cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.8856wg
title: Occurrence Download

description: A dataset containing 100 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Auxis thazard (Lacepède, 1800)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 100 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032257-241126133413365/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.3601265_d3
title: Additional file 2: of Characterization of Mycobacterium tuberculosis isolates from Hebei, China: genotypes and drug susceptibility phenotypes

description: Detailed information about New and orphan spoligotype patterns isolated from 1017 MTB strains in Hebei. (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.c.3601247_d7
title: Additional file 3: of The green ash transcriptome and identification of genes responding to abiotic and biotic stresses

description: Simple Sequence Repeat (SSR) information. A summary of identified SSRs is provided with additional spreadsheets listing all di-nucleotide, tri-nucelotide and tetra-nucleotide SSRs with their primer sequences. (XLSX 40Â kb)
DOI: 10.6084/m9.figshare.c.3601247_d5
title: Additional file 2: of The green ash transcriptome and identification of genes responding to abiotic and biotic stresses

description: Incremental assemblies. For each of the nine incremental assemblies, the libraries included are listed and assembly statistics are provided for transcripts and peptides. (XLSX 39Â kb)
DOI: 10.6084/m9.figshare.c.3601247_d6
title: Additional file 7: of The green ash transcriptome and identification of genes responding to abiotic and biotic stresses

description: InterProScan results. InterProScan [34] queries sequences against 16 member databases enabling protein classification by family as well as by conserved domains; the number of annotations and the percent of sequences receiving annotations varied across the different databases. (XLSX 32Â kb)
DOI: 10.6084/m9.figshare.c.3601247_d4
title: Additional file 4: of The green ash transcriptome and identification of genes responding to abiotic and biotic stresses

description: Differential expression results. Each differential expression experiment is included as a separate table and includes a transcript name and all output from DESeq2 including log fold change and adjusted p-values. Annotation information available for each transcript has been added. (XLSX 3320Â kb)
DOI: 10.6084/m9.figshare.c.3601247_d3
title: Additional file 1: of The green ash transcriptome and identification of genes responding to abiotic and biotic stresses

description: Raw and trimmed RNASeq data. For each of the 55 green ash libraries, statistics are provided for each Illumina instrument run including: number of raw reads, number of raw bases, number of reads after trimming, number of bases after trimming, alignment rate to transcriptome. (XLSX 22Â kb)
DOI: 10.25810/hx7m-ct48
title: FIRED Eritrea Nov 2000 - July 2024

description: This is event-level polygons for the fire event delineation (FIRED) product for ERITREA from November 2000  to August 2024. It is derived from the MODIS MCD64A1 burned area product (see https://lpdaac.usgs.gov/products/mcd64a1v061/ for more details). The MCD64A1 is a monthly raster grid of estimated burned dates. Firedpy (https://github.com/earthlab/firedpy) is an algorithm that converts these rasters into events by stacking the entire time series into a spatial-temporal data cube, then uses an algorithm to assign event identification numbers to pixels that fit into the same 3-dimensional spatial temporal window. This particular dataset was created using a spatial parameter of 1 pixels and 5 days. Daily polygons are included and the event identification numbers are the same for both files, but the event-level product has only single polygons for each entire event, while the daily product has separate polygons for each date per event. See the associated paper for more details on the methods and more:

Balch, J.K.; St. Denis, L.A.; Mahood, A.L.; Mietkiewicz, N.P.; Williams, T.M.; McGlinchy, J.; Cook, M.C. FIRED (Fire Events Delineation): An Open, Flexible Algorithm and Database of US Fire Events Derived from the MODIS Burned Area Product (2001–2019). Remote Sens. 2020, 12, 3498. https://doi.org/10.3390/rs12213498
DOI: 10.6084/m9.figshare.c.3601031_d2
title: Additional file 2: Table S1. of Expression and knockdown of zebrafish folliculin suggests requirement for embryonic brain morphogenesis

