cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh3285957.08fu
title: SH3285957.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3285958.08fu
title: SH3285958.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.6084/m9.figshare.5765268
title: Additional file 3: of Exposure to NO2, CO, and PM2.5 is linked to regional DNA methylation differences in asthma

description: Public data. (CSV 56Â kb)
DOI: 10.6084/m9.figshare.5765268.v1
title: Additional file 3: of Exposure to NO2, CO, and PM2.5 is linked to regional DNA methylation differences in asthma

description: Public data. (CSV 56Â kb)
DOI: 10.6084/m9.figshare.5765256
title: Additional file 2: of Exposure to NO2, CO, and PM2.5 is linked to regional DNA methylation differences in asthma

description: Code R. (R 71Â kb)
DOI: 10.6084/m9.figshare.5765256.v1
title: Additional file 2: of Exposure to NO2, CO, and PM2.5 is linked to regional DNA methylation differences in asthma

description: Code R. (R 71Â kb)
DOI: 10.6084/m9.figshare.5765187
title: Additional file 1: of Evaluation of the influence of kyphosis and scoliosis on intervertebral disc extrusion in French bulldogs

description: Demographic data, presence of intervertebral disc extrusion, hemivertebra, kyphosis, scoliosis and Cobb angle of 178 French bulldogs with our without intervertebral disc extrusion. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.5765187.v1
title: Additional file 1: of Evaluation of the influence of kyphosis and scoliosis on intervertebral disc extrusion in French bulldogs

description: Demographic data, presence of intervertebral disc extrusion, hemivertebra, kyphosis, scoliosis and Cobb angle of 178 French bulldogs with our without intervertebral disc extrusion. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.5765184
title: Additional file 1: of Computational approach to discriminate human and mouse sequences in patient-derived tumour xenografts

description: Molecular data generated -Â Table detailing which molecular data (WES, RNA-seq or RRBS) were generated for each sample included in the study. (XLSX 39Â kb)
DOI: 10.6084/m9.figshare.5765184.v1
title: Additional file 1: of Computational approach to discriminate human and mouse sequences in patient-derived tumour xenografts

description: Molecular data generated -Â Table detailing which molecular data (WES, RNA-seq or RRBS) were generated for each sample included in the study. (XLSX 39Â kb)
DOI: 10.6084/m9.figshare.5765139
title: Additional file 3: of Transcriptome analysis of response to Plasmodiophora brassicae infection in the Arabidopsis shoot and root

description: List of DEGs in several metabolism pathways and biological processes in Arabidopsis after P. brassicae infection. P-value was assigned as NA if there were not three counts for the gene (three replications) or the gene read contained an extreme count in one or more replicates. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.5765139.v1
title: Additional file 3: of Transcriptome analysis of response to Plasmodiophora brassicae infection in the Arabidopsis shoot and root

description: List of DEGs in several metabolism pathways and biological processes in Arabidopsis after P. brassicae infection. P-value was assigned as NA if there were not three counts for the gene (three replications) or the gene read contained an extreme count in one or more replicates. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.5765112
title: Additional file 1: of Transcriptome analysis of response to Plasmodiophora brassicae infection in the Arabidopsis shoot and root

description: List of primers that were used for qRT-PCR analysis. (XLS 30 kb)
DOI: 10.6084/m9.figshare.5765112.v1
title: Additional file 1: of Transcriptome analysis of response to Plasmodiophora brassicae infection in the Arabidopsis shoot and root

description: List of primers that were used for qRT-PCR analysis. (XLS 30 kb)
DOI: 10.6084/m9.figshare.5765073
title: Additional file 3 of Exploring the relationship between intron retention and chromatin accessibility in plants

description: SupplementaryFile_3.xlsx. This file provides a list of the footprint-exhibiting hexamers in arabidopsis that match motifs in the Plant Cistrom Database. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.5765073.v1
title: Additional file 3 of Exploring the relationship between intron retention and chromatin accessibility in plants

