cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3645842_d8.v1
title: Additional file 3: Table S3. of Transcriptome analysis of Sporisorium scitamineum reveals critical environmental signals for fungal sexual mating and filamentous growth

description: List of DEGs (p ≤ 0.05) in non-mating mixture of SsΔMAT-1b X MAT-2, compared to the mating mixture of MAT-1 X MAT-2 (XLS 185 kb)
DOI: 10.6084/m9.figshare.c.3645842_d9.v1
title: Additional file 6: Table S6. of Transcriptome analysis of Sporisorium scitamineum reveals critical environmental signals for fungal sexual mating and filamentous growth

description: List of enriched KEGG terms in SsÎ MAT-1b mutant compared to the wild-type MAT-1. (XLS 47Â kb)
DOI: 10.6084/m9.figshare.c.3645854_d1.v1
title: Additional file 6: of Generation of an integrated Hieracium genomic and transcriptomic resource enables exploration of small RNA pathways during apomixis initiation

description: Predicted MIRNA genes in the D18 genome. (TXT 784 kb)
DOI: 10.6084/m9.figshare.c.3645854_d2.v1
title: Additional file 3: of Generation of an integrated Hieracium genomic and transcriptomic resource enables exploration of small RNA pathways during apomixis initiation

description: Supplemental data regarding transcriptome and differential expression analysis. (XLSX 4996 kb)
DOI: 10.6084/m9.figshare.c.3645854_d3.v1
title: Additional file 4: of Generation of an integrated Hieracium genomic and transcriptomic resource enables exploration of small RNA pathways during apomixis initiation

description: Cloned and consensus HpAGO sequences in fasta format. (TXT 825 kb)
DOI: 10.6084/m9.figshare.c.3645854_d5.v1
title: Additional file 5: of Generation of an integrated Hieracium genomic and transcriptomic resource enables exploration of small RNA pathways during apomixis initiation

description: Supplemental data regarding small RNA analysis. (XLSX 1496 kb)
DOI: 10.6084/m9.figshare.c.3645854_d6.v1
title: Additional file 1: Tables S1â  S8. of Generation of an integrated Hieracium genomic and transcriptomic resource enables exploration of small RNA pathways during apomixis initiation

description: Table S1. Summary of sequencing data across all samples. Table S2. Full list of Arabidopsis genes used for sexual pathway analysis. Table S3. Marker analysis in deletion mutants and polyhaploid mapping populations. Table S4. List of predicted AGO, RDR and DCL genes within the D18 genomic assembly. Table S5. Differentially expressed genes between MMC and FM stage ovaries in R35 and D36. Table S6. Enriched GO terms within differentially expressed genes between MMC and FM stage ovaries in R35 and D36. Table S7. List of predicted gene models with complementary small RNA and transcriptome fold changes. Table S8. List of oligonucleotides used in this study. (XLSX 142 kb)
DOI: 10.6084/m9.figshare.c.3645893_d1.v1
title: Additional file 12: Table S7. of Extensive identification and analysis of conserved small ORFs in animals

description: Summary of datasets used in Additional file 13: Figure S6A and B (RNA-seq). (ODS 11 kb)
DOI: 10.6084/m9.figshare.c.3645893_d2.v1
title: Additional file 2: Table S1. of Extensive identification and analysis of conserved small ORFs in animals

description: All sORF information for human. (TXT 6997 kb)
DOI: 10.15468/dl.6j3was
title: Occurrence Download

description: A dataset containing 45832 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Urbanus Hübner, 1807"
 ]
}

 The dataset includes 45832 records from 220 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038011-241126133413365/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.3645893_d4.v1
title: Additional file 25: Table S14. of Extensive identification and analysis of conserved small ORFs in animals

description: Experimental evidence for C. elegans sORFs. (ODS 43 kb)
DOI: 10.6084/m9.figshare.c.3645893_d5.v1
title: Additional file 5: Table S4. of Extensive identification and analysis of conserved small ORFs in animals

description: All sORF information for fly. (TXT 535 kb)
DOI: 10.6084/m9.figshare.c.3645893_d6.v1
title: Additional file 21: Table S10. of Extensive identification and analysis of conserved small ORFs in animals

description: Experimental evidence for human sORFs. (ODS 85 kb)
DOI: 10.6084/m9.figshare.c.3645893_d10.v1
title: Additional file 22: Table S11. of Extensive identification and analysis of conserved small ORFs in animals