description: Absolute numbers of embryos after injection with control, mismatch or flcn morpholinos. Columns show: injection group - where each group was injected on a different day, treatment group â   where embryos were either uninjected, injected with control MO, flcn ATG MO, flcn sp1 MO, flcn sp1 MM, flcn sp2 MO or flcn sp2 MM, classification of embryos â   showing the number of embryos which are dead, normal or abnormal. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.c.3600731_d13
title: Additional file 7: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: Summary of base edit in three libraries. Note: The data in this supplementary file can be seen in the Excel spreadsheet.
DOI: 10.6084/m9.figshare.c.3600731_d11
title: Additional file 13: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: Predicted target genes for novel miRNA. Note: The data in this supplementary file can be seen in the Excel spreadsheet.
DOI: 10.6084/m9.figshare.c.3600731_d10
title: Additional file 12: of Effect of differentiation on microRNA expression in bovine skeletal muscle satellite cells by deep sequencing

description: Predicted target genes for up-regulation miRNA. Note: The data in this supplementary file can be seen in the Excel spreadsheet.
DOI: 10.6084/m9.figshare.c.3600551_d8
title: Additional file 4: Table S3. of Tracing the expression of circular RNAs in human pre-implantation embryos

description: Sequencing statistics and circRNA candidates of hESCs in this study. (XLS 77 kb)
DOI: 10.6084/m9.figshare.c.3600551_d6
title: Additional file 1: Table S1. of Tracing the expression of circular RNAs in human pre-implantation embryos

description: Sequencing statistics summary of samples analyzed in this study. (XLS 65 kb)
DOI: 10.6084/m9.figshare.c.3600551_d5
title: Additional file 5: Table S4. of Tracing the expression of circular RNAs in human pre-implantation embryos

description: CLR value of circRNA during human pre-implantation development. The log2-transformed values of CLR for all circRNA hosting genes at all developmental stages were listed. NAN means this hosting gene have not circRNA reads at this stage. (XLSX 245 kb)
DOI: 10.6084/m9.figshare.c.3600551_d4
title: Additional file 7: Table S6. of Tracing the expression of circular RNAs in human pre-implantation embryos

description: A total of 2322 novel assembled gene RPKM cluster and transcripts locus information. (XLS 4066 kb)
DOI: 10.6084/m9.figshare.c.3600551_d3
title: Additional file 3: Table S2. of Tracing the expression of circular RNAs in human pre-implantation embryos

description: Normalized RPKM of RefSeq gene. Corresponding to Fig.Â 2b, the 5573 RefSeq genes clustered in group 1 were defined as maternal genes and the 7427 genes in groups 2 to 5 transcribed de novo at later stages from the late 4-cell stage were defined as zygotically activated genes. (XLSX 1359 kb)
DOI: 10.6084/m9.figshare.c.3600551_d1
title: Additional file 6: Table S5. of Tracing the expression of circular RNAs in human pre-implantation embryos

description: Circular RNA detected in human embryos and list of circRNA hosting genes in H9 Cell. The circRNA hosting genes in H9 cell line were filtered as the reads counts &gt;1 according to the Supplemental Table in a previously published paper [12]. (XLS 1349 kb)
DOI: 10.6084/m9.figshare.c.3600485_d3
title: Additional file 2: of Identification of genomic sites for CRISPR/Cas9-based genome editing in the Vitis vinifera genome

description: Numbers and compositions of the observed PAMs on individual chromosomes. (XLS 33 kb)
DOI: 10.15468/dl.zxzmk2
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Scomber thazard Lacepède, 1800",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032258-241126133413365/datasets/export for details.
DOI: 10.6084/m9.figshare.c.3600422_d2
title: Additional file 5: Table S5. of Whole-genome transcription and DNA methylation analysis of peripheral blood mononuclear cells identified aberrant gene regulation pathways in systemic lupus erythematosus

description: Hypomethylated or hypermethylated CpG sites associated with the commonly up- or downregulated genes in SLE. S5-1 showed a complete list of 1065 hypomethylated CpG sites that were associated with 333 upregulated genes in SLE, and the normalized Î˛ values of each site for NC and SLE samples. S5-2 showed 3024 hypermethylated CpG sites that were associated with 478 downregulated genes, and the normalized Î˛ values of each site for NC and SLE samples. (XLSX 2264 kb)
DOI: 10.6084/m9.figshare.c.3600374_d5
title: Additional file 3: of Development of genome-wide insertion and deletion markers for maize, based on next-generation sequencing data