description: SupplementaryFile_3.xlsx. This file provides a list of the footprint-exhibiting hexamers in arabidopsis that match motifs in the Plant Cistrom Database. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.5765055
title: Additional file 2 of Inferring ontology graph structures using OWL reasoning

description: Comparison of semantic reasoning with and without transitive reduction. Supplementary file 2 contains full comparison results for semantically generated graphs with and without transitive reduction. (XLSX 66 kb)
DOI: 10.6084/m9.figshare.5765055.v1
title: Additional file 2 of Inferring ontology graph structures using OWL reasoning

description: Comparison of semantic reasoning with and without transitive reduction. Supplementary file 2 contains full comparison results for semantically generated graphs with and without transitive reduction. (XLSX 66 kb)
DOI: 10.6084/m9.figshare.5765052
title: Additional file 2 of Exploring the relationship between intron retention and chromatin accessibility in plants

description: SupplementaryFile_2.xlsx. This file lists footprint-exhibiting hexamers for all four individual samples in separate tabs for IR and IE events. In addition, the footprint-exhibiting hexamers common between the arabidopsis and rice leaf samples are provided in the last two tabs for IR and IE events, respectively. (XLSX 78 kb)
DOI: 10.6084/m9.figshare.5765052.v1
title: Additional file 2 of Exploring the relationship between intron retention and chromatin accessibility in plants

description: SupplementaryFile_2.xlsx. This file lists footprint-exhibiting hexamers for all four individual samples in separate tabs for IR and IE events. In addition, the footprint-exhibiting hexamers common between the arabidopsis and rice leaf samples are provided in the last two tabs for IR and IE events, respectively. (XLSX 78 kb)
DOI: 10.6084/m9.figshare.5765049
title: Additional file 2: Table S1. of Paediatric medical emergency calls to a Danish Emergency Medical Dispatch Centre: a retrospective, observational study

description: Assigned dispatch codes. A table showing the assigned dispatch code for every included paediatric medical emergency call. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.5765049.v1
title: Additional file 2: Table S1. of Paediatric medical emergency calls to a Danish Emergency Medical Dispatch Centre: a retrospective, observational study

description: Assigned dispatch codes. A table showing the assigned dispatch code for every included paediatric medical emergency call. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.5765031
title: Additional file 1 of Inferring ontology graph structures using OWL reasoning

description: Comparison of syntactic and semantic reasoning. Supplementary file 1 contains full comparison results for syntactically generated graphs against graphs generated through automated reasoning. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.5765031.v1
title: Additional file 1 of Inferring ontology graph structures using OWL reasoning

description: Comparison of syntactic and semantic reasoning. Supplementary file 1 contains full comparison results for syntactically generated graphs against graphs generated through automated reasoning. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.5764995
title: Additional file 4: of Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

description: Shows cancer driver genes identified by our method (319/895) that were found in at least two of the different methods considered. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5764995.v1
title: Additional file 4: of Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

description: Shows cancer driver genes identified by our method (319/895) that were found in at least two of the different methods considered. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5764974
title: Additional file 3: of Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

description: Shows 895 cancer driver genes. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.5764974.v1
title: Additional file 3: of Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

description: Shows 895 cancer driver genes. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.5764956
title: Additional file 2: of Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

description: Shows the results obtained by our method applied to the different networks identifying 1322 genes that are common in at least two networks. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.5764956.v1
title: Additional file 2: of Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

description: Shows the results obtained by our method applied to the different networks identifying 1322 genes that are common in at least two networks. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.5764941
title: Additional file 1: of Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

description: Shows potential driver genes for each pathway and network. (XLSX 415 kb)
DOI: 10.6084/m9.figshare.5764941.v1
title: Additional file 1: of Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis

description: Shows potential driver genes for each pathway and network. (XLSX 415 kb)
DOI: 10.6084/m9.figshare.5764902
title: Additional file 4: of Efficiency of different strategies to mitigate ascertainment bias when using SNP panels in diversity studies

