cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3663496_d5.v1
title: Additional file 4: Table S3. of Integrated RNA-seq and DNase-seq analyses identify phenotype-specific BMP4 signaling in breast cancer

description: Survival analysis of DEGs in MDA-MB-231. Table S4. Survival analysis of DEGs in T-47D. Each differentially expressed protein - coding gene was tested for possible association with the survival of breast cancer patients based on the gene expression data obtained from The Cancer Genome Atlas (TCGA). Blue background indicates DEGs shared by both cell lines. Benjamini-Hochberg corrected P-values are shown. No diff. = no association with survival. Not availableâ  =â  not found in TCGA data. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3663505_d2.v1
title: Additional file 3: Table S3. of Pregnant women carrying microcephaly foetuses and Zika virus contain potentially pathogenic microbes and parasites in their amniotic fluid

description: Adonis (PERMANOVA) results of taxonomic composition of AF metatranscriptomics (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3663520_d1.v1
title: Additional file 1: Table S1.ďťżďťżďťż of Granulocyte colony-stimulating factor (G-CSF) promotes spermatogenic regeneration from surviving spermatogonia after high-dose alkylating chemotherapy

description: This spreadsheet presents the raw results of histological analyses from all experiments. Columns list the numbers and percentages of seminiferous tubules that fall into each category as well as the number of round seminiferous tubules counted and the number of any tubules excluded from analyses. Rows present data for each animal grouped by experimental group and experiment. The summary portion of this table (at bottom) lists averages by experimental group and experiment from the raw data presented above. (XLSX 24 kb)
DOI: 10.6084/m9.figshare.c.3663520_d1
title: Additional file 1: Table S1.ďťżďťżďťż of Granulocyte colony-stimulating factor (G-CSF) promotes spermatogenic regeneration from surviving spermatogonia after high-dose alkylating chemotherapy

description: This spreadsheet presents the raw results of histological analyses from all experiments. Columns list the numbers and percentages of seminiferous tubules that fall into each category as well as the number of round seminiferous tubules counted and the number of any tubules excluded from analyses. Rows present data for each animal grouped by experimental group and experiment. The summary portion of this table (at bottom) lists averages by experimental group and experiment from the raw data presented above. (XLSX 24 kb)
DOI: 10.6084/m9.figshare.c.3663517_d3.v1
title: Additional file 2 of A double SIMEX approach for bivariate random-effects meta-analysis of diagnostic accuracy studies

description: R code for applying the SIMEX approach. (R 10.2 kb)
DOI: 10.6084/m9.figshare.c.3663529_d1.v1
title: Additional file 1: of Phylogenetic analysis of ionotropic L-glutamate receptor genes in the Bilateria, with special notes on Aplysia californica

description: iGluR protein accession numbers. Complete list of protein accession numbers of all iGluR proteins used to create phylogenies. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.c.3663517_d3
title: Additional file 2 of A double SIMEX approach for bivariate random-effects meta-analysis of diagnostic accuracy studies

description: R code for applying the SIMEX approach. (R 10.2 kb)
DOI: 10.6084/m9.figshare.c.3663529_d1
title: Additional file 1: of Phylogenetic analysis of ionotropic L-glutamate receptor genes in the Bilateria, with special notes on Aplysia californica

description: iGluR protein accession numbers. Complete list of protein accession numbers of all iGluR proteins used to create phylogenies. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.c.3663550_d1
title: Additional file 14: of An internet-based bioinformatics toolkit for plant biosecurity diagnosis and surveillance of viruses and viroids

description: VirFind contigs annotated with hits to viruses were run through the Yabi VSD toolkit pipeline. Top BLASTX hits (Evalueâ  =â  &lt; 1e-5) to a combined plant and virus protein database are reported. VirFind assembled contigs with a top hit to a plant virus are highlighted in green background. (XLSX 59Â kb)
DOI: 10.6084/m9.figshare.c.3663529_d3.v1
title: Additional file 2: of Phylogenetic analysis of ionotropic L-glutamate receptor genes in the Bilateria, with special notes on Aplysia californica