description: Polymorphic indel markers (3 bp). The indel markers had PIC values ≥ 0.5, and major allele differences ≥ 3 bp. (XLSX 17940 kb)
DOI: 10.6084/m9.figshare.c.3600374_d4
title: Additional file 1: of Development of genome-wide insertion and deletion markers for maize, based on next-generation sequencing data

description: List of inbred lines sequenced. (XLSX 39 kb)
DOI: 10.6084/m9.figshare.c.3600374_d2
title: Additional file 4: of Development of genome-wide insertion and deletion markers for maize, based on next-generation sequencing data

description: Polymorphic indel markers (8 bp). The indel markers had PIC values ≥ 0.5, and major allele differences ≥ 8 bp. (XLSX 6664 kb)
DOI: 10.6084/m9.figshare.c.3600374_d3
title: Additional file 5: of Development of genome-wide insertion and deletion markers for maize, based on next-generation sequencing data

description: Indel marker experimental validation. (XLSX 16 kb)
DOI: 10.15468/dl.qq4cek
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "EventDate is 1968-01-18",
 "OccurrenceStatus is Present",
 "RecordNumber is 18491",
 "RecordedBy is one of (HATSCHBACH, HATSCHBACH, G., Hatschbach, Hatschbach , G., Hatschbach C., Hatschbach G., Hatschbach, G. G., G. HATSCHBACH, G. G. Hatschbach)"
 ]
}

 The dataset includes 4 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032259-241126133413365/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.3600350_d7
title: Additional file 8: of Discrete phenotypes are not underpinned by genome-wide genetic differentiation in the squat lobster Munida gregaria (Crustacea: Decapoda: Munididae): a multi-marker study covering the Patagonian shelf

description: Data S2. Microsatellite data file for each ecotype under three major sampling areas. (TXT 17Â kb)
DOI: 10.6084/m9.figshare.c.3600374_d1
title: Additional file 2: of Development of genome-wide insertion and deletion markers for maize, based on next-generation sequencing data

description: Genome differences between varieties and B73. (XLSX 37 kb)
DOI: 10.6084/m9.figshare.c.3600350_d1
title: Additional file 7: of Discrete phenotypes are not underpinned by genome-wide genetic differentiation in the squat lobster Munida gregaria (Crustacea: Decapoda: Munididae): a multi-marker study covering the Patagonian shelf

description: Data S1. Cytochrome c oxidase subunit I (COI) sequence alignment file. (NEXUS 59Â kb)
DOI: 10.15482/usda.adc/27910500
title: Data from: Comparative Analysis Reveals Genomic Characteristics in <i>R-genes</i> for HLB Resistance in Wild Australian Limes

description: Huanglongbing (HLB) is a devastating citrus disease that threatens the citrus industry globally. HLB is associated with the bacteria <i>Candidatus </i>Liberibacter asiaticus (<i>C</i>Las) and lacks tools for economically viable disease management. Previous field evaluation of citrus germplasm identified Australian wild limes as naturally tolerant/resistant to HLB. The resistance was hypothesized to be conferred by resistance genes (<i>R-genes</i>), the products of which mediate pathogen-specific defense responses. To gain insight into the mechanisms underlying HLB-resistance on the genomic level, we annotated and characterized the <i>R-genes</i> in the genomes of five citrus species with different HLB-resistance levels. Among these species, three were wild Australian limes rated as HLB-resistant (<i>Citrus glauca</i>) and HLB-tolerant (<i>C. australasica </i>and<i> C. inodora</i>), and two were cultivated species (<i>C. clementina</i> and <i>C. sinensis</i>) both rated as susceptible.
DOI: 10.15482/usda.adc/27910500.v1
title: Data from: Comparative Analysis Reveals Genomic Characteristics in <i>R-genes</i> for HLB Resistance in Wild Australian Limes

description: Huanglongbing (HLB) is a devastating citrus disease that threatens the citrus industry globally. HLB is associated with the bacteria <i>Candidatus </i>Liberibacter asiaticus (<i>C</i>Las) and lacks tools for economically viable disease management. Previous field evaluation of citrus germplasm identified Australian wild limes as naturally tolerant/resistant to HLB. The resistance was hypothesized to be conferred by resistance genes (<i>R-genes</i>), the products of which mediate pathogen-specific defense responses. To gain insight into the mechanisms underlying HLB-resistance on the genomic level, we annotated and characterized the <i>R-genes</i> in the genomes of five citrus species with different HLB-resistance levels. Among these species, three were wild Australian limes rated as HLB-resistant (<i>Citrus glauca</i>) and HLB-tolerant (<i>C. australasica </i>and<i> C. inodora</i>), and two were cultivated species (<i>C. clementina</i> and <i>C. sinensis</i>) both rated as susceptible.
DOI: 10.6084/m9.figshare.c.3600290_d3
title: Additional file 8: Table S7. of Gene expression profile indicates involvement of NO in Camellia sinensis pollen tube growth at low temperature

