cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28027841
title: Cordyline sp. raw GC-MS files

description: Metabolite extraction from Cordyline sp.
DOI: 10.6084/m9.figshare.28027841.v1
title: Cordyline sp. raw GC-MS files

description: Metabolite extraction from Cordyline sp.
DOI: 10.6084/m9.figshare.c.3635579_d1
title: Additional file 4: of DMirNet: Inferring direct microRNA-mRNA association networks

description: The list of multi-cancer-related 44 miRNA-mRNA pairs. The putative novel multi-cancer-related pairs are coloured with yellow. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3635579_d2
title: Additional file 1: of DMirNet: Inferring direct microRNA-mRNA association networks

description: Top1000 miRNA-mRNA association relationships for each dataset. (XLSX 59 kb)
DOI: 10.6084/m9.figshare.c.3635579_d3
title: Additional file 2: of DMirNet: Inferring direct microRNA-mRNA association networks

description: Reconstructed miRNA-mRNA association networks and their key structures with top 500 miRNA-mRNA association relationships. The reconstructed network was visualized with Cytoscape and the key modular structure of the network was analysed using ModuLand. (XLSX 658 kb)
DOI: 10.6084/m9.figshare.c.3635579_d4
title: Additional file 3: of DMirNet: Inferring direct microRNA-mRNA association networks

description: Functional analysis of reconstructed miRNA-mRNA association networks based on KEGG pathway. To interpret the functions of inferred miRNA-mRNA association network, related KEGG pathway in Top 500 and Top 1000 pairs were analysed using ClueGO (XLSX 1447 kb)
DOI: 10.6084/m9.figshare.c.3635588_d2
title: Additional file 1: S1. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Differentially expressed genes found by edgeR. This file contains the analysis results for all genes tested by edgeR. (XLSX 1794 kb)
DOI: 10.6084/m9.figshare.c.3635588_d1
title: Additional file 2: Table S2. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Gene ontology analysis performed with the BiNGO plug-in to Cytoscape. The lists of up-regulated and down-regulated genes were analysed for enrichment of gene ontology terms using BiNGO. The results are presented in this file. The results of gene ontology analysis for the DE transcription factors are also in this file. (XLSX 154 kb)
DOI: 10.6084/m9.figshare.c.3635588_d3
title: Additional file 4: Table S4. (Tables S1â  S7) of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Categorisation of Subsets of differentially expressed genes. This file includes tables of genes found to be differentially expressed which are involved in growth factor signalling (Table S1), cytokine signalling (Table S2), Wnt signalling (Table S3), Calcium signalling (Table S4), Cell cycle (Table S5), Hedgehog signalling (Table S6) and G protein-coupled signalling (Table S7). (XLSX 89 kb)
DOI: 10.6084/m9.figshare.c.3635588_d4
title: Additional file 5: Table S5. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Searches for GTF2IRD1 interaction partners in the BioGRID and MetaCore databases. (XLSX 51 kb)
DOI: 10.6084/m9.figshare.c.3635588_d5
title: Additional file 6: Table S6. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Primers used in RTqPCR validation. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3635588_d6
title: Additional file 3: Table S3. of RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome

description: Gene set enrichment analysis using the GSEApreranked tool. The full results of the GSEA analysis for biological process and Kegg pathways are in this file. (XLSX 96 kb)
DOI: 10.6084/m9.figshare.c.3635597_d1
title: Additional file 6: of An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum

description: Small Molecule GO-networks. (XLSX 30 kb)
DOI: 10.6084/m9.figshare.c.3635597_d2
title: Additional file 2: of An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum

description: Gene Expression Data. (XLSX 6956 kb)
DOI: 10.6084/m9.figshare.c.3635597_d3
title: Additional file 4: of An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum

description: Top 100 and Bottom 100 gene lists for each drug perturbation. (XLSX 487 kb)
DOI: 10.6084/m9.figshare.c.3635597_d4
title: Additional file 5: of An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum

description: Drug GO-Matrix. (XLSX 58 kb)
DOI: 10.6084/m9.figshare.c.3635597_d5
title: Additional file 7: of An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum

description: Dose Response Profiling. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3635645_d1
title: Additional file 5: Table S4. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: Summary of putative microRNAs. Genomic location and conservation were determined with methods used for Additional file 4: Table S3. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3635645_d3
title: Additional file 6: Table S5. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: Long RNA transcripts loci spanning pre-microRNA regions. Loci are listed if 20 or greater long RNA-seq reads max per sample spanned the indicated microRNA precursor region. Rank (in average long RNA reads), chromosome and coordinates of precursor, precursor ID, and maximum number of reads spanning precursors are listed for each erythrocyte long RNA-seq sample. MicroRNAs are listed as expressed if any microRNA mapping to the indicated precursor region were present in 100 or greater reads for all short RNA-seq samples. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3635645_d4
title: Additional file 4: Table S3. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: Summary of known microRNAs. Number of sequence reads was determined with either counts from known microRNA sequence search (Seq search) or miRDeep output, using the highest number of reads for that sequence. Listed genomic locations for mature microRNA sequences are relative to RefSeq annotated transcripts in UCSC genome browser (hg38). For mature microRNA sequences spanning both introns and coding region, or UTR or coding of alternative transcripts, sequence is listed in coding region. Conservation to human (H), chimp (C), rhesus monkey (R), dog (D), mouse (M), and zebrafish (Z) are listed. Conservation of mature microRNA sequence indicates exact sequence alignment in listed species, allowing for up to one base mismatch outside of the microRNA seed sequence (nucleotides 2â  8), and no mismatches within the seed sequence. (XLSX 45 kb)
DOI: 10.6084/m9.figshare.c.3635645_d5
title: Additional file 2: Table S1. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: Summary of all expressed long RNAs. (XLSX 2170 kb)
DOI: 10.6084/m9.figshare.c.3635645_d6
title: Additional file 7: Table S6. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: List of predicted targets for miR-4732-3p in Targetscan. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.c.3635645_d8
title: Additional file 3: Table S2. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: GATHER gene ontology categorization of top 500 expressed genes. (XLSX 70 kb)
DOI: 10.15468/dl.vcursj
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mammalia",
 "Geometry POLYGON ((-99.33833 19.73056, -99.22333 19.73056, -99.22333 19.76528, -99.33833 19.76528, -99.33833 19.73056))",
 "Year is greater than or equal to 1900",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material citation)"
 ]
 }
 }
 ]
}

 The dataset includes 18 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033844-241126133413365/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.3635666_d3
title: Additional file 1: of Spatiotemporal trends in the discovery of new swine infectious agents

description: Characteristics of the new swine infectious agents. Disc: type of discovery (1: infectious agent species that was unknown before its discovery in pigs, 2: novel variant(s) from an infectious agent species known to infect pigs, 3: first infection of pigs by an infectious agent species known to infect other host species), Cont: context of discovery (1: infectious agent screening or research activities, 2: outbreak investigation), Host range (1: swine-specific, 2: infect other animal species, 3: host range includes humans), *: Only rotavirus variants classified according to the nucleotide-sequence-based classification system, and recognised by the Rotavirus Classification Working Group are considered. The list of references is available upon request to the authors.
DOI: 10.15468/dl.au74h7
title: Occurrence Download

description: A dataset containing 50904 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Chile",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Pelecanus thagus Molina, 1782"
 ]
}

 The dataset includes 50904 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033843-241126133413365/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.3635702_d3
title: Additional file 4: Table S2. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: List of 146 differentially expressed SRPs and their functional and other properties. (XLSX 86Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d4
title: Additional file 15: Table S12. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: ER-related transcripts in the UPR-related co-splicing network. (XLSX 55Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d5
title: Additional file 14: Table S11. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Differentially spliced transcripts. (XLSX 65Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d6
title: Additional file 7: Table S4. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: List of 14 differentially expressed RBP transcripts. (XLSX 28Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d7
title: Additional file 9: Table S6. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Co-splicing network of 2332 transcripts associated with 13 RBPs. (XLSX 1313Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d8
title: Additional file 16: Table S13. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: IRE1A co-splicing network. (XLSX 82Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d12
title: Additional file 10: Table S7. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Significant associations between RBPs and their potential products. The R regions that do not have a significant motif were filtered using p-value cutoff of 0.05. The log(p-value) was used to weight the edges in the co-splicing network. (XLSX 213Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d13
title: Additional file 17: Table S14. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: RBP-DR1 co-splicing network. (XLSX 134Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d14
title: Additional file 11: Table S8. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Enriched motifs in R regions of targets of each RBP. The motifs are shown as logos from the MEME analysis. (XLSX 2349Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d15
title: Additional file 8: Table S5. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: RBP-specific co-expression network. Association of 2646 differentially expressed transcripts that were co-expressed with 14 RBPs. (XLSX 511Â kb)
DOI: 10.15468/dl.4b2rs7
title: Occurrence Download