description: Experimental evidence for mouse sORFs. (ODS 91 kb)
DOI: 10.6084/m9.figshare.c.3645893_d12.v1
title: Additional file 8: Table S6. of Extensive identification and analysis of conserved small ORFs in animals

description: Summary of datasets used in Fig.Â 3 (other sORF predictions). (ODS 13 kb)
DOI: 10.6084/m9.figshare.c.3645893_d15.v1
title: Additional file 15: Table S9. of Extensive identification and analysis of conserved small ORFs in animals

description: Summary of datasets used in Fig.Â 6b (mass spectrometry). (ODS 13 kb)
DOI: 10.6084/m9.figshare.c.3645893_d17.v1
title: Additional file 6: Table S5. of Extensive identification and analysis of conserved small ORFs in animals

description: All sORF information for worm. (TXT 1536 kb)
DOI: 10.6084/m9.figshare.c.3645893_d18.v1
title: Additional file 4: Table S3. of Extensive identification and analysis of conserved small ORFs in animals

description: All sORF information for zebrafish. (TXT 734 kb)
DOI: 10.6084/m9.figshare.c.3645893_d19.v1
title: Additional file 23: Table S12. of Extensive identification and analysis of conserved small ORFs in animals

description: Experimental evidence for zebrafish sORFs. (ODS 49 kb)
DOI: 10.6084/m9.figshare.c.3645893_d22.v1
title: Additional file 14: Table S8. of Extensive identification and analysis of conserved small ORFs in animals

description: Summary of datasets used in Fig.Â 6a (ribosome profiling). (ODS 14 kb)
DOI: 10.6084/m9.figshare.c.3645893_d25.v1
title: Additional file 3: Table S2. of Extensive identification and analysis of conserved small ORFs in animals

description: All sORF information for mouse. (TXT 3192 kb)
DOI: 10.6084/m9.figshare.c.3645893_d24.v1
title: Additional file 24: Table S13. of Extensive identification and analysis of conserved small ORFs in animals

description: Experimental evidence for fruit fly sORFs. (ODS 69 kb)
DOI: 10.6084/m9.figshare.c.3645980_d2.v1
title: Additional file 2 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S2. Mappings from each of the FANTOM5 project primary cell-type samples to its facet, sub-facet and cell-type group. CELL_TYPE: Name of the cell-type group that each sample was finally assigned to. The sample expression data was combined using these groups to produce expression profiles for 73 cell types. If the value in CELL_TYPE is NA then the sample was discarded, either due to a lack of replicate samples or because of the quality-control procedures. (XLS 42.5 kb)
DOI: 10.6084/m9.figshare.c.3645980_d6.v1
title: Additional file 11 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S6. Disease-associated cell types identified by the GSC method with an FDR of 10 %. DISEASE: Disease name. CELL_TYPE: Cell-type name. P_VALUE: Unadjusted P value computed using the GSC method. Q_VALUE: Minimum FDR at which the association can be declared significant, computed using the Benjaminiâ  Hochberg procedure for multiple testing. SIG_GSO: Whether the association is declared significant using the GSO method at an FDR of 10 %. SIG_TEXT: Whether the association is declared significant using text-mining at an FDR of 10 %. (XLS 78 kb)
DOI: 10.15468/dl.uavqhp
title: Occurrence Download

description: A dataset containing 2167 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Phaethornis mexicanus Hartert, 1897"
 ]
}

