cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh0113385.10fu
title: SH0113385.10FU

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: 10.6084/m9.figshare.c.3866482_d1.v1
title: MOESM1 of Proteins associated with the doubling time of the NCI-60 cancer cell lines

description: Additional file 1. Additional tables.
DOI: 10.6084/m9.figshare.c.3866482_d1
title: MOESM1 of Proteins associated with the doubling time of the NCI-60 cancer cell lines

description: Additional file 1. Additional tables.
DOI: 10.15468/dl.net496
title: Occurrence Download

description: A dataset containing 10228 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-97.80846 30.27001,-97.80769 30.27001,-97.80769 30.27048,-97.80846 30.27048,-97.80846 30.27001))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 10228 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040488-241126133413365/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.3870523_d2
title: Additional file 2: of Robust gene selection methods using weighting schemes for microarray data analysis

description: . R code for the modified samr package. (R 29 kb)
DOI: 10.6084/m9.figshare.c.3870535_d1
title: Additional file 1: Table S1. of Mapping insecticide resistance and characterization of resistance mechanisms in Anopheles arabiensis (Diptera: Culicidae) in Ethiopia

description: Program and output of statistical analysis. (R 6Â kb)
DOI: 10.6084/m9.figshare.c.3870517_d2.v1
title: Additional file 2: of Association between self-perception of aging, view of cancer and health of older patients in oncology: a one-year longitudinal study

description: Raw data. All data generated or analyzed during this study. (XLS 90 kb)
DOI: 10.6084/m9.figshare.c.3870517_d2
title: Additional file 2: of Association between self-perception of aging, view of cancer and health of older patients in oncology: a one-year longitudinal study

description: Raw data. All data generated or analyzed during this study. (XLS 90 kb)
DOI: 10.6084/m9.figshare.c.3870532_d2.v1
title: Additional file 11: of Members of the Candidate Phyla Radiation are functionally differentiated by carbon- and nitrogen-cycling capabilities

description: Trimmed MUSCLE alignment of nirK sequences (AFA 32Â kb)
DOI: 10.6084/m9.figshare.c.3870535_d2.v1
title: Additional file 2: Table S2. of Mapping insecticide resistance and characterization of resistance mechanisms in Anopheles arabiensis (Diptera: Culicidae) in Ethiopia

description: Mosquito mortality data recorded according to WHO insecticide susceptibility test procedure. (CSV 7Â kb)
DOI: 10.6084/m9.figshare.c.3870532_d3.v1
title: Additional file 12: of Members of the Candidate Phyla Radiation are functionally differentiated by carbon- and nitrogen-cycling capabilities

description: Maximum-likelihood nirK tree file. (TREE 8Â kb)
DOI: 10.6084/m9.figshare.c.3870532_d2
title: Additional file 11: of Members of the Candidate Phyla Radiation are functionally differentiated by carbon- and nitrogen-cycling capabilities

description: Trimmed MUSCLE alignment of nirK sequences (AFA 32Â kb)
DOI: 10.6084/m9.figshare.c.3870532_d3
title: Additional file 12: of Members of the Candidate Phyla Radiation are functionally differentiated by carbon- and nitrogen-cycling capabilities

description: Maximum-likelihood nirK tree file. (TREE 8Â kb)
DOI: 10.6084/m9.figshare.c.3870535_d2
title: Additional file 2: Table S2. of Mapping insecticide resistance and characterization of resistance mechanisms in Anopheles arabiensis (Diptera: Culicidae) in Ethiopia

description: Mosquito mortality data recorded according to WHO insecticide susceptibility test procedure. (CSV 7Â kb)
DOI: 10.6084/m9.figshare.c.3870523_d4.v1
title: Additional file 4: of Robust gene selection methods using weighting schemes for microarray data analysis

description: R code for some examples of our method for detecting genes that are differentially expressed. (R 2 kb)
DOI: 10.15468/dl.shcb8q
title: Occurrence Download

description: A dataset containing 272 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "TaxonKey is one of (Aneides klamathensis Reilly & Wake, 2019)"
 ]
}

