cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.15110118
title: Additional file 4 of Increased abundance of secreted hydrolytic enzymes and secondary metabolite gene clusters define the genomes of latent plant pathogens in the Botryosphaeriaceae

description: Additional file 4.
DOI: 10.6084/m9.figshare.15110118.v1
title: Additional file 4 of Increased abundance of secreted hydrolytic enzymes and secondary metabolite gene clusters define the genomes of latent plant pathogens in the Botryosphaeriaceae

description: Additional file 4.
DOI: 10.6084/m9.figshare.15110098
title: Additional file 10 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 10: Table S10. Summary of candidate biomarkers of molt.
DOI: 10.6084/m9.figshare.15110098.v1
title: Additional file 10 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 10: Table S10. Summary of candidate biomarkers of molt.
DOI: 10.6084/m9.figshare.15110101
title: Additional file 1 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 1: Table S1. Top 5 DGE (under and over-expressed) and DTU genes across the 23 Ginkkoridak tissues.
DOI: 10.6084/m9.figshare.15110101.v1
title: Additional file 1 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 1: Table S1. Top 5 DGE (under and over-expressed) and DTU genes across the 23 Ginkkoridak tissues.
DOI: 10.6084/m9.figshare.15110104
title: Additional file 2 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 2: Table S2. DGE (under and over-expressed) and DTU genes present in at least 3 tissues in male Ginkkoridak.
DOI: 10.6084/m9.figshare.15110104.v1
title: Additional file 2 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 2: Table S2. DGE (under and over-expressed) and DTU genes present in at least 3 tissues in male Ginkkoridak.
DOI: 10.6084/m9.figshare.15110107.v1
title: Additional file 3 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 3: Table S3 A. Expression pattern for genes altered during molt in male and female Ginkkoridak blood. Table S3 B. Expression pattern for genes up-regulated during molt in both male and female blood.
DOI: 10.6084/m9.figshare.15110110
title: Additional file 4 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 4: Table S4 A. Expression pattern for genes altered during molt in male Ginkkoridak in at least two of the epithelial tissues cluster (craw, tongue, earlobe, shin skin, muscle and tail skins). Table S4 B. Expression pattern for genes altered during molt in male Ginkkoridak in at least two of the nervous tissues cluster (cerebrum, cerebellum, hypothalamus, eye, meninges).
DOI: 10.6084/m9.figshare.15110107
title: Additional file 3 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 3: Table S3 A. Expression pattern for genes altered during molt in male and female Ginkkoridak blood. Table S3 B. Expression pattern for genes up-regulated during molt in both male and female blood.
DOI: 10.6084/m9.figshare.15110110.v1
title: Additional file 4 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 4: Table S4 A. Expression pattern for genes altered during molt in male Ginkkoridak in at least two of the epithelial tissues cluster (craw, tongue, earlobe, shin skin, muscle and tail skins). Table S4 B. Expression pattern for genes altered during molt in male Ginkkoridak in at least two of the nervous tissues cluster (cerebrum, cerebellum, hypothalamus, eye, meninges).
DOI: 10.6084/m9.figshare.15110113
title: Additional file 5 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 5: Table S5 A. Overall mapping data of miRNA in Ginkkoridak blood. Table S5 B. Sequence length distribution.
DOI: 10.6084/m9.figshare.15110113.v1
title: Additional file 5 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 5: Table S5 A. Overall mapping data of miRNA in Ginkkoridak blood. Table S5 B. Sequence length distribution.
DOI: 10.6084/m9.figshare.15110116
title: Additional file 6 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 6: Table S6 A. Identified miRNAs from all samples in Ginkkoridak blood. Table S6 B. Differentially expressed miRNAs in Ginkkoridak. (Before molt VS During molt).
DOI: 10.6084/m9.figshare.15110116.v1
title: Additional file 6 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 6: Table S6 A. Identified miRNAs from all samples in Ginkkoridak blood. Table S6 B. Differentially expressed miRNAs in Ginkkoridak. (Before molt VS During molt).
DOI: 10.6084/m9.figshare.15110119
title: Additional file 7 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 7: Table S7. Target genes of the Differentially Expressed miRNAs.
DOI: 10.6084/m9.figshare.15110119.v1
title: Additional file 7 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 7: Table S7. Target genes of the Differentially Expressed miRNAs.
DOI: 10.6084/m9.figshare.15110122
title: Additional file 8 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 8: Table S8 A. Overlap genes between miRNA Target genes & mRNAs (oppisite direction of expression between miRNAs and mRNAs). Table S8 B. Significant miRNA-mRNA pairs (Spearman’s Rank Correlation Analysis).
DOI: 10.6084/m9.figshare.15110122.v1
title: Additional file 8 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 8: Table S8 A. Overlap genes between miRNA Target genes & mRNAs (oppisite direction of expression between miRNAs and mRNAs). Table S8 B. Significant miRNA-mRNA pairs (Spearman’s Rank Correlation Analysis).
DOI: 10.6084/m9.figshare.15110125
title: Additional file 9 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 9: Table S9. Expression pattern for significant overlap genes altered during molt in male and female Ginkkoridak blood.
DOI: 10.6084/m9.figshare.15110125.v1
title: Additional file 9 of The transcriptomic blueprint of molt in rooster using various tissues from Ginkkoridak (Korean long-tailed chicken)