description: qPCR Primer Pairs. List of forward and reverse primers used to amplify unique qPCR products for each Aplysia iGluR gene and the Grin1-2 splice variant. All amplicons were 100â  150bp in length. (XLSX 53 kb)
DOI: 10.6084/m9.figshare.c.3663529_d3
title: Additional file 2: of Phylogenetic analysis of ionotropic L-glutamate receptor genes in the Bilateria, with special notes on Aplysia californica

description: qPCR Primer Pairs. List of forward and reverse primers used to amplify unique qPCR products for each Aplysia iGluR gene and the Grin1-2 splice variant. All amplicons were 100â  150bp in length. (XLSX 53 kb)
DOI: 10.6084/m9.figshare.c.3663550_d6
title: Additional file 4: of An internet-based bioinformatics toolkit for plant biosecurity diagnosis and surveillance of viruses and viroids

description: Paired sample t-test of contigs produced by SPAdes, Velvet, ABySS and SOAPdenovo assemblers. Our optimised ‘SPAdes K15-17-19_cap3’ (SPAdes assembly; dataset = 21–22 nt; kmer set =15,17 and 19; and scaffolded with CAP3) (SP22_K15-17-19_cap3) assembly was compared against all other kmer settings and/or tools. A) SPAdes - Longest assembled contigs (21–22 nt pipeline); B) SPAdes - Total number of assembled bases for contigs &gt; =100 nt (21–22 nt pipeline); C) SPAdes - Longest assembled contigs (21–25 nt pipeline); D) SPAdes - Total number of assembled bases for contigs &gt; =100 nt (21–25 nt pipeline); E) Comparison of longest assembled contig using Velvet against SP22_K15-17-19_cap3; F) Comparison of longest assembled contig using ABySS against SP22_K15-17-19_cap3; G) Comparison of longest assembled contig using SOAPdenovo against SP22_K15-17-19_cap3. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3663550_d8.v1
title: Additional file 12: of An internet-based bioinformatics toolkit for plant biosecurity diagnosis and surveillance of viruses and viroids

description: VirFind BLASTX results for contigs with sequence simalrity to viruses or viroids. (XLSX 50Â kb)
DOI: 10.6084/m9.figshare.c.3663550_d8
title: Additional file 12: of An internet-based bioinformatics toolkit for plant biosecurity diagnosis and surveillance of viruses and viroids

description: VirFind BLASTX results for contigs with sequence simalrity to viruses or viroids. (XLSX 50Â kb)
DOI: 10.6084/m9.figshare.c.3663550_d9.v1
title: Additional file 1: of An internet-based bioinformatics toolkit for plant biosecurity diagnosis and surveillance of viruses and viroids

description: Adaptor clipped and quality trimmed read statistics of small RNA-Seq datasets. Clean reads = Adaptor clipped small RNA reads provided by BGI service provider; QC = Quality Control consisting of adaptor clipping and poor base call trimming; n.a. = not available. (XLSX 44 kb)
DOI: 10.6084/m9.figshare.c.3663550_d9
title: Additional file 1: of An internet-based bioinformatics toolkit for plant biosecurity diagnosis and surveillance of viruses and viroids

description: Adaptor clipped and quality trimmed read statistics of small RNA-Seq datasets. Clean reads = Adaptor clipped small RNA reads provided by BGI service provider; QC = Quality Control consisting of adaptor clipping and poor base call trimming; n.a. = not available. (XLSX 44 kb)
DOI: 10.6084/m9.figshare.c.3663550_d11.v1
title: Additional file 11: of An internet-based bioinformatics toolkit for plant biosecurity diagnosis and surveillance of viruses and viroids