 The dataset includes 272 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040489-241126133413365/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.3873193_d3.v1
title: Additional file 3: Table S3. of microRNAs participate in gene expression regulation and phytohormone cross-talk in barley embryo during seed development and germination

description: Predicted targets of known miRNAs. (XLSX 678Â kb)
DOI: 10.6084/m9.figshare.c.3873193_d3
title: Additional file 3: Table S3. of microRNAs participate in gene expression regulation and phytohormone cross-talk in barley embryo during seed development and germination

description: Predicted targets of known miRNAs. (XLSX 678Â kb)
DOI: 10.6084/m9.figshare.c.3873208_d3.v1
title: Additional file 3: of Evaluating the role of Pleistocene refugia, rivers and environmental variation in the diversification of central African duikers (genera Cephalophus and Philantomba)

description: Matrix of DNA distances. (XLS 48 kb)
DOI: 10.6084/m9.figshare.c.3873208_d3
title: Additional file 3: of Evaluating the role of Pleistocene refugia, rivers and environmental variation in the diversification of central African duikers (genera Cephalophus and Philantomba)

description: Matrix of DNA distances. (XLS 48 kb)
DOI: 10.6084/m9.figshare.c.3873217_d1.v1
title: Additional file 1: Table S1. of Whole genome sequencing of ESBL-producing Escherichia coli isolated from patients, farm waste and canals in Thailand

description: Isolate details. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3873217_d1
title: Additional file 1: Table S1. of Whole genome sequencing of ESBL-producing Escherichia coli isolated from patients, farm waste and canals in Thailand

description: Isolate details. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3873217_d2.v1
title: Additional file 2: Table S2. of Whole genome sequencing of ESBL-producing Escherichia coli isolated from patients, farm waste and canals in Thailand

description: Sequence quality metrics. (XLSX 495 kb)
DOI: 10.6084/m9.figshare.c.3877129_d1
title: Additional file 1: of Predicted networks of protein-protein interactions in Stegodyphus mimosarum by cross-species comparisons

description: Predicted PPI proteins in S. mimosarum. Sheet 1: Predicted PPI proteins in S. mimosarum; Sheet 2: Predicted PPIs in S. mimosarum; Sheet 3: Predicted PPIs of S. mimosarum from PPI orthologs in D. melanogaster; Sheet 4: Predicted PPIs of S. mimosarum from PPI orthologs in H. sapiens; Sheet 5: Predicted PPIs of S. mimosarum from PPI orthologs in S. cerevisiae. (XLSX 5485Â kb)
DOI: 10.6084/m9.figshare.c.3877129_d2.v1
title: Additional file 2: of Predicted networks of protein-protein interactions in Stegodyphus mimosarum by cross-species comparisons

description: Database of top 20 nodes. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3877132_d1.v1
title: Additional file 1: Table S1. of Involvement of DPP9 in gene fusions in serous ovarian carcinoma

description: RT-PCR primers. Table S2. RNA-seq fusion gene candidates. Table S3. BLAT results of fusion transcripts. Table S4. RNA-seq fusion gene partner candidates among the top 1000 exon-level expression breakpoints. (XLS 86Â kb)
DOI: 10.6084/m9.figshare.c.3877129_d2
title: Additional file 2: of Predicted networks of protein-protein interactions in Stegodyphus mimosarum by cross-species comparisons

description: Database of top 20 nodes. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3877066_d18.v1
title: Additional file 8: of Comprehensive survey and evolutionary analysis of genome-wide miRNA genes from ten diploid Oryza species

description: Different types of transition and transversion nucleotide substitutions in the precursor sequences of the selected conserved and non-conserved miRNA genes from all the studied Oryza species. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3877129_d3.v1
title: Additional file 3: of Predicted networks of protein-protein interactions in Stegodyphus mimosarum by cross-species comparisons

description: GO molecular function annotation in S. mimosarum. (XLSX 128Â kb)
DOI: 10.6084/m9.figshare.c.3877132_d1
title: Additional file 1: Table S1. of Involvement of DPP9 in gene fusions in serous ovarian carcinoma

description: RT-PCR primers. Table S2. RNA-seq fusion gene candidates. Table S3. BLAT results of fusion transcripts. Table S4. RNA-seq fusion gene partner candidates among the top 1000 exon-level expression breakpoints. (XLS 86Â kb)
DOI: 10.6084/m9.figshare.c.3877066_d18
title: Additional file 8: of Comprehensive survey and evolutionary analysis of genome-wide miRNA genes from ten diploid Oryza species

description: Different types of transition and transversion nucleotide substitutions in the precursor sequences of the selected conserved and non-conserved miRNA genes from all the studied Oryza species. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3877129_d3
title: Additional file 3: of Predicted networks of protein-protein interactions in Stegodyphus mimosarum by cross-species comparisons