description: Additional file 9: Table S9. Expression pattern for significant overlap genes altered during molt in male and female Ginkkoridak blood.
DOI: 10.6084/m9.figshare.15110146.v1
title: Additional file 2 of Host adaptation in gut Firmicutes is associated with sporulation loss and altered transmission cycle

description: Additional file 2: Table S1. Genomes used in this study. Table S2. Functionally enriched genes in Spore-Formers and Former-Spore-Formers. Table S3. Erysipelotrichaceae isolates and culture collection accession numbers used for Biolog experiments. Table S4. Carbon sources used by isolates in Biolog experiments. Table S5. Metagenomes and metadata used to estimate abundance and prevalence of Spore-Formers and Former-Spore-Formers.
DOI: 10.6084/m9.figshare.15110146
title: Additional file 2 of Host adaptation in gut Firmicutes is associated with sporulation loss and altered transmission cycle

description: Additional file 2: Table S1. Genomes used in this study. Table S2. Functionally enriched genes in Spore-Formers and Former-Spore-Formers. Table S3. Erysipelotrichaceae isolates and culture collection accession numbers used for Biolog experiments. Table S4. Carbon sources used by isolates in Biolog experiments. Table S5. Metagenomes and metadata used to estimate abundance and prevalence of Spore-Formers and Former-Spore-Formers.
DOI: 10.6084/m9.figshare.15110161
title: Additional file 2 of Stressor controllability modulates the stress response in fish

description: Additional file 2. Raw data.
DOI: 10.6084/m9.figshare.15110161.v1
title: Additional file 2 of Stressor controllability modulates the stress response in fish

description: Additional file 2. Raw data.
DOI: 10.6084/m9.figshare.15110166
title: Additional file 2 of Regional effect on the molecular clock rate of protein evolution in Eutherian and Metatherian genomes

description: Additional file 2: Table S1. Species pairs for heatmaps in Fig. 3. 120 pairs of species can be formed from the 12 Eutheria and 4 Metatheria in our study. Here is a list coupling the number to pair of species.
DOI: 10.6084/m9.figshare.15110169
title: Additional file 3 of Regional effect on the molecular clock rate of protein evolution in Eutherian and Metatherian genomes

description: Additional file 3: Table S2. List of genes exceeding the threshold of a fast evolving set in Eutheria and Metatheria. There are 1,833 Eutherian genes above the threshold and 1,504 metatherian genes above the threshold. There are 345 common genes in the two gene sets.
DOI: 10.6084/m9.figshare.15110169.v1
title: Additional file 3 of Regional effect on the molecular clock rate of protein evolution in Eutherian and Metatherian genomes