description: A dataset containing 1281 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-74.07462 4.76578,-74.07421 4.76694,-74.07881 4.77462,-74.08388 4.78398,-74.08707 4.79066,-74.09029 4.79721,-74.09163 4.79872,-74.09457 4.80108,-74.09875 4.79961,-74.10019 4.7958,-74.09786 4.78909,-74.08947 4.77633,-74.07798 4.76009,-74.07462 4.76578))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 1281 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033847-241126133413365/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.3635702_d17
title: Additional file 2: Table S1. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: The set of 7960 differentially expressed transcripts in developing Arabidopsis embryos. Data related to expression values, clusters, coding potential, domains, and TAIR10 functional description are provided for each transcript. (XLSX 3712Â kb)
DOI: 10.15468/dl.ku5c9k
title: Occurrence Download

description: A dataset containing 287 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Epicharis analis Lepeletier, 1841, Epicharis schrottkyi Friese, 1900, Epicharis angustifrons Cockerell, 1919)"
 ]
}

 The dataset includes 287 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033846-241126133413365/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.3635702_d16
title: Additional file 12: Table S9. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Enriched motifs in R regions of targets of each RBP. The motifs are shown as regular expressions from the MEME analysis. (XLSX 50Â kb)
DOI: 10.6084/m9.figshare.c.3635702_d18
title: Additional file 13: Table S10. of CoSpliceNet: a framework for co-splicing network inference from transcriptomics data

description: Position weight matrices of the motifs enriched in R regions of targets of each RBP. (TXT 22Â kb)
DOI: 10.6084/m9.figshare.c.3635708_d1
title: Additional file 2 of An accurate test for homogeneity of odds ratios based on Cochranâ  s Q-statistic

description: Additional R subroutines for computing the homogeneity test Q Îł .
DOI: 10.6084/m9.figshare.c.3635708_d3
title: Additional file 1 of An accurate test for homogeneity of odds ratios based on Cochranâ  s Q-statistic

description: R program for computing the homogeneity test Q Îł .
DOI: 10.6084/m9.figshare.c.3635714_d1
title: Additional file 1: of Thermal manipulation of the chicken embryo triggers differential gene expression in response to a later heat challenge

description: Upstream regulators found for each cluster. (XLSX 26 kb)
DOI: 10.15468/dl.vdwxgs
title: Occurrence Download

description: A dataset containing 83 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Distribution of the invasive jellyfish Craspedacusta sowerbii species complex (Cnidaria, Olindiidae) in Italy"
 ]
}

 The dataset includes 83 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033848-241126133413365/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.3635768_d1
title: Additional file 4: Table S2. of CSN and CAVA: variant annotation tools for rapid, robust next-generation sequencing analysis in the clinical setting

description: Comparison of clinical (Sanger) and NGS annotation of BRCA1 and BRCA2 mutations. (ODS 22 kb)
DOI: 10.6084/m9.figshare.c.3635768_d3
title: Additional file 3: Table S1. of CSN and CAVA: variant annotation tools for rapid, robust next-generation sequencing analysis in the clinical setting

description: Indels in the exome of an individual in the ICR1000 series. (ODS 33 kb)
DOI: 10.6084/m9.figshare.c.3635777_d2
title: Additional file 4: of Genome- and epigenome-wide association study of hypertriglyceridemic waist in Mexican American families

description: This file contains Supplementary Table 3. (XLSX 1982 KB)
DOI: 10.6084/m9.figshare.c.3635777_d3
title: Additional file 3: of Genome- and epigenome-wide association study of hypertriglyceridemic waist in Mexican American families

description: This file contains Supplementary Table 2. (XLSX 314 MB)
DOI: 10.6084/m9.figshare.c.3635777_d4
title: Additional file 1: of Genome- and epigenome-wide association study of hypertriglyceridemic waist in Mexican American families

description: This file contains Supplementary TableÂ 1. (XLSX 782 MB)
DOI: 10.6084/m9.figshare.c.3635786_d1
title: Additional file 4: of Comparative genomics of Steinernema reveals deeply conserved gene regulatory networks