description: GO molecular function annotation in S. mimosarum. (XLSX 128Â kb)
DOI: 10.6084/m9.figshare.c.3877066_d19.v1
title: Additional file 9: of Comprehensive survey and evolutionary analysis of genome-wide miRNA genes from ten diploid Oryza species

description: Proportion of conserved sites in the different parts of mature and star regions of the studied conserved and non-conserved miRNAs from the 10 Oryza species. If nucleotides in a certain part of the mature or star sequences were completely conserved among Oryza, it was given a value of 1. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3877129_d4.v1
title: Additional file 4: of Predicted networks of protein-protein interactions in Stegodyphus mimosarum by cross-species comparisons

description: GO biological process annotation in S. mimosarum. (XLSX 93Â kb)
DOI: 10.6084/m9.figshare.c.3877066_d19
title: Additional file 9: of Comprehensive survey and evolutionary analysis of genome-wide miRNA genes from ten diploid Oryza species

description: Proportion of conserved sites in the different parts of mature and star regions of the studied conserved and non-conserved miRNAs from the 10 Oryza species. If nucleotides in a certain part of the mature or star sequences were completely conserved among Oryza, it was given a value of 1. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3881407_d2.v1
title: Additional file 2: Table S1. of Insights from the draft genome into the pathogenicity of a clinical isolate of Elizabethkingia meningoseptica Em3

description: Genome features for the selected Elizabethkingia. Seven genomes from E. meningoseptica were provided for comparison of size, gene count, CRISPR, GC and coding count. (XLS 21Â kb)
DOI: 10.6084/m9.figshare.c.3881407_d2
title: Additional file 2: Table S1. of Insights from the draft genome into the pathogenicity of a clinical isolate of Elizabethkingia meningoseptica Em3

description: Genome features for the selected Elizabethkingia. Seven genomes from E. meningoseptica were provided for comparison of size, gene count, CRISPR, GC and coding count. (XLS 21Â kb)
DOI: 10.6084/m9.figshare.c.3881365_d13.v1
title: Additional file 21: Table S8. of Recent urbanization in China is correlated with a Westernized microbiome encoding increased virulence and antibiotic resistance genes

description: Significant associations with virulence genes. Significant associations (Benjamini and Hochberg-adjusted linear model P value
DOI: 10.6084/m9.figshare.c.3881365_d13
title: Additional file 21: Table S8. of Recent urbanization in China is correlated with a Westernized microbiome encoding increased virulence and antibiotic resistance genes

description: Significant associations with virulence genes. Significant associations (Benjamini and Hochberg-adjusted linear model P value
DOI: 10.6084/m9.figshare.c.3881422_d1
title: Additional file 1: of Physical fitness and anthropometric characteristics among adolescents living in urban or rural areas of Kosovo

description: Fitness and anthropometric raw data (XLSX 54 kb)
DOI: 10.6084/m9.figshare.c.3881365_d15.v1
title: Additional file 23: Table S9. of Recent urbanization in China is correlated with a Westernized microbiome encoding increased virulence and antibiotic resistance genes

description: Data that were significantly different between urban and rural subjects using linear model results were generally also significant when using nonparametric models. The columns indicate the type of data, the phylogenetic, or gene level (or NA if no level is applicable), the number of values significantly different between urban and rural subjects (adjusted P value
DOI: 10.6084/m9.figshare.c.3885196_d1.v1
title: Additional file 1: of Volcanic fatalities database: analysis of volcanic threat with distance and victim classification

description: Excel spreadsheet of the fatalities database, version 1. (XLSX 231 kb)
DOI: 10.6084/m9.figshare.c.3889417_d7.v1
title: Additional file 7: of Microbes and associated soluble and volatile chemicals on periodically wet household surfaces

description: Table S1. Modeling results of source-specific contributions of VOCs to indoor concentrations. Raw data for the modeling results are represented in Fig.Â 6 of the main text. (XLSX 46Â kb)
DOI: 10.6084/m9.figshare.c.3895873_d2.v1
title: Additional file 2: of Newborn genome-wide DNA methylation in association with pregnancy anxiety reveals a potential role for GABBR1

description: GABBR1 CpG sites analyzed by EpiTYPER and corresponding HM450 CpG probe identifiers. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3895876_d2.v1
title: Additional file 2: Table S1. of Identification of common oncogenic and early developmental pathways in the ovarian carcinomas controlling by distinct prognostically significant microRNA subsets