description: Additional file 3: Table S2. List of genes exceeding the threshold of a fast evolving set in Eutheria and Metatheria. There are 1,833 Eutherian genes above the threshold and 1,504 metatherian genes above the threshold. There are 345 common genes in the two gene sets.
DOI: 10.6084/m9.figshare.15110181.v1
title: Additional file 6 of Regional effect on the molecular clock rate of protein evolution in Eutherian and Metatherian genomes

description: Additional file 6: Table S3. Transcript ID’s of all 16 used species. This file contains the list of the 15,727 used genes with NM/XM-numbers for all species used in our analysis.
DOI: 10.6084/m9.figshare.15110166.v1
title: Additional file 2 of Regional effect on the molecular clock rate of protein evolution in Eutherian and Metatherian genomes

description: Additional file 2: Table S1. Species pairs for heatmaps in Fig. 3. 120 pairs of species can be formed from the 12 Eutheria and 4 Metatheria in our study. Here is a list coupling the number to pair of species.
DOI: 10.6084/m9.figshare.15110181
title: Additional file 6 of Regional effect on the molecular clock rate of protein evolution in Eutherian and Metatherian genomes

description: Additional file 6: Table S3. Transcript ID’s of all 16 used species. This file contains the list of the 15,727 used genes with NM/XM-numbers for all species used in our analysis.
DOI: 10.6084/m9.figshare.15110173
title: Additional file 2 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 2. Metabolite datasets.
DOI: 10.6084/m9.figshare.15110173.v1
title: Additional file 2 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 2. Metabolite datasets.
DOI: 10.6084/m9.figshare.15110176
title: Additional file 3 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 3. Description samples (RNAseq, NB reads, categories, etc.).
DOI: 10.6084/m9.figshare.15110176.v1
title: Additional file 3 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 3. Description samples (RNAseq, NB reads, categories, etc.).
DOI: 10.6084/m9.figshare.15110179
title: Additional file 4 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 4. List of candidate genes (n=247) for aggregated human and mouse RNAseq data; Candidate genes (n=208) mouse only.
DOI: 10.6084/m9.figshare.15110182
title: Additional file 5 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 5. Pathways associated with gene expression using all samples. Pathways associated with gene expression restricted to mouse sequences.
DOI: 10.6084/m9.figshare.15110179.v1
title: Additional file 4 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 4. List of candidate genes (n=247) for aggregated human and mouse RNAseq data; Candidate genes (n=208) mouse only.
DOI: 10.6084/m9.figshare.15110182.v1
title: Additional file 5 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 5. Pathways associated with gene expression using all samples. Pathways associated with gene expression restricted to mouse sequences.
DOI: 10.6084/m9.figshare.15110185
title: Additional file 6 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 6. Candidate genes (n=185) associated with metabolites.
DOI: 10.6084/m9.figshare.15110188
title: Additional file 7 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 7. Pathways linked with metabolite associated gene expression.
DOI: 10.6084/m9.figshare.15110185.v1
title: Additional file 6 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 6. Candidate genes (n=185) associated with metabolites.
DOI: 10.6084/m9.figshare.15110188.v1
title: Additional file 7 of Metabolic and transcriptomic profiles of glioblastoma invasion revealed by comparisons between patients and corresponding orthotopic xenografts in mice

description: Additional file 7. Pathways linked with metabolite associated gene expression.
DOI: 10.6084/m9.figshare.15110241
title: Additional file 2 of Tracking the dissemination of Erwinia amylovora in the Eurasian continent using a PCR targeted on the duplication of a single CRISPR spacer

