to a trait. The title marks the type of environment that was used (see Fig. 6-9). Finding subpopulations with high basal protection in informative environments (Figure 8.1 right panel: blue bars with high basal protection) possibly indicates the evolution of a bet-hedging strategy. Figure S8.1. Trait distributions from single simulations in non-informative and informative environments. Trait (columns) distributions of the 20 simulation runs (rows) in a non-informative environment (left, see Fig. 7a) and 20 simulations runs in an informative environments (right, see Fig. 7b). Figure S8.2 Trait distributions from single simulations in one informative and two informative environments. Trait (columns) distributions of the 20 simulation runs (rows) in one informative environment (left, see Fig. 9a) and 20 simulations runs in two informative environments (right, see Fig. 9b). (ZIP 21 kb)
DOI: 10.6084/m9.figshare.c.3712726_d7.v1
title: Additional file 6: of Analysis of triglyceride synthesis unveils a green algal soluble diacylglycerol acyltransferase and provides clues to potential enzymatic components of the chloroplast pathway

description: Phylogenetic analysis of the LCAT superfamily in algae and other representative taxa. (TXT 49 kb)
DOI: 10.6084/m9.figshare.c.3712726_d7
title: Additional file 6: of Analysis of triglyceride synthesis unveils a green algal soluble diacylglycerol acyltransferase and provides clues to potential enzymatic components of the chloroplast pathway

description: Phylogenetic analysis of the LCAT superfamily in algae and other representative taxa. (TXT 49 kb)
DOI: 10.6084/m9.figshare.c.3712726_d8.v1
title: Additional file 7: of Analysis of triglyceride synthesis unveils a green algal soluble diacylglycerol acyltransferase and provides clues to potential enzymatic components of the chloroplast pathway

description: Phylogenetic analysis of the MBOAT superfamily in algae and other representative taxa. (TXT 68 kb)