description: The 13-miRNA subset from K-means. Table S2. The 100 survival significant miRNAs and results of the DDSS-1D, DDSS-2D and SWVg analyses. TCGA dataset was analysed. The 10 survival significant miRNAs belonging to the 13 miRNA subset selected by K-means analysis are highlighted. Table S3. The 25-miR subset selected by DDSS-1D with ten-fold cross validation. Table S4. The frequency of miRs in DDSS-2D miR pairs. The miRNAs which was reported in 13 miRNAs selected by K-means analysis were highlighted in yellow cell. Table S5. 28 miRNAs which display the patterns with three groups in DDSS-1D. Table S6. Analysis of 19-miRNA prognostic signature. Significant clusters generated from DAVID functional annotation tools. Each DAVID annotation cluster represents one biological theme by grouping similar annotation terms according to the common genes shared by them. Table S7. Association analysis of clinical indicators with groups separated by 19 miRNAs from SWV based on DDSS-1D. Table S8. Seventeen survival-significant miRNAs in Shih et al signature [5]. Table S9. Wald P-values of 4 significant miRNA in TCGA dataset, supported by independent dataset [5]. Table S10. Three miRNA survival prediction signatures of HG-SOC. Table S11. Comparison of the 19-miRNA survival prediction signature with other miRNA-based survival prediction signatures of HG-SOC. Table S12. Concensus subset of survival significant miRNAs. Table S13.  DDSS-1D-based  selection of the 31 miRNAs  and SWVg analysis. Table S14.  Interactions between miRNAs and predicted direct  target  mRNAs found  in 36 mRNA HG-EOC prognostic classifier. Table S15. Significant signaling pathways (by DIANA-mirPath v.2 software) targeting by the miRNA subsets belonging to five miRNA signatures. The common pathways shared by miRNA signatures from K-means, DDSS-D1, DDSS-D2 and SWVg analyses are marked in boldface. Table S16. Initial data lists  for for miRPath-7.3 analysis,  the number target genes and the target identification methods. Table S17. Common signaling pathways. Table S18. Neurotrophin signalling pathway: Updated lists of the miRNAs refereeing to the 19-miRNA (19_mir_N), 21-miRNA (21_mir_N) and 31miRNA (31_mir_N) prognostic signatures and their characteristics. Table S19. Neurotrophin signaling pathway data (miRNAs, mRNA). Table S20. Number of miRNAs interacting with a target mRNA associated with gene encoding neurophilin signaling pathway. Table S21. Tarbase Experimentally Supported Interactions for miRNAs. (XLS 400 kb)
DOI: 10.6084/m9.figshare.c.3895873_d2
title: Additional file 2: of Newborn genome-wide DNA methylation in association with pregnancy anxiety reveals a potential role for GABBR1

description: GABBR1 CpG sites analyzed by EpiTYPER and corresponding HM450 CpG probe identifiers. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3895876_d2
title: Additional file 2: Table S1. of Identification of common oncogenic and early developmental pathways in the ovarian carcinomas controlling by distinct prognostically significant microRNA subsets