description: Additional file 2: Table S1. List of 82 genomes used for initial genotyping of the CRISPR repeat regions (Bühlmann 2015). The CRR1 genotype was marked in column A and color-coded according to the affiliation to the corresponding archetypal genotype. Table S2. List of isolates analyzed in this work and result of the PCR targeting the duplication of spacer 1029 (column A). Whenever the complete genome was available (*) the CRR1 genotype (Rezzonico et al. 2011) was reported and color-coded according to the affiliation to the corresponding archetypal genotype. Table S3. Distribution of isolates belonging to the A-derived, D-derived and PCR null genotypes in the countries analyzed in this work. Table S4. Comparison of the VNTR profiles between genome-sequenced isolates displaying the A-derived and the D-derived genotype (Bühlmann et al. 2014). Empty cells indicate missing microsatellite.
DOI: 10.6084/m9.figshare.15110241.v1
title: Additional file 2 of Tracking the dissemination of Erwinia amylovora in the Eurasian continent using a PCR targeted on the duplication of a single CRISPR spacer

description: Additional file 2: Table S1. List of 82 genomes used for initial genotyping of the CRISPR repeat regions (Bühlmann 2015). The CRR1 genotype was marked in column A and color-coded according to the affiliation to the corresponding archetypal genotype. Table S2. List of isolates analyzed in this work and result of the PCR targeting the duplication of spacer 1029 (column A). Whenever the complete genome was available (*) the CRR1 genotype (Rezzonico et al. 2011) was reported and color-coded according to the affiliation to the corresponding archetypal genotype. Table S3. Distribution of isolates belonging to the A-derived, D-derived and PCR null genotypes in the countries analyzed in this work. Table S4. Comparison of the VNTR profiles between genome-sequenced isolates displaying the A-derived and the D-derived genotype (Bühlmann et al. 2014). Empty cells indicate missing microsatellite.
DOI: 10.6084/m9.figshare.15110287
title: Additional file 1 of Integration of global metabolomics and lipidomics approaches reveals the molecular mechanisms and the potential biomarkers for postoperative recurrence in early-stage cholangiocarcinoma

description: Additional file 1: Fig. S1. Kaplan-Meier curves representing the correlation between patient characteristics with recurrence-free survival. (A-H) The result from the different groups relating to age, gender, tumor site, histology type, primary (T) tumor stage, lymph node (N) metastasis status, distant metastasis (M) status, TNM stage. p-value lower than 0.05 was considered as a significantly value. Fig. S2. Kaplan-Meier curves representing the correlation between patient characteristics with overall survival. (A-H) The result from the different groups representing age, gender, tumor site, histology type, primary (T) tumor stage, lymph node (N) metastasis status, distant metastasis (M) status, TNM stage. p-value lower than 0.05 was considered as a significantly value.
DOI: 10.6084/m9.figshare.15110290.v1
title: Additional file 1 of Genome-wide CNV investigation suggests a role for cadherin, Wnt, and p53 pathways in primary open-angle glaucoma

description: Additional file 1.
DOI: 10.6084/m9.figshare.15110287.v1
title: Additional file 1 of Integration of global metabolomics and lipidomics approaches reveals the molecular mechanisms and the potential biomarkers for postoperative recurrence in early-stage cholangiocarcinoma

description: Additional file 1: Fig. S1. Kaplan-Meier curves representing the correlation between patient characteristics with recurrence-free survival. (A-H) The result from the different groups relating to age, gender, tumor site, histology type, primary (T) tumor stage, lymph node (N) metastasis status, distant metastasis (M) status, TNM stage. p-value lower than 0.05 was considered as a significantly value. Fig. S2. Kaplan-Meier curves representing the correlation between patient characteristics with overall survival. (A-H) The result from the different groups representing age, gender, tumor site, histology type, primary (T) tumor stage, lymph node (N) metastasis status, distant metastasis (M) status, TNM stage. p-value lower than 0.05 was considered as a significantly value.
DOI: 10.6084/m9.figshare.15110290
title: Additional file 1 of Genome-wide CNV investigation suggests a role for cadherin, Wnt, and p53 pathways in primary open-angle glaucoma