 The dataset includes 2167 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038012-241126133413365/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.3645980_d7.v1
title: Additional file 1 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S1. Diseaseâ  gene associations extracted from DisGeNET used in the analyses. DISEASE: Name of the disease in the analysis. GENE: Ensembl gene identifier of the associated gene. PUBMED_ID: PubMed identifiers reported by DisGeNET as supporting the association between the gene and the disease. SNP_ID: dbSNP identifiers reported by DisGeNET as linking the gene to the disease. (XLS 830 kb)
DOI: 10.6084/m9.figshare.c.3645980_d9.v1
title: Additional file 4 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S4. Performance of the GSC method when applied to sets of diseases with different numbers of associated genes. Performance is measured using associations identified by the text-mining as true positives. Sets of diseaseâ  cell-type associations were produced by applying an FDR cutoff of 10 % to the GSC and text-mined associations. Overlap significance was measured using Fisherâ  s exact test. The GSC method cannot be applied to diseases with only one associated gene and for this reason, the corresponding statistics are not available. (XLS 7.50 kb)
DOI: 10.6084/m9.figshare.c.3645980_d10.v1
title: Additional file 10 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S5. Diseaseâ  cell-type association P values computed using the GSC method. (XLS 686 kb)
DOI: 10.6084/m9.figshare.c.3646001_d3.v1
title: Additional file 16: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Number of effects of SNPs and InDels on various regions of genes. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d6.v1
title: Additional file 14: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Chromosome-wise distribution of repeat elements in HR-12 genome. (XLSX 29Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d5.v1
title: Additional file 6: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Genome sizes of indica cultivars. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d8.v1
title: Additional file 5: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Assembly quality assessment by QUAST. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d11.v1
title: Additional file 4: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Short and long read assembly statistics of HR-12. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d9.v1
title: Additional file 9: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Unique genes in HR-12 genome. (XLSX 97Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d12.v1
title: Additional file 12: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Unique SSRs in HR-12 genome in comparison with Nipponbare and 93â  11. (XLSX 133Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d13.v1
title: Additional file 15: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Functional annotation of variants in Co-39, HR-12, Tetep and Tadukan varieties. (XLSX 18Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d14.v1
title: Additional file 10: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Gene under positive selection in indica-indica and indica-japonica comparisons. (XLSX 21Â kb)
DOI: 10.6084/m9.figshare.c.3646007_d1.v1
title: Additional file 2: Table S4. of Seeking consent for research with indigenous communities: a systematic review

description: Research describing the consent process with Indigenous populations in detail. (XLSM 50Â kb)
DOI: 10.6084/m9.figshare.c.3646001_d15.v1
title: Additional file 13: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Repeat content in HR-12, Nipponbare and 93â  11 genomes. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3646007_d3.v1
title: Additional file 4: Table S6. of Seeking consent for research with indigenous communities: a systematic review

description: National guidelines on seeking consent for research with Indigenous populations. (XLSX 40Â kb)
DOI: 10.6084/m9.figshare.c.3646007_d5.v1
title: Additional file 5: Table S7. of Seeking consent for research with indigenous communities: a systematic review

description: State/Regional/Local guidelines on seeking consent for research with Indigenous populations. (XLSX 35Â kb)
DOI: 10.6084/m9.figshare.c.3646007_d2.v1
title: Additional file 3: Table S5. of Seeking consent for research with indigenous communities: a systematic review

description: International guidelines for seeking consent for research with Indigenous populations. (XLSM 39Â kb)
DOI: 10.6084/m9.figshare.c.3646007_d4.v1
title: Additional file 1: Table S3. of Seeking consent for research with indigenous communities: a systematic review

description: Medical Subject Headings and key words used to search Medline. (XLSX 43Â kb)
DOI: 10.6084/m9.figshare.c.3646073_d1.v1
title: MOESM1 of Microcirculatory blood flow during cardiac arrest and cardiopulmonary resuscitation does not correlate with global hemodynamics: an experimental study

description: Additional file 1. Detailed data supporting conclusions of our article.
DOI: 10.6084/m9.figshare.c.3646076_d1.v1
title: Additional file 1: of Mosquito communities and disease risk influenced by land use change and seasonality in the Australian tropics

description: Table S1. Abundance. Table S2. Dry Season 1. Table S3. Dry Season 2. Table S4. Wet Season 1. Table S5. Wet Season 2 (XLS 83.5 kb)
DOI: 10.6084/m9.figshare.c.3646094_d1.v1
title: Additional file 1: of Pathosphere.org: pathogen detection and characterization through a web-based, openÂ source informatics platform

description: (zip 23 kb)
DOI: 10.6084/m9.figshare.c.3646103_d2.v1
title: Additional file 3: of Towards a molecular taxonomic key of the Aurantioideae subfamily using chloroplastic SNP diagnostic markers of the main clades genotyped by competitive allele-specific PCR

description: List of the selected SNPs for KASPar marker development with the sequences of surrounding 50 bases each side and the Bayer et al. (2009) clade theoretically differentiated. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3646103_d1.v1
title: Additional file 4: of Towards a molecular taxonomic key of the Aurantioideae subfamily using chloroplastic SNP diagnostic markers of the main clades genotyped by competitive allele-specific PCR