description: Summary of VirFind screening of small RNA-Seq datasets collected from quarantined plants. A) VirFind blastn results. Identified viruses/viroids were also identified using our VSD toolkit. B) VirFind blastx results. Identified viruses/viroids were only found using the VirFind pipeline. Hit to viruses from vertebrates, invertebrates, fungi or algae are shown in red background. (XLSX 38Â kb)
DOI: 10.6084/m9.figshare.c.3664462_d4.v1
title: Additional file 4: Table S4. of Identification and validation of differentially expressed transcripts by RNA-sequencing of formalin-fixed, paraffin-embedded (FFPE) lung tissue from patients with Idiopathic Pulmonary Fibrosis

description: IPF vs CTRL, RNA-Seq vs Microarrays, uploaded to Spotfire. (XLS 23589 kb)
DOI: 10.6084/m9.figshare.c.3664462_d4
title: Additional file 4: Table S4. of Identification and validation of differentially expressed transcripts by RNA-sequencing of formalin-fixed, paraffin-embedded (FFPE) lung tissue from patients with Idiopathic Pulmonary Fibrosis

description: IPF vs CTRL, RNA-Seq vs Microarrays, uploaded to Spotfire. (XLS 23589 kb)
DOI: 10.6084/m9.figshare.c.3664462_d5.v1
title: Additional file 6: Table S3. of Identification and validation of differentially expressed transcripts by RNA-sequencing of formalin-fixed, paraffin-embedded (FFPE) lung tissue from patients with Idiopathic Pulmonary Fibrosis

description: Enrichment pathway analysis MetaCore_common increased genes_microarrays vs RNA-Seq. (XLS 55 kb)
DOI: 10.6084/m9.figshare.c.3664462_d5
title: Additional file 6: Table S3. of Identification and validation of differentially expressed transcripts by RNA-sequencing of formalin-fixed, paraffin-embedded (FFPE) lung tissue from patients with Idiopathic Pulmonary Fibrosis

description: Enrichment pathway analysis MetaCore_common increased genes_microarrays vs RNA-Seq. (XLS 55 kb)
DOI: 10.6084/m9.figshare.c.3664462_d6.v1
title: Additional file 2: Table S5. of Identification and validation of differentially expressed transcripts by RNA-sequencing of formalin-fixed, paraffin-embedded (FFPE) lung tissue from patients with Idiopathic Pulmonary Fibrosis

description: NanoString validation. (XLS 71 kb)
DOI: 10.6084/m9.figshare.c.3665650_d2
title: MOESM1 of Brain metabolic pattern analysis using a magnetic resonance spectra classification software in experimental stroke

description: Additional file 1. Training set used for the infarct Evolution classifier. Contains data from 54 processed spectral data vectors corresponding to non-infarcted parenchyma (n=32), acute phase of infarct (n=13) and subacute phase of infarct spectra (n=9).
DOI: 10.6084/m9.figshare.c.3665656_d3.v1
title: Additional file 5: Table S3. of Genetic mechanisms of bone digestion and nutrient absorption in the bone-eating worm Osedax japonicus inferred from transcriptome and gene expression analyses

description: Significantly enriched gene ontology (GO) terms in the root transcriptome. (XLSX 45Â kb)
DOI: 10.6084/m9.figshare.c.3665650_d3.v1
title: MOESM4 of Brain metabolic pattern analysis using a magnetic resonance spectra classification software in experimental stroke

description: Additional file 4. Test set data used for the Brain Regions Classifier. Contains data from 56 processed spectral data vectors corresponding to non-infarcted parenchyma (n=16), SVZ (n=28) and infarcted parenchyma (n=12).
DOI: 10.6084/m9.figshare.c.3665650_d3
title: MOESM4 of Brain metabolic pattern analysis using a magnetic resonance spectra classification software in experimental stroke

description: Additional file 4. Test set data used for the Brain Regions Classifier. Contains data from 56 processed spectral data vectors corresponding to non-infarcted parenchyma (n=16), SVZ (n=28) and infarcted parenchyma (n=12).
DOI: 10.6084/m9.figshare.c.3665650_d4.v1
title: MOESM3 of Brain metabolic pattern analysis using a magnetic resonance spectra classification software in experimental stroke