description: The 125 DEGs identified from the comparison between CK-VS-LT and CK-VS-NO. (XLS 89 kb)
DOI: 10.6084/m9.figshare.c.3600290_d1
title: Additional file 2: Table S1. of Gene expression profile indicates involvement of NO in Camellia sinensis pollen tube growth at low temperature

description: DEGs identified from the comparison between control (CsPT-CK) and 4 °C-treated (CsPT-LT) pollen tbues. All of the samples were replicated three times. CK and LT FPKM: fragments per kb per million reads for each unigene in the CK and LT libraries, respectively. The log2Ratio (LT/CK): ratio between the FPKM of LT and CK. The absolute values of log2Ratio &gt; 1 and probability &gt; 0.7 were used as threshold for assigning significance. Annotation of DEGs against NR, NT, Swiss-Prot protein, KEGG, COG and GO were all reported in the tables. “-”: no hit. (XLS 381 kb)
DOI: 10.6084/m9.figshare.c.3600206_d7
title: Additional file 1: of DGCA: A comprehensive R package for Differential Gene Correlation Analysis

description: Gene sets used in the enrichment analysis for the breast cancer modules. The five cleaned gene sets used for enrichment analysis of the differential correlation modules. (TSV 9Â kb)
DOI: 10.6084/m9.figshare.c.3600206_d6
title: Additional file 3: of DGCA: A comprehensive R package for Differential Gene Correlation Analysis

description: Differential expression output from the p53 mutation study. The results of differential expression (using the R package limma) on the input breast cancer RNA-seq data filtered for genes in the p53-pathway. Note that the contrast called in limma used p53 non-mutated samples as the reference condition, so positive logFC values are upregulated in the mutant condition compared to wildtype, while negative logFC values are downregulated in the mutant condition compared to wildtype. (TSV 33Â kb)
DOI: 10.6084/m9.figshare.c.3600206_d5
title: Additional file 2: of DGCA: A comprehensive R package for Differential Gene Correlation Analysis

description: Full table for differential correlation output from the p53 mutation study. The output of running DGCA on the p53 pathway gene set in the breast cancer RNA-seq samples, comparing correlations of these genes with TP53 in non-mutated samples to correlations in p53-mutated samples, using the option to consider only positive correlations in calculate differential correlation between conditions. The “Classes” column indicates the correlation class of each of the genes where, e.g., “+/0” indicates a significant positive correlation in the non-mutated samples and no significant correlation in the p53-mutated samples. Note that the significance for the correlations within each condition is not adjusted for multiple comparisons. 10,000 permutation samples were generated in order to estimate empirical p-values, using a pooled reference distribution approach, from which q-values were calculated. WT = Wildtype, Mut. = Non-silent p53 mutation. (TSV 46 kb)
DOI: 10.6084/m9.figshare.c.3600206_d4
title: Additional file 6: of DGCA: A comprehensive R package for Differential Gene Correlation Analysis

description: Differential expression output from the PTEN mutation study. The results of differential expression (using the R package limma) on the input breast cancer RNA-seq data filtered for genes in the PTEN-pathway. Note that the contrast called in limma used PTEN wildtype samples as the reference condition, so positive logFC values are upregulated in the mutant condition compared to wildtype, while negative logFC values are downregulated in the mutant condition compared to wildtype. (TSV 7Â kb)
DOI: 10.6084/m9.figshare.c.3600206_d3
title: Additional file 5: of DGCA: A comprehensive R package for Differential Gene Correlation Analysis