description: Example of diagnostic SNP mining in the region rps4-trnT in the position 49301 distinguishing the accessions of clade Q (A) from all other Aurantioideae accessions (G). (XLSX 38Â kb)
DOI: 10.6084/m9.figshare.c.3646103_d3.v1
title: Additional file 1: of Towards a molecular taxonomic key of the Aurantioideae subfamily using chloroplastic SNP diagnostic markers of the main clades genotyped by competitive allele-specific PCR

description: Sequence accession (GenBank) used for SNP in silico mining and their classification in the Bayer et al. [21] analysis. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.c.3646103_d4.v1
title: Additional file 5: of Towards a molecular taxonomic key of the Aurantioideae subfamily using chloroplastic SNP diagnostic markers of the main clades genotyped by competitive allele-specific PCR

description: Sequence alignment of all Aurantioideae accessions for the eight chloroplast regions. (XLSX 3440Â kb)
DOI: 10.6084/m9.figshare.c.3646103_d5.v1
title: Additional file 2: of Towards a molecular taxonomic key of the Aurantioideae subfamily using chloroplastic SNP diagnostic markers of the main clades genotyped by competitive allele-specific PCR

description: List of plant material used for KASPar analysis. (XLSX 143Â kb)
DOI: 10.6084/m9.figshare.c.3646106_d1.v1
title: Additional file 1: of Monitoring for bovine arboviruses in the most southwestern islands in Japan between 1994 and 2014

description: Primers used for RT-PCR and sequencing in this study. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3646106_d2.v1
title: Additional file 2: of Monitoring for bovine arboviruses in the most southwestern islands in Japan between 1994 and 2014

description: Seropositive rate to arboviruses in the Yaeyama Islands from 1995 to 2014. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3646139_d4.v1
title: Additional file 5: Table S5. of Integrated metabolic modelling reveals cell-type specific epigenetic control points of the macrophage metabolic network

description: Lists of the significantly up- (sheet 1) and down-regulated genes (sheet 2) (FDR 1)) during monocyte to macrophage differentiation. Columns represent probe IDs, Gene symbol, log2 ratio between day 2 and day 11 of differentiation, fold change between the same time points, the p-value obtained after performing Empirical bayesian statistique (limma) and the FDR. (XLSX 186 kb)
DOI: 10.6084/m9.figshare.c.3646139_d5.v1
title: Additional file 4: of Integrated metabolic modelling reveals cell-type specific epigenetic control points of the macrophage metabolic network

description: Reconstructed models in SBML format. The zipped file with 3 subfolders (cancer, monocyte and macrophage models, 156 primary cells models) contains 2 cancer models (cancer 1, cancer 2), 4 macrophage models (day 2, day 4, day 7, day 11), and 156 primary cells models, respectively. (7z 25 mb)
DOI: 10.6084/m9.figshare.c.3646139_d6.v1
title: Additional file 3: Table S4. of Integrated metabolic modelling reveals cell-type specific epigenetic control points of the macrophage metabolic network

description: List of selected 156 arrays ordered in function the Jaccard similarity index used for Fig. 1 and of the remaining 745 arrays that compose the primary cell atlas dataset. The first column contains the Gene Omnibus ID of the arrays. The second and third column contains a description of the arrays and the array names and the last column the order of the arrays in the cluster plot (Fig. 1a) from left to right. Arrays stated as not selected were not depicted for the Fig. 1 but were used to produce together with 156 arrays to produce Figs. 5 and 7. (XLSX 39 kb)
DOI: 10.6084/m9.figshare.c.3646160_d1.v1
title: Additional file 1: Figure S1a. of A mixed method study exploring adherence to and acceptability of small quantity lipid-based nutrient supplements (SQ-LNS) among pregnant and lactating women in Ghana and Malawi

description: Participant flow in Ghana, CONSORT recommended format. Figure S1b. Participant flow in Malawi, CONSORT recommended format. (ZIP 10 kb)
DOI: 10.6084/m9.figshare.c.3646202_d1.v1
title: MOESM3 of A high-density SNP panel reveals extensive diversity, frequent recombination and multiple recombination hotspots within the chicken major histocompatibility complex B region between BG2 and CD1A1

description: Additional file 3: Table S3. Detected MHC SNP-based recombinant haplotypes. Information includes the parental haplotypes and the range (defined by SNPs) within which each recombination occurred.
DOI: 10.6084/m9.figshare.c.3646202_d2.v1
title: MOESM1 of A high-density SNP panel reveals extensive diversity, frequent recombination and multiple recombination hotspots within the chicken major histocompatibility complex B region between BG2 and CD1A1