description: Genes differentially expressed during S. carpocapsae development. Lists 4,557 DE genes (differential gene expression cutoff: FDR &lt; 10−5 and fold change &gt; 4×) from the eight DE gene expression clusters, and their gene expression levels (FPKM) during S. carpocapsae development (Fig. 3a). The far right column indicates which cluster each gene belongs to. Cluster A genes – genes with high expression in the L1, IJ, and adult stage. Cluster B genes - genes with high expression in the L1 and medium/low expression in the IJ stage. Cluster C genes – genes with high expression in the L1 and IJ stage. Cluster D genes – genes with high expression in the IJ stage. Cluster E genes - genes with high expression in the adult stage and medium/low expression in the L1 stage. Cluster F genes - genes with high expression in the L1 and adult stage. Cluster G genes - genes with high expression in the embryo stage. Cluster H genes – genes with high expression in the L1 stage. (TXT 166 kb)
DOI: 10.6084/m9.figshare.c.3635786_d2
title: Additional file 6: of Comparative genomics of Steinernema reveals deeply conserved gene regulatory networks

description: S. carpocapsae and S. feltiae orthologs with conserved expression (cosine similarity &gt; 0.95). Lists 1,438â  S. carpocapsae orthologs that have conserved expression with S. feltiae during nematode development. The file includes the gene ID of S. carpocapsae (column 1), the ortholog expression similarity (cosine similarity, column 2), the expression values (in TPM) of the S. carpocapsae and S. feltiae orthologs during the time course in replicates (columns 3â  18), and the stage(s) that the ortholog expression is conserved in (column 19). (TXT 171Â kb)
DOI: 10.6084/m9.figshare.c.3635786_d5
title: Additional file 13: of Comparative genomics of Steinernema reveals deeply conserved gene regulatory networks

description: Muscle development network file. Contains motifs that have a conserved association with muscle development-related genes (See â  Methodsâ   regarding motif conservation) in both S. carpocapsae and C. elegans. The first column contains the motif ID, the second column contains the edge weight, and the third and fourth columns contain C. elegans gene IDs in two different formats. (TXT 5Â kb)
DOI: 10.15468/dl.4656rn
title: Occurrence Download

description: A dataset containing 69130 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Glaucidium brasilianum (J.F.Gmelin, 1788)"
 ]
}

 The dataset includes 69130 records from 89 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033845-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dw56vv
title: Occurrence Download

description: A dataset containing 184 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mammalia",
 "Geometry POLYGON ((-97.99722 17.62917, -97.92167 17.62917, -97.92167 17.72944, -97.99722 17.72944, -97.99722 17.62917))",
 "Year is greater than or equal to 1900",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material citation)"
 ]
 }
 }
 ]
}

 The dataset includes 184 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033849-241126133413365/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.3635816_d1
title: Additional file 1: of The importance of distinguishing between the odds ratio and the incidence rate ratio in GWAS

description: The R code for simulations. (ZIP 2.06 kb)
DOI: 10.6084/m9.figshare.c.3635822_d1
title: Additional file 5: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: Differentially expressed transcripts between healthy cv. Leccino and Ogliarola salentina plants. (XLSX 29Â kb)
DOI: 10.6084/m9.figshare.c.3635822_d3
title: Additional file 7: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: GO enrichment analysis of the 512 DEGs between Xfp-infected cv. Leccino and Ogliarola salentina plants. (XLSX 294Â kb)
DOI: 10.6084/m9.figshare.c.3635822_d5
title: Additional file 3: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: Differentially expressed transcripts in cv. Leccino infected by Xylella fastidiosa. Each unique transcript is categorized by Mercator and Log2 fold expression values calculated by DESeq2 analysis. Transcript categorization was further verified by BLASTX search against the non-redundant protein database. Up- and down-regulated transcripts are in separate excel sheets. (XLSX 138Â kb)
DOI: 10.6084/m9.figshare.c.3635822_d4
title: Additional file 9: of Transcriptome profiling of two olive cultivars in response to infection by the CoDiRO strain of Xylella fastidiosa subsp. pauca

description: Oligonucleotides of selected target and reference genes. Transcripts used for design and corresponding lengths are reported. Categorization of transcripts by BLASTX against the NCBI non-redundant protein sequences database, BLASTN against the Transcriptome Shotgun Assembly databases and orthologous A. thaliana genes are indicated. (XLSX 21Â kb)