description: The ENA accession numbers of all sequence reads used in the WGS data. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.5764902.v1
title: Additional file 4: of Efficiency of different strategies to mitigate ascertainment bias when using SNP panels in diversity studies

description: The ENA accession numbers of all sequence reads used in the WGS data. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.5764896
title: Additional file 9: Table S9. of RNAseq analysis of α-proteobacterium Gluconobacter oxydans 621H

description: List of primary sTSSs with −-10 and −-35 regions of promoter motifs predicted by Improbizer within 50 bases upstream of TSSs. (XLSX 100 kb)
DOI: 10.6084/m9.figshare.5764896.v1
title: Additional file 9: Table S9. of RNAseq analysis of α-proteobacterium Gluconobacter oxydans 621H

description: List of primary sTSSs with −-10 and −-35 regions of promoter motifs predicted by Improbizer within 50 bases upstream of TSSs. (XLSX 100 kb)
DOI: 10.6084/m9.figshare.5764878
title: Additional file 8: Table S8. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of nTSSs and novel transcripts. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.5764878.v1
title: Additional file 8: Table S8. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of nTSSs and novel transcripts. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.5764857
title: Additional file 2: Table S1. of A pilot study comparing the metabolic profiles of elite-level athletes from different sporting disciplines

description: Comparison of previously published metabolite changes in plasma at 60 min after completion of exercise [1] and their corresponding PC2 loading values obtained in this study. Table S2. Metabolites differentiating between moderate- and high-endurance athletes (p ≤ 0.05). Table S3. Metabolites differentiating between moderate- and high-endurance athletes (p ≤ 0.05) in males only. Table S4. Pearson’s Correlations between various sex steroid metabolites. Significant p values are highlighted (*
DOI: 10.6084/m9.figshare.5764857.v1
title: Additional file 2: Table S1. of A pilot study comparing the metabolic profiles of elite-level athletes from different sporting disciplines

description: Comparison of previously published metabolite changes in plasma at 60 min after completion of exercise [1] and their corresponding PC2 loading values obtained in this study. Table S2. Metabolites differentiating between moderate- and high-endurance athletes (p ≤ 0.05). Table S3. Metabolites differentiating between moderate- and high-endurance athletes (p ≤ 0.05) in males only. Table S4. Pearson’s Correlations between various sex steroid metabolites. Significant p values are highlighted (*
DOI: 10.6084/m9.figshare.5764851
title: Additional file 7: Table S7. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of asTSSs. (XLSX 100 kb)
DOI: 10.6084/m9.figshare.5764851.v1
title: Additional file 7: Table S7. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of asTSSs. (XLSX 100 kb)
DOI: 10.6084/m9.figshare.5764836
title: Additional file 6: Table S6. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of iTSSs. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.5764836.v1
title: Additional file 6: Table S6. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of iTSSs. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.5764830
title: Additional file 6: Figures S4A-D. of GM-CSF overexpression after influenza a virus infection prevents mortality and moderates M1-like airway monocyte/macrophage polarization

description: Characterization of the kinetics of BAL cytokines. Type I interferon (A), type II interferon (B), type III interferon (C), and IL-10 (D), were measured in BAL fluid from wild-type (WT, gray bars) or DTGM +Dox (red bars) mice by multiplex analysis (Luminex, https://www.luminexcorp.com ) at the indicated time points. (ZIP 74Â kb)
DOI: 10.6084/m9.figshare.5764830.v1
title: Additional file 6: Figures S4A-D. of GM-CSF overexpression after influenza a virus infection prevents mortality and moderates M1-like airway monocyte/macrophage polarization

description: Characterization of the kinetics of BAL cytokines. Type I interferon (A), type II interferon (B), type III interferon (C), and IL-10 (D), were measured in BAL fluid from wild-type (WT, gray bars) or DTGM +Dox (red bars) mice by multiplex analysis (Luminex, https://www.luminexcorp.com ) at the indicated time points. (ZIP 74Â kb)
DOI: 10.6084/m9.figshare.5764827
title: Additional file 1: of Efficiency of different strategies to mitigate ascertainment bias when using SNP panels in diversity studies

description: Zip file containing allele frequency spectrum figures of each population. (ZIP 11230Â kb)
DOI: 10.6084/m9.figshare.5764827.v1
title: Additional file 1: of Efficiency of different strategies to mitigate ascertainment bias when using SNP panels in diversity studies

description: Zip file containing allele frequency spectrum figures of each population. (ZIP 11230Â kb)
DOI: 10.6084/m9.figshare.5764824
title: Additional file 5: Table S5. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of pTSSs assigned to protein-coding ORFs. (XLSX 42 kb)
DOI: 10.6084/m9.figshare.5764824.v1
title: Additional file 5: Table S5. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of pTSSs assigned to protein-coding ORFs. (XLSX 42 kb)
DOI: 10.6084/m9.figshare.5764821
title: Additional file 5: Figure S3A and B. of GM-CSF overexpression after influenza a virus infection prevents mortality and moderates M1-like airway monocyte/macrophage polarization

description: Measurement of serum proteins in BAL fluid. Elevated levels of GM-CSF neither affected the quantity of mouse albumin (A) nor IgM (B) in BAL fluid at 10 and 14 days post-infection. (ZIP 39Â kb)
DOI: 10.6084/m9.figshare.5764821.v1
title: Additional file 5: Figure S3A and B. of GM-CSF overexpression after influenza a virus infection prevents mortality and moderates M1-like airway monocyte/macrophage polarization

description: Measurement of serum proteins in BAL fluid. Elevated levels of GM-CSF neither affected the quantity of mouse albumin (A) nor IgM (B) in BAL fluid at 10 and 14 days post-infection. (ZIP 39Â kb)
DOI: 10.6084/m9.figshare.5764818
title: Additional file 3: Figure S1. of What is the best adjustment of appendicular lean mass for predicting mortality or disability among Japanese community dwellers?

description: A. Estimated linear changes in ALM over 12 years by 4-year age groups at baseline. B. Estimated linear changes in ALM/leg length over 12 years by 4-year age groups at baseline. C. Estimated linear changes in ALM/height over 12 years by 4-year age groups at baseline. D. Estimated linear changes in ALM/height2 over 12 years by 4-year age groups at baseline. E. Estimated linear changes in ALM/weight over 12 years by 4-year age groups at baseline. F. Estimated linear changes in ALM/BMI over 12 years by 4-year age groups at baseline. (XLSX 181 kb)
DOI: 10.6084/m9.figshare.5764818.v1
title: Additional file 3: Figure S1. of What is the best adjustment of appendicular lean mass for predicting mortality or disability among Japanese community dwellers?

description: A. Estimated linear changes in ALM over 12 years by 4-year age groups at baseline. B. Estimated linear changes in ALM/leg length over 12 years by 4-year age groups at baseline. C. Estimated linear changes in ALM/height over 12 years by 4-year age groups at baseline. D. Estimated linear changes in ALM/height2 over 12 years by 4-year age groups at baseline. E. Estimated linear changes in ALM/weight over 12 years by 4-year age groups at baseline. F. Estimated linear changes in ALM/BMI over 12 years by 4-year age groups at baseline. (XLSX 181 kb)
DOI: 10.6084/m9.figshare.5764809
title: Additional file 4: Table S4. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of ORFs with corrected start codon ((n)sTSSs). (XLSX 20 kb)
DOI: 10.6084/m9.figshare.5764809.v1
title: Additional file 4: Table S4. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of ORFs with corrected start codon ((n)sTSSs). (XLSX 20 kb)
DOI: 10.6084/m9.figshare.5764806
title: Additional file 4: Figure S2A and B. of GM-CSF overexpression after influenza a virus infection prevents mortality and moderates M1-like airway monocyte/macrophage polarization

description: Characterization of the Double Transgenic GM-csf (DTGM) mouse model. In the absence of influenza A virus infection, GM-CSF levels (A) in bronchoalveolar lavage (BAL) fluid was low, near the limit of detection in littermate (LM) and DTGM mice. Upon influenza A virus infection DTGM mice without doxycycline-induction (DTGM noDox) demonstrate "leakiness" that corresponds to the peak of type II interferon levels at days 7-8 post-infection. DTGM +Dox mice demonstrate supra-physiologic levels of GM-CSF in BAL fluid at all time points after induction. DTGM mice were less susceptible to IAV infection (B) even in the absence of doxycycline induction, whereas doxycycline administration to LM mice had no effect. (ZIP 55Â kb)
DOI: 10.6084/m9.figshare.5764806.v1
title: Additional file 4: Figure S2A and B. of GM-CSF overexpression after influenza a virus infection prevents mortality and moderates M1-like airway monocyte/macrophage polarization

description: Characterization of the Double Transgenic GM-csf (DTGM) mouse model. In the absence of influenza A virus infection, GM-CSF levels (A) in bronchoalveolar lavage (BAL) fluid was low, near the limit of detection in littermate (LM) and DTGM mice. Upon influenza A virus infection DTGM mice without doxycycline-induction (DTGM noDox) demonstrate "leakiness" that corresponds to the peak of type II interferon levels at days 7-8 post-infection. DTGM +Dox mice demonstrate supra-physiologic levels of GM-CSF in BAL fluid at all time points after induction. DTGM mice were less susceptible to IAV infection (B) even in the absence of doxycycline induction, whereas doxycycline administration to LM mice had no effect. (ZIP 55Â kb)
DOI: 10.6084/m9.figshare.5764803
title: Additional file 2: Table S2. of What is the best adjustment of appendicular lean mass for predicting mortality or disability among Japanese community dwellers?

description: Mixed-effects analyses of fixed effects for ALM and 5 adjustments of ALM over 12Â years* (XLSX 27Â kb)
DOI: 10.6084/m9.figshare.5764803.v1
title: Additional file 2: Table S2. of What is the best adjustment of appendicular lean mass for predicting mortality or disability among Japanese community dwellers?

description: Mixed-effects analyses of fixed effects for ALM and 5 adjustments of ALM over 12Â years* (XLSX 27Â kb)
DOI: 10.6084/m9.figshare.5764785
title: Additional file 3: Table S3. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of sTSSs assigned to protein-coding ORFs. (XLSX 93 kb)
DOI: 10.6084/m9.figshare.5764785.v1
title: Additional file 3: Table S3. of RNAseq analysis of ฮฑ-proteobacterium Gluconobacter oxydans 621H

description: List of sTSSs assigned to protein-coding ORFs. (XLSX 93 kb)
DOI: 10.6084/m9.figshare.5764782
title: Additional file 3: Figures S1A-D. of GM-CSF overexpression after influenza a virus infection prevents mortality and moderates M1-like airway monocyte/macrophage polarization

description: Lethal dose 50% (LD50) determination of influenza virus strain A/Puerto Rico/8/1934 (PR8) in female (A, B) and male (C, D) mice, demonstrating an LD50 of 728 vs. 3728 fluorescent focus units (FFU) in female and males, respectively. (ZIP 87Â kb)
DOI: 10.6084/m9.figshare.5764782.v1
title: Additional file 3: Figures S1A-D. of GM-CSF overexpression after influenza a virus infection prevents mortality and moderates M1-like airway monocyte/macrophage polarization

description: Lethal dose 50% (LD50) determination of influenza virus strain A/Puerto Rico/8/1934 (PR8) in female (A, B) and male (C, D) mice, demonstrating an LD50 of 728 vs. 3728 fluorescent focus units (FFU) in female and males, respectively. (ZIP 87Â kb)