description: Additional file 1: Table S1. SNPs used for the MHC panel. Genes and bp locations are provided based on the sequence [GenBank: AB268588] as well as the primer sequences that were used to develop the KASP-based detection assay.
DOI: 10.6084/m9.figshare.c.3646202_d3.v1
title: MOESM2 of A high-density SNP panel reveals extensive diversity, frequent recombination and multiple recombination hotspots within the chicken major histocompatibility complex B region between BG2 and CD1A1

description: Additional file 2: Table S2. Detected MHC SNP-based haplotypes. MHC SNP-based information for all haplotypes detected for the serologically-defined lines, commercial elite layer stocks and heritage breeds.
DOI: 10.6084/m9.figshare.c.3646208_d6.v1
title: Additional file 2: Table S1. of Patient-derived heavy chain antibody targets cell surface HSP90 on breast tumors

description: List of different HSP90 peptides identified from HCAb2 immunoprecipitated gel band using mass spectrometry. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3646280_d1.v1
title: Additional file 1: Table S1. of 
                     SpoTyping: fast and accurate in silico Mycobacterium spoligotyping from sequence reads

description: Spoligotype prediction and time performance of 161 Mtb isolates with SpoTyping in comparison with SpolPred. Table S2. Spoligotypes of 14 Mtb isolates determined from contigs obtained by de novo assembly, Velvet. Table S3. Actual length at different percentiles used as the read length for SpolPred spoligotype prediction of isolates sequenced on Illumina MiSeq. Table S4. Spoligotype prediction for Mtb isolates sequenced by Illumina MiSeq with SpoTyping in comparison with SpolPred. Table S5. Actual length at different percentiles used as the read length for SpolPred spoligotype prediction of isolates sequenced on Ion Torrent. Table S6. Spoligotype prediction for Mtb isolates sequenced by Ion Torrent with SpoTyping in comparison with SpolPred. Table S7. Statistics of time and accuracy of running SpoTyping on 50 iterations each for various down-sampling ratios of an H37Ra Mtb isolate. Table S8. Statistics of time and accuracy of running SpoTyping on 50 iterations each for various down-sampling ratios of a Beijing Mtb isolate. Table S9. Lineages of 14 discordant Mtb isolates by SpoTyping, experimentally reported and phylogenetic tree. (XLSX 55 kb)
DOI: 10.6084/m9.figshare.c.3646337_d5.v1
title: Additional file 1: Table S1. of The WRKY transcription factor family and senescence in switchgrass

description: The WRKY gene family in switchgrass. (XLSX 25Â kb)
DOI: 10.6084/m9.figshare.c.3646337_d4.v1
title: Additional file 2: Table S2. of The WRKY transcription factor family and senescence in switchgrass

description: WRKY genes in the pro-senescence and early season clusters. (XLSX 9Â kb)
DOI: 10.6084/m9.figshare.c.3646340_d1.v1
title: Additional file 2: of Quality of life and symptoms before and after nasal septoplasty compared with healthy individuals

description: Spreadsheet that include information from the control group of healthy persons about Qol and symptoms given in the SNOT-20 questionnaire and on VASs. (XLS 58Â kb)
DOI: 10.6084/m9.figshare.c.3646340_d2.v1
title: Additional file 1: of Quality of life and symptoms before and after nasal septoplasty compared with healthy individuals

description: Spreadsheet that include information from the patients about Qol and symptoms given in the SNOT-20 questionnaire and on VASs. (XLSX 51Â kb)
DOI: 10.6084/m9.figshare.c.3646346_d1.v1
title: Additional file 2: of Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancer

description: CCDS longest isoform sequences in FASTA format. (FASTA 10762 kb)
DOI: 10.6084/m9.figshare.c.3646346_d3.v1
title: Additional file 6: of Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancer

description: Table of protein interaction modules with PTM-specific mutations and survival correlations from HyperModules. (CSV 42 kb)
DOI: 10.6084/m9.figshare.c.3646346_d2.v1
title: Additional file 5: of Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancer

description: Table of network of PTM proteins and interacting PTM enzymes used in HyperModules analysis. Interactions of acetylation proteins and ubiquitination proteins are shown separately. (CSV 377 kb)