description: The 13-miRNA subset from K-means. Table S2. The 100 survival significant miRNAs and results of the DDSS-1D, DDSS-2D and SWVg analyses. TCGA dataset was analysed. The 10 survival significant miRNAs belonging to the 13 miRNA subset selected by K-means analysis are highlighted. Table S3. The 25-miR subset selected by DDSS-1D with ten-fold cross validation. Table S4. The frequency of miRs in DDSS-2D miR pairs. The miRNAs which was reported in 13 miRNAs selected by K-means analysis were highlighted in yellow cell. Table S5. 28 miRNAs which display the patterns with three groups in DDSS-1D. Table S6. Analysis of 19-miRNA prognostic signature. Significant clusters generated from DAVID functional annotation tools. Each DAVID annotation cluster represents one biological theme by grouping similar annotation terms according to the common genes shared by them. Table S7. Association analysis of clinical indicators with groups separated by 19 miRNAs from SWV based on DDSS-1D. Table S8. Seventeen survival-significant miRNAs in Shih et al signature [5]. Table S9. Wald P-values of 4 significant miRNA in TCGA dataset, supported by independent dataset [5]. Table S10. Three miRNA survival prediction signatures of HG-SOC. Table S11. Comparison of the 19-miRNA survival prediction signature with other miRNA-based survival prediction signatures of HG-SOC. Table S12. Concensus subset of survival significant miRNAs. Table S13.  DDSS-1D-based  selection of the 31 miRNAs  and SWVg analysis. Table S14.  Interactions between miRNAs and predicted direct  target  mRNAs found  in 36 mRNA HG-EOC prognostic classifier. Table S15. Significant signaling pathways (by DIANA-mirPath v.2 software) targeting by the miRNA subsets belonging to five miRNA signatures. The common pathways shared by miRNA signatures from K-means, DDSS-D1, DDSS-D2 and SWVg analyses are marked in boldface. Table S16. Initial data lists  for for miRPath-7.3 analysis,  the number target genes and the target identification methods. Table S17. Common signaling pathways. Table S18. Neurotrophin signalling pathway: Updated lists of the miRNAs refereeing to the 19-miRNA (19_mir_N), 21-miRNA (21_mir_N) and 31miRNA (31_mir_N) prognostic signatures and their characteristics. Table S19. Neurotrophin signaling pathway data (miRNAs, mRNA). Table S20. Number of miRNAs interacting with a target mRNA associated with gene encoding neurophilin signaling pathway. Table S21. Tarbase Experimentally Supported Interactions for miRNAs. (XLS 400 kb)
DOI: 10.6084/m9.figshare.c.3895873_d3.v1
title: Additional file 3: of Newborn genome-wide DNA methylation in association with pregnancy anxiety reveals a potential role for GABBR1

description: Top 50 DMRcate results. (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3895873_d3
title: Additional file 3: of Newborn genome-wide DNA methylation in association with pregnancy anxiety reveals a potential role for GABBR1

description: Top 50 DMRcate results. (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3895873_d4.v1
title: Additional file 4: of Newborn genome-wide DNA methylation in association with pregnancy anxiety reveals a potential role for GABBR1

description: ErmineJ Gene Ontology (GO) pathways analysis results based on the top 500 annotated differentially annotated regions. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3895873_d4
title: Additional file 4: of Newborn genome-wide DNA methylation in association with pregnancy anxiety reveals a potential role for GABBR1

description: ErmineJ Gene Ontology (GO) pathways analysis results based on the top 500 annotated differentially annotated regions. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3895873_d5.v1
title: Additional file 5: of Newborn genome-wide DNA methylation in association with pregnancy anxiety reveals a potential role for GABBR1

description: Top 100 ranked CpG probes associated with prenatal anxiety. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.c.3898987_d1.v1
title: Additional file 1: of Clinical utility of the low-density Infinium QC genotyping Array in a genomics-based diagnostics laboratory

description: â  List of excluded markersâ  . Collection of consistently underperforming markers recommended for removal (TXT 4Â kb)
DOI: 10.6084/m9.figshare.c.3898987_d1
title: Additional file 1: of Clinical utility of the low-density Infinium QC genotyping Array in a genomics-based diagnostics laboratory

description: â  List of excluded markersâ  . Collection of consistently underperforming markers recommended for removal (TXT 4Â kb)
DOI: 10.6084/m9.figshare.c.3899002_d1.v1
title: Additional file 1: of Genome-wide analysis of rice cis-natural antisense transcription under cadmium exposure using strand-specific RNA-Seq

description: Table S1. Mapping of RNA-Seq reads obtained from root and shoot samples to the reference IRGSP-1.0 genome sequence. Table S2. Classification of 409 RAP transcripts with upregulated cis-NATs into three groups based on the expression of transcribed RAP transcripts from the opposite DNA strand. (XLS 367Â kb)
DOI: 10.6084/m9.figshare.c.3898996_d10
title: Additional file 3: Table S2. of RNA sequencing identifies novel non-coding RNA and exon-specific effects associated with cigarette smoking

description: Comparison of log fold changes in 50 differentially expressed genes that overlap Huan et al. 2016. All 50 genes have a consistent direction of effect. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3899002_d1
title: Additional file 1: of Genome-wide analysis of rice cis-natural antisense transcription under cadmium exposure using strand-specific RNA-Seq

description: Table S1. Mapping of RNA-Seq reads obtained from root and shoot samples to the reference IRGSP-1.0 genome sequence. Table S2. Classification of 409 RAP transcripts with upregulated cis-NATs into three groups based on the expression of transcribed RAP transcripts from the opposite DNA strand. (XLS 367Â kb)