description: Additional file 1.
DOI: 10.6084/m9.figshare.15110341
title: Additional file 17 of Apicidin biosynthesis is linked to accessory chromosomes in Fusarium poae isolates

description: Additional file 17. Compressed folder containing alignments for each of the 4141 orthologs used in BUSCO analysis.
DOI: 10.6084/m9.figshare.15110341.v1
title: Additional file 17 of Apicidin biosynthesis is linked to accessory chromosomes in Fusarium poae isolates

description: Additional file 17. Compressed folder containing alignments for each of the 4141 orthologs used in BUSCO analysis.
DOI: 10.6084/m9.figshare.15110347
title: Additional file 1 of Apicidin biosynthesis is linked to accessory chromosomes in Fusarium poae isolates

description: Additional file 1 Summary of all F. poae isolates screened in this study. Data includes DAOMC accession numbers, crop pathology codes, locations, country of origin, host crop type, groupings inferred by analysis of TEF1-α, TRI1 and TRI8 genes, and results from the APS1 PCR survey.
DOI: 10.6084/m9.figshare.15110347.v1
title: Additional file 1 of Apicidin biosynthesis is linked to accessory chromosomes in Fusarium poae isolates

description: Additional file 1 Summary of all F. poae isolates screened in this study. Data includes DAOMC accession numbers, crop pathology codes, locations, country of origin, host crop type, groupings inferred by analysis of TEF1-α, TRI1 and TRI8 genes, and results from the APS1 PCR survey.
DOI: 10.6084/m9.figshare.15110377
title: Additional file 7 of Apicidin biosynthesis is linked to accessory chromosomes in Fusarium poae isolates

description: Additional file 7. Matrix of averaged chemical phenotype data (all mass features included in analysis). Values represent detection frequencies averaged from 5 media conditions. Column headings (mass features) are in RT_m/z format, where RT refers to column retention time (minutes) and m/z is the mass/charge ratio (
DOI: 10.6084/m9.figshare.15110377.v1
title: Additional file 7 of Apicidin biosynthesis is linked to accessory chromosomes in Fusarium poae isolates

description: Additional file 7. Matrix of averaged chemical phenotype data (all mass features included in analysis). Values represent detection frequencies averaged from 5 media conditions. Column headings (mass features) are in RT_m/z format, where RT refers to column retention time (minutes) and m/z is the mass/charge ratio (
DOI: 10.5281/zenodo.5156745
title: LT-Brazil: A database of leaf traits across biomes and vegetation types in Brazil

description: The LT-Brazil data set contains observations of leaf mass per area, leaf N and P concentration per unit mass, and leaf N:P ratio from native woody species across the Brazilian territory, encompassing information of biome, vegetation, taxonomic data, geographical coordinates, climatic parameters, as well as soil properties. We compiled data from several geographical coordinates in native vegetation distributed across all biomes (<em>i.e.</em>, Amazônia, Caatinga, Cerrado, Mata Atlântica, Pampa, and Pantanal) found in Brazil. Our compilation was focused on native woody plants (<em>i.e.</em>, trees, shrubs, subshrubs, and lianas), excluding monocots, palm trees, herbs, and hemiparasitic plants. The compiled data set covers ~9% of woody angiosperm species of Brazil. Unidentified or mixed species were also considered when met our eligibility criteria. Contributions to expand this database can be performed through our repository at GitHub (https://github.com/emariano-git/lt-brazil.git). Major versions of the LT-Brazil data set will also be made available via the TRY Plant Trait Database (https://www.try-db.org).
description: This work was funded by the Fundação de Amparo à Pesquisa do Estado de São Paulo (Grant Number/Award 2011/50384-4, 2013/09800-0, 2015/18790-3, and 2015/50488-5). The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported here.
DOI: 10.6084/m9.figshare.14518260.v1
title: 210426 GDM muscle_Supplementary.docx

description: Higher muscle mass protects women with gestational diabetes mellitus from progression to type 2 diabetes mellitus