description: Additional file 3. Training set data used for the Brain Regions Classifier. Contains data from 108 processed spectral data vectors corresponding to non-infarcted parenchyma (n=32), SVZ (n=54) and infarcted parenchyma (n=22).
DOI: 10.6084/m9.figshare.c.3665656_d3
title: Additional file 5: Table S3. of Genetic mechanisms of bone digestion and nutrient absorption in the bone-eating worm Osedax japonicus inferred from transcriptome and gene expression analyses

description: Significantly enriched gene ontology (GO) terms in the root transcriptome. (XLSX 45Â kb)
DOI: 10.6084/m9.figshare.c.3665647_d3.v1
title: Additional file 8: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: Details of rose-scented geranium transcripts related with the enzymes involved in anacardic acid biosynthesis. (XLSX 29 kb)
DOI: 10.6084/m9.figshare.c.3665656_d5.v1
title: Additional file 2: Table S1. of Genetic mechanisms of bone digestion and nutrient absorption in the bone-eating worm Osedax japonicus inferred from transcriptome and gene expression analyses

description: Summary of the transcriptome analysis. (XLSX 41Â kb)
DOI: 10.6084/m9.figshare.c.3665647_d4.v1
title: Additional file 10: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: Details of rose-scented geranium transcripts related with hormones. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3665647_d4
title: Additional file 10: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: Details of rose-scented geranium transcripts related with hormones. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3665650_d4
title: MOESM3 of Brain metabolic pattern analysis using a magnetic resonance spectra classification software in experimental stroke

description: Additional file 3. Training set data used for the Brain Regions Classifier. Contains data from 108 processed spectral data vectors corresponding to non-infarcted parenchyma (n=32), SVZ (n=54) and infarcted parenchyma (n=22).
DOI: 10.6084/m9.figshare.c.3665656_d5
title: Additional file 2: Table S1. of Genetic mechanisms of bone digestion and nutrient absorption in the bone-eating worm Osedax japonicus inferred from transcriptome and gene expression analyses

description: Summary of the transcriptome analysis. (XLSX 41Â kb)
DOI: 10.6084/m9.figshare.c.3665647_d3
title: Additional file 8: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: Details of rose-scented geranium transcripts related with the enzymes involved in anacardic acid biosynthesis. (XLSX 29 kb)
DOI: 10.6084/m9.figshare.c.3665656_d6.v1
title: Additional file 9: Table S6. of Genetic mechanisms of bone digestion and nutrient absorption in the bone-eating worm Osedax japonicus inferred from transcriptome and gene expression analyses

description: Primer sets and accession numbers of genes. (XLSX 53Â kb)
DOI: 10.6084/m9.figshare.c.3665647_d5.v1
title: Additional file 5: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: Details of rose-scented geranium transcripts matched with the A. thaliana protein database. (XLSX 2450 kb)
DOI: 10.6084/m9.figshare.c.3665656_d7.v1
title: Additional file 4: Table S2. of Genetic mechanisms of bone digestion and nutrient absorption in the bone-eating worm Osedax japonicus inferred from transcriptome and gene expression analyses

description: List of the root specific transcriptome. (XLSX 61Â kb)
DOI: 10.6084/m9.figshare.c.3665656_d6
title: Additional file 9: Table S6. of Genetic mechanisms of bone digestion and nutrient absorption in the bone-eating worm Osedax japonicus inferred from transcriptome and gene expression analyses

description: Primer sets and accession numbers of genes. (XLSX 53Â kb)
DOI: 10.6084/m9.figshare.c.3665671_d2
title: Additional file 9: of Comparative analysis of the root transcriptomes of cultivated sweetpotato (Ipomoea batatas [L.] Lam) and its wild ancestor (Ipomoea trifida [Kunth] G. Don)

description: SSRs and primers predicted in I. batatas (Sp1). (XLSX 5.29 MB)
DOI: 10.6084/m9.figshare.c.3665647_d7
title: Additional file 6: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: Details of rose-scented geranium transcripts related with the enzymes involved in terpene biosynthesis. (XLSX 1631 kb)
DOI: 10.6084/m9.figshare.c.3665647_d8.v1
title: Additional file 4: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: GO assignments of rose-scented geranium transcripts under biological processes, cellular components and molecular functions categories, number of contigs and percentage. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3665671_d3.v1
title: Additional file 13: of Comparative analysis of the root transcriptomes of cultivated sweetpotato (Ipomoea batatas [L.] Lam) and its wild ancestor (Ipomoea trifida [Kunth] G. Don)

description: InDels identified in I. batatas (Sp1). (ZIP 34.3 MB)
DOI: 10.6084/m9.figshare.c.3665683_d1.v1
title: Additional file 7: of Detection of critical cerebral desaturation thresholds by three regional oximeters during hypoxia: a pilot study in healthy volunteers

description: Raw data subject #1806. (XLSX 128 kb)
DOI: 10.6084/m9.figshare.c.3665671_d3
title: Additional file 13: of Comparative analysis of the root transcriptomes of cultivated sweetpotato (Ipomoea batatas [L.] Lam) and its wild ancestor (Ipomoea trifida [Kunth] G. Don)

description: InDels identified in I. batatas (Sp1). (ZIP 34.3 MB)
DOI: 10.6084/m9.figshare.c.3665647_d8
title: Additional file 4: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: GO assignments of rose-scented geranium transcripts under biological processes, cellular components and molecular functions categories, number of contigs and percentage. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3665683_d1
title: Additional file 7: of Detection of critical cerebral desaturation thresholds by three regional oximeters during hypoxia: a pilot study in healthy volunteers

description: Raw data subject #1806. (XLSX 128 kb)
DOI: 10.6084/m9.figshare.c.3665647_d9.v1
title: Additional file 2: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: Primers used in semi-quantitative PCR, real-time PCR and assembly validation. (XLSX 231 kb)
DOI: 10.6084/m9.figshare.c.3665647_d9
title: Additional file 2: of 
                     De novo transcriptome analysis of rose-scented geranium provides insights into the metabolic specificity of terpene and tartaric acid biosynthesis

description: Primers used in semi-quantitative PCR, real-time PCR and assembly validation. (XLSX 231 kb)
DOI: 10.6084/m9.figshare.c.3665671_d4.v1
title: Additional file 14: of Comparative analysis of the root transcriptomes of cultivated sweetpotato (Ipomoea batatas [L.] Lam) and its wild ancestor (Ipomoea trifida [Kunth] G. Don)

description: InDels identified in I. trifida (Sp2). (ZIP 22.5 MB)
DOI: 10.6084/m9.figshare.c.3665671_d6
title: Additional file 1: of Comparative analysis of the root transcriptomes of cultivated sweetpotato (Ipomoea batatas [L.] Lam) and its wild ancestor (Ipomoea trifida [Kunth] G. Don)

description: BLAST annotation and Gene Ontology (GO) classification of I. batatas (Sp1) contigs. (XLSX 20 MB)
DOI: 10.6084/m9.figshare.c.3665683_d4.v1
title: Additional file 11: of Detection of critical cerebral desaturation thresholds by three regional oximeters during hypoxia: a pilot study in healthy volunteers

description: Tabulated data from all subjects. (XLSX 62 kb)
DOI: 10.6084/m9.figshare.c.3665683_d4
title: Additional file 11: of Detection of critical cerebral desaturation thresholds by three regional oximeters during hypoxia: a pilot study in healthy volunteers

description: Tabulated data from all subjects. (XLSX 62 kb)
DOI: 10.15468/dl.mwye2d
title: Occurrence Download

description: A dataset containing 36919 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "TaxonKey is Ambrosia artemisiifolia L."
 ]
}

 The dataset includes 36919 records from 239 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038082-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15156/bio/sh1142414.10fu
title: SH1142414.10FU

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/sh1142418.10fu
title: SH1142418.10FU

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.