description: Full table for differential correlation output from the PTEN mutation study. The output of running DGCA on the PTEN pathway gene set in the breast cancer RNA-seq samples, comparing correlations of these genes with PTEN in non-mutated samples to correlations in PTEN-mutated samples. The “Classes” column indicates the correlation class of each of the genes where, e.g., “+/0” indicates a significant positive correlation (p
DOI: 10.6084/m9.figshare.c.3600188_d8
title: Additional file 2: Table S2. of Divergence and adaptive evolution of the gibberellin oxidase genes in plants

description: GA oxidases in the species analyzed in this study. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3600188_d7
title: Additional file 3: Data S1. of Divergence and adaptive evolution of the gibberellin oxidase genes in plants

description: Alignment of putative GA oxidase sequences. (FASTA 1761Â kb)
DOI: 10.6084/m9.figshare.c.3600206_d2
title: Additional file 7: of DGCA: A comprehensive R package for Differential Gene Correlation Analysis

description: Differential correlation modules from each method analyzed. Genes identified in each of the differential correlation modules with &gt;25 and &lt;1000 members by DGCA/MEGENA, DICER, and DiffCoEx from the same filtered ER+ vs TNBC RNA expression data set. (TSV 360Â kb)
DOI: 10.15468/dl.ebsutt
title: Occurrence Download

description: A dataset containing 329 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ovalipes punctatus (De Haan, 1833)",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 329 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032260-241126133413365/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.3600134_d7
title: Additional file 1: of Novel regional age-associated DNA methylation changes within human common disease-associated loci

description: BED file of a-DMRs with UCSC browser header. (BED 1Â kb)
DOI: 10.6084/m9.figshare.c.3600164_d2
title: Additional file 1: of Strand-specific RNA-Seq transcriptome analysis of genotypes with and without low-phosphorus tolerance provides novel insights into phosphorus-use efficiency in maize

description: Statistics of RNA sequences in roots (A) and shoots (B) in maize inbred lines 31778 and CCM454. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3600164_d1
title: Additional file 5: of Strand-specific RNA-Seq transcriptome analysis of genotypes with and without low-phosphorus tolerance provides novel insights into phosphorus-use efficiency in maize

description: List of genes with significant expression differences in the shoots of inbred lines 31778 and CCM454 under sufficient condition. (XLSX 417Â kb)
DOI: 10.6084/m9.figshare.c.3600134_d6
title: Additional file 7: of Novel regional age-associated DNA methylation changes within human common disease-associated loci

description: BED file of combined 14 ageing studies. (BED 2508Â kb)
DOI: 10.6084/m9.figshare.c.3600134_d3
title: Additional file 2: of Novel regional age-associated DNA methylation changes within human common disease-associated loci

description: Supplementary Tables S1â  7. (XLSX 1125Â kb)
DOI: 10.6084/m9.figshare.c.3599960_d1
title: Additional file 1: of Comparison of early changes in and factors affecting vault following posterior chamber phakic Implantable Collamer Lens implantation without and with a central hole (ICL V4 and ICL V4c)

description: ICL V4, ICL V4c, respectively. Preoperative parameters, vault, respectively. There are 2 sheets named ICL V4 and ICL V4c, each sheet has 2 excels named preoperative parameters and vault, respectively. All the preoperative parameters of ICL V4 and ICL V4c are recorded in the excel “preoperative parameters” and the postoperative vault and the pupil size and their changes are recorded in the excel “vault”. (ZIP 25 kb)
DOI: 10.15468/dl.8tbx98
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cheracebus regulus (Thomas, 1927)"
 ]
}

 The dataset includes 14 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032262-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5yvhqj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Corystes punctatus De Haan, 1833",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032261-241126133413365/datasets/export for details.
DOI: 10.6084/m9.figshare.c.3599840_d8
title: MOESM5 of Loss of function of folylpolyglutamate synthetase 1 reduces lignin content and improves cell wall digestibility in Arabidopsis

description: Additional file 5: Table S3. mAbs detecting significant differences between wild-type and fpgs1 mutants stem serial extracts.
DOI: 10.6084/m9.figshare.c.3599882_d1
title: Additional file 1: of Potential role of p21 Activated Kinase 1 (PAK1) in the invasion and motility of oral cancer cells

description: The FASTA sequences of differentially expressed genes were examined using GPS2.1 software to analyse the presence of PAK1 phosphorylation sites. Using highly stringent condition, we recognized 26 genes with putative PAK1 phosphorylation sites. (XLSX 10 kb)