cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3645449_d1.v1
title: Additional file 1: of Estimated herd prevalence and sequence types of Coxiella burnetii in bulk tank milk samples from commercial dairies in Indiana

description: Sample selection, county level prevalence and sequence typing data. This table details the number of samples provided, sample proportional to size calculations, the number of samples tested by county, PHPD and region for C. burnetii and the ST of C. burnetii identified. Counties labelled with # had samples submitted for sequence typing with CTs above the cutoff for identification as positive in this study. Parke county, labelled with *, was the source of the sample that contained both ST20 and ST8. This sample is included in the total count of ST20 and ST8 in this table. Jasper county had samples submitted that were not on the initial documentation and were not included in sample size calculations based on 1385 samples. These samples were accounted for with sample size calculations based on the 1167 samples received. (XLS 44 kb)
DOI: 10.15468/dl.9p6z8w
title: Occurrence Download

description: A dataset containing 197228 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, Mexico, United States of America)",
 "EventDate is greater than or equal to 2024-11-22",
 "EventDate is less than or equal to 2024-12-22",
 {
 "not" : {
 "Issue" : [
 "is one of (Basis of record invalid, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate precision invalid, Coordinate uncertainty meters invalid, Country mismatch, Country invalid, Geodetic datum invalid, Presumed swapped coordinate, Presumed negated longitude, Presumed negated latitude, Country coordinate mismatch)"
 ]
 }
 }
 ]
}

 The dataset includes 197228 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037993-241126133413365/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.3645527_d11.v1
title: Additional file 13: Table S6. of Transcriptome and metabolite profiling reveals that prolonged drought modulates the phenylpropanoid and terpenoid pathway in white grapes (Vitis vinifera L.)

description: Differentially expressed genes. Summary of differentially expressed genes (P
DOI: 10.6084/m9.figshare.c.3645527_d14.v1
title: Additional file 8: Table S7. of Transcriptome and metabolite profiling reveals that prolonged drought modulates the phenylpropanoid and terpenoid pathway in white grapes (Vitis vinifera L.)

description: Network analysis metrics. Detailed information concerning the various metabolite/transcript annotations, correlation relationships (PCC), and statistical significance (empirical P value) are depicted for the global (C and D) metabolite-metabolite network (A) and metabolite-transcript network in C (B) and D (C). Frequency tables for the significant metabolite-transcript correlations from (B) and (C) are summarized in (D). Correlation values (PCC, statistical significance of PCC, and correlation ranks) for the predicted monoterpene (linalool, nerol, and α-terpineol)-transcript network reported in Fig. 8a (E). Contingency tables containing enriched (P
DOI: 10.6084/m9.figshare.c.3645581_d1.v1
title: Additional file 2: of Detection of genomic signatures of recent selection in commercial broiler chickens

description: Table S2. Putative selection regions detected by XP-CLR test (XLSX 92 kb)
DOI: 10.6084/m9.figshare.c.3645581_d3.v1
title: Additional file 5: of Detection of genomic signatures of recent selection in commercial broiler chickens

description: Table S5. Major haplotypes and their frequencies detected in the purebred lines at the high-confidence selection regions that span at least 5 SNPs in our genotype data (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3645581_d7.v1
title: Additional file 8: of Detection of genomic signatures of recent selection in commercial broiler chickens

description: Table S8. Genes in regions detected using ZH scores that overlap with previous studies (XLSX 34 kb)
DOI: 10.6084/m9.figshare.c.3645581_d5.v1
title: Additional file 1: of Detection of genomic signatures of recent selection in commercial broiler chickens

description: Table S1. Putative selection regions detected by XP-EHH test (XLSX 99 kb)
DOI: 10.6084/m9.figshare.c.3645581_d6.v1
title: Additional file 7: of Detection of genomic signatures of recent selection in commercial broiler chickens

description: Table S7. Candidate selection regions on autosomes detected using ZH scores (XLSX 33 kb)
DOI: 10.6084/m9.figshare.c.3645581_d4.v1
title: Additional file 3: of Detection of genomic signatures of recent selection in commercial broiler chickens

description: Table S3. Candidate selection regions detected by both XP-EHH and XP-CLR tests (XLSX 73 kb)
DOI: 10.6084/m9.figshare.c.3645581_d8.v1
title: Additional file 4: of Detection of genomic signatures of recent selection in commercial broiler chickens

description: Table S4. High-confidence selection regions detected by both methods (XP-EHH and XP-CLR) in 2 or more populations (XLSX 41 kb)
DOI: 10.6084/m9.figshare.c.3645587_d3.v1
title: Additional file 2: of Evolution and divergence of SBP-box genes in land plants

description: Summary of information on SBP-box genes from five land plant species: moss, Arabidopsis , poplar, rice and maize used in this study. (XLS 20Â kb)
DOI: 10.6084/m9.figshare.c.3645587_d4.v1
title: Additional file 4: of Evolution and divergence of SBP-box genes in land plants

description: The detail information of predicted targets for miR156 and miR529 in five land plants used in this study. (XLS 37Â kb)
DOI: 10.6084/m9.figshare.c.3645590_d2.v1
title: MOESM3 of Unbiased profiling of volatile organic compounds in the headspace of Allium plants using an in-tube extraction device

description: Additional file 3. Tentatively annotated VOCs in the HS of Allium plants collected with the ITEX device. The log2-fold change (log2FC) was calculated using the LIMMA package (see the “Methods” section). We analyzed three biological replicates of each Allium plant except for the white spring onion cultivar (class05, n = 2). The FDR was &lt;0.05. A2 tentatively identified by referring to the libraries (match value &gt;799); I identified by comparing the authentic standards.
DOI: 10.6084/m9.figshare.c.3645647_d1.v1
title: Additional file 1: of Difference in blood pressure between early and late menopausal transition was significant in healthy Korean women

description: Baseline characteristics of the study population excluding women taking antihypertensive drugs. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3645647_d2.v1
title: Additional file 2: of Difference in blood pressure between early and late menopausal transition was significant in healthy Korean women

description: Subject characteristics according to hypertensive status. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3645659_d1.v1
title: Additional file 12: of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Coding sequences alignment between those unigenes from C. brasiliense and their corresponding Arabidopsis homologs used in RT-qPCR assays. (TXT 29 kb)
DOI: 10.6084/m9.figshare.c.3645659_d3.v1
title: Additional file 2: Table S1. of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Annotation of C. brasiliense unigenes. (XLSX 20582 kb)
DOI: 10.6084/m9.figshare.c.3645659_d4.v1
title: Additional file 5: of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Coding sequences alignment between PAL-like C. brasiliense unigenes and Arabidopsis PAL1 protein. (TXT 8 kb)
DOI: 10.6084/m9.figshare.c.3645659_d5.v1
title: Additional file 10: of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Coding sequences alignment between PT-like unigenes from C. brasiliense and Petroselinum crispum PT protein. (TXT 9 kb)
DOI: 10.6084/m9.figshare.c.3645659_d6.v1
title: Additional file 7: of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Coding sequences alignment between C4H-like C. brasiliense and Arabidopsis C4H protein. (TXT 6 kb)
DOI: 10.6084/m9.figshare.c.3645659_d7.v1
title: Additional file 8: of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Coding sequences alignment between C. brasiliense and Arabidopsis 4CL proteins. (TXT 18 kb)
DOI: 10.6084/m9.figshare.c.3645695_d2.v1
title: Additional file 4: of Designing string-of-beads vaccines with optimal spacers

description: Detailed results for comparing string-of-beads vaccines of different lengths with and without spacers. Detailed results for the comparison of string-of-beads with spacers and without spacers including the string-of-beads sequences, predicted cleavage likelihoods, neo-immunogenicity, number of neo-epitopes, as well as the recovery rate of the desired epitopes. (XLS 299 kb)
DOI: 10.6084/m9.figshare.c.3645695_d4.v1
title: Additional file 3: of Designing string-of-beads vaccines with optimal spacers

description: Detailed results for comparing epitope pairs with and without spacers. Detailed results for the comparison of epitope pairs with spacers and without spacers including sequences of the paired epitopes and designed spacers, predicted cleavage likelihoods of the two induced cleavage sites, and the combined cleavage likelihood, as well as the neo-immunogenicity of the epitope pairâ  spacer construct. (XLS 1236 kb)
DOI: 10.6084/m9.figshare.c.3645695_d7.v1
title: Additional file 5: of Designing string-of-beads vaccines with optimal spacers

description: Detailed prediction results for the polypeptide proposed by Levy et al. Detailed results of the neo-epitope and cleavage site prediction analysis performed with PCM for cleavage site prediction, and with SYFPEITHI, BIMAS, and SMM for neo-epitope prediction for the polypeptide of Levy et al. (XLS 76 kb)
DOI: 10.6084/m9.figshare.c.3645695_d8.v1
title: Additional file 8: of Designing string-of-beads vaccines with optimal spacers

description: Detailed prediction results of the polypeptide proposed by Ding et al. Detailed results of the neo-epitope and cleavage site prediction analysis performed with SYFPEITHI and PCM on the polypeptide of Ding et al. (XLS 43 kb)
DOI: 10.15468/dl.u6nq74
title: Occurrence Download

description: A dataset containing 6159 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (ARG, CHL, PRY, URY, FLK, BRA.21_1, BRA.16_1, BRA.24_1)",
 "TaxonKey is Celastraceae"
 ]
}

 The dataset includes 6159 records from 165 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038010-241126133413365/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.3645725_d11.v1
title: Additional file 10: of Identification and analysis of divergent immune gene families within the Tasmanian devil genome

description: Immunoglobulin heavy and light chain constant regions identified in the Tasmanian devil genome. Description of data: Md % = percent amino acid identity to opossum (Monodelphis domestica) ortholog, Hs % = percent amino acid identity to Homo sapiens ortholog. * = partial Ensembl prediction. (CSV 599 bytes)
DOI: 10.6084/m9.figshare.c.3645728_d2.v1
title: Additional fileÂ 2: of A disease resistance locus on potato and tomato chromosome 4 exhibits a conserved multipartite structure displaying different rates of evolution in different lineages

description: Gene annotation of the R2 locus in potato ( S. tuberosum genotypes RH089-039-16, HB171(13), DM1-3 516R44) and tomato (S. lycopersicum cv. Heinz 1706). For each scaffold/BAC clone are indicated: linkage phase, genotype of affiliation, GenBank accession (where available), description of the product and EST accession (from the SolEST database). Manual annotation of DM0-3 516R44 and Tomato cv. Heinz were compared to the automated annotation and no relevant differences were identified. (XLSX 27 kb)
DOI: 10.6084/m9.figshare.c.3645728_d4.v1
title: Additional file 3: of A disease resistance locus on potato and tomato chromosome 4 exhibits a conserved multipartite structure displaying different rates of evolution in different lineages

description: Microsyntenic blocks between potato (RH-H0 haplotype) and tomato annotations. Microsyntenic proteins (same function, location and orientation) are lined up in the same row. Proteins shaded in grey are included in resistance clusters and cannot be directly compared because of fractioned synteny [45]. Putative transposable elements are shaded in red. Microsyintenic blocks are framed. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.c.3645728_d3.v1
title: Additional file 4: of A disease resistance locus on potato and tomato chromosome 4 exhibits a conserved multipartite structure displaying different rates of evolution in different lineages

description: Summary table of the number of R gene homologues identified at the R2 region. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3645731_d1.v1
title: Additional file 2: of CD80 down-regulation is associated to aberrant DNA methylation in non-inflammatory colon carcinogenesis

description: Dataset for CD80 and methylation privacyR3. (XLS 48Â kb)
DOI: 10.6084/m9.figshare.c.3645731_d2.v1
title: Additional file 1: Figure S1. of CD80 down-regulation is associated to aberrant DNA methylation in non-inflammatory colon carcinogenesis

description: MSP analysis. Representative results of methylation-specific PCR of APC, CDH13, MGMT, MLH1 and RUNX3 in colorectal mucosa specimen. The presence of a visible PCR product indicates the presence of unmethylated and methylated genes as shown; the EpiTect PCR Control DNA Set (Qiagen) was used as the positive control (+) for the methylated and unmethylated genes. (ZIP 1770Â kb)
DOI: 10.6084/m9.figshare.c.3645728_d5.v1
title: Additional file 5: of A disease resistance locus on potato and tomato chromosome 4 exhibits a conserved multipartite structure displaying different rates of evolution in different lineages

description: Gene conversion events identified among R2GHs in RH, DM and HB, and among R2GHs in Solanum wild species. Gene conversions were visually identified or using the program Genconv [33]. A number was attributed to each event. For each gene conversion event are indicated details on the involved sequence pairs, position, size and Ď  value. (XLSX 360 kb)
DOI: 10.6084/m9.figshare.c.3645737_d2.v1
title: Additional file 3: of Unsolved challenges of clinical whole-exome sequencing: a systematic literature review of end-users’ views

description: Full articles dataset. (XLSX 628 kb)
DOI: 10.6084/m9.figshare.c.3645740_d1.v1
title: Additional file 1: of Which level is responsible for gluteal pain in lumbar disc hernia?

description: LDH_GP.sav. (SAV 31 kb)
DOI: 10.6084/m9.figshare.c.3645743_d2.v1
title: Additional file 1: Table S1. of Oil biosynthesis in a basal angiosperm: transcriptome analysis of Persea Americana mesocarp

description: Summary of RNA-seq data with details of datasets available on the NCBI Short Read Archive. Table S2. Contigs represented by at least 10 reads per kilobase per million mapped reads (RPKM) and their annotation in relation to Arabidopsis proteins. Table S3. Annotation and transcript levels for select genes associated with conversion of sucrose to triacylglycerol, as shown in Fig.Â 2. Table S4. Transcript levels for genes associated with TAG assembly in the ER, relative to GPAT9 expression in avocado mesocarp (Pa Me), rapeseed embryo (Bn Em), castor endosperm (Rc En), oil palm mesocarp (Eg Me), and date palm mesocarp (Pd Me). (XLSX 1350 kb)
DOI: 10.6084/m9.figshare.c.3645743_d4.v1
title: Additional file 2: of Oil biosynthesis in a basal angiosperm: transcriptome analysis of Persea Americana mesocarp

description: Data S1. The sequence information for contigs represented by at least 10 reads per kilobase per million mapped reads (RPKM) and their annotation in relation to Arabidopsis proteins. (TXT 13061 kb)
DOI: 10.6084/m9.figshare.c.3645806_d1.v1
title: Additional file 1: Table S1. of Absolute quantification reveals the stable transmission of a high copy number variant linked to autoinflammatory disease

description: Summary information for each individual included in the current study. (XLSX 69 kb)
DOI: 10.6084/m9.figshare.c.3645815_d1.v1
title: Additional file 3: of Genome-scale metabolic model of Rhodococcus jostii RHA1 (iMT1174) to study the accumulation of storage compounds during nitrogen-limited condition

description: Unique reactions and metabolites, along with their properties, that are involved in the i MT1174Â network. It includes unique reactions ( Additional file 3-1 ) and unique metabolites ( Additional file 3-2 ). These data were utilized to make the stoichiometric matrix of the iMT1174 metabolic network. Note also that the names, IDs and chemical formulas of the metabolites are reported. In this file, the comma separated genes were meant to show the association of the cluster of the genes encoding the respective enzyme. Moreover, some reactions are associated with more than one enzyme; in this case, the additional enzymes were placed in the subsequent rows, along with their respective genes. (XLSX 265Â kb)
DOI: 10.6084/m9.figshare.c.3645815_d2.v1
title: Additional file 2: of Genome-scale metabolic model of Rhodococcus jostii RHA1 (iMT1174) to study the accumulation of storage compounds during nitrogen-limited condition

description: Total metabolites and reactions and their corresponding biochemical pathways, along with exchange reactions, that are involved in the i MT1174Â network. It contains reaction properties such as name, ID, definition, equation, directionality, lower and upper bounds, enzyme commission (EC) numbers, open reading frames (ORFs), KEGG IDs of reactions that were replaced by added reactions (replaced reactions), and references (Additional file 2-1). It also contains unique metabolites (Additional file 2-2). (XLSX 325Â kb)
DOI: 10.6084/m9.figshare.c.3645815_d6.v1
title: Additional file 1: of Genome-scale metabolic model of Rhodococcus jostii RHA1 (iMT1174) to study the accumulation of storage compounds during nitrogen-limited condition

description: Biomass and storage lipid compositions. It includes the compositions of the RHA1 biomass, macromolecules, PHA, TAG, and WE used in this study. (XLS 64Â kb)
DOI: 10.6084/m9.figshare.c.3645821_d2.v1
title: MOESM1 of GWAS analyses reveal QTL in egg layers that differ in response to diet differences

description: Additional file 1. QTL detected using the whole dataset to determine the genetic architecture of egg production and egg quality traits. This file gives the position of all the QTL detected using the whole dataset, with the top SNP corresponding to the SNP with the highest effect in the QTL region. The QTL is defined by the first (left) and last (right) SNPs that are 1 % significant at the chromosome level, respectively. Var (%) is the percentage of variance explained by the top SNP in the analysis with the whole dataset. Var LE(%) is the percentage of variance explained by the top SNP in the analysis with data for the low-energy diet only. Var HE(%) is the percentage of variance explained by the top SNP in the analysis with data for the high-energy diet only. Var 50(%) is the percentage of variance explained by the top SNP in the analysis with data for egg collection at 50 weeks only. Var 70(%) is the percentage of variance explained by the top SNP in the analysis with data for egg collection at 70 weeks only. Z Diet is the Z test statistics used to compare the two estimates calculated from the data for LE and HE diets. Z Age is the Z test statistics used to compare the two estimates calculated from the data for egg collection at 50 and 70 weeks of age. The difference was significant when P
DOI: 10.6084/m9.figshare.c.3645821_d3.v1
title: MOESM2 of GWAS analyses reveal QTL in egg layers that differ in response to diet differences

description: Additional file 2. Additional QTL detected using the data for egg production and egg quality traits within diet. This file gives the position of the QTL detected with the dataset divided by diet, with the top SNP corresponding to the SNP with the highest effect in the QTL region. The QTL is defined by the first (left) and last (right) SNPs that are 1 % significant at the chromosome level, respectively. Var (%) is the percentage of variance explained by the top SNP in the analysis with the whole dataset. Var LE(%) is the percentage of variance explained by the top SNP in the analysis with data for the low-energy diet only. Var HE(%) is the percentage of variance explained by the top SNP in the analysis with data for the high-energy diet only. Z Diet is the Z test statistic used to compare the two estimates calculated from the data for LE and HE diets. The difference was significant when P
DOI: 10.6084/m9.figshare.c.3645821_d1.v1
title: MOESM3 of GWAS analyses reveal QTL in egg layers that differ in response to diet differences

description: Additional file 3. Additional QTL detected using the data for egg quality traits according to age. This file gives the position of the QTL detected with the dataset divided by age, with the top SNP corresponding to the SNP with the highest effect in the QTL region. The QTL is defined by the first (left) and last (right) SNPs that are 1 % significant at the chromosome level, respectively. Var (%) is the percentage of variance explained by the top SNP in the analysis with the whole dataset. Var 50(%) is the percentage of variance explained by the top SNP in the analysis with data for egg collection at 50 weeks only. Var 70(%) is the percentage of variance explained by the top SNP in the analysis with data for egg collection at 70 weeks only. Z Age is the Z test statistic used to compare the two estimates calculated from the data for egg collection at 50 and 70 weeks of age. The difference was significant when P
DOI: 10.6084/m9.figshare.c.3645842_d2.v1
title: Additional file 7: Table S7. of Transcriptome analysis of Sporisorium scitamineum reveals critical environmental signals for fungal sexual mating and filamentous growth

description: List of enriched KEGG terms in non-mating mixture of SsÎ MAT-1b X MAT-2, compared to the mating mixture of MAT-1 X MAT-2. (XLS 48Â kb)
DOI: 10.6084/m9.figshare.c.3645842_d4.v1
title: Additional file 5: Table S5. of Transcriptome analysis of Sporisorium scitamineum reveals critical environmental signals for fungal sexual mating and filamentous growth

description: List enriched GO in non-mating mixture of SsÎ MAT-1b X MAT-2, compared to the mating mixture of MAT-1 X MAT-2 (XLS 42Â kb)
DOI: 10.6084/m9.figshare.c.3645842_d1.v1
title: Additional file 2: Table S2. 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 the SsΔMAT-1b mutant compared to the wild-type MAT-1. (XLS 396 kb)
DOI: 10.6084/m9.figshare.c.3645842_d7.v1
title: Additional file 4: Table S4. of Transcriptome analysis of Sporisorium scitamineum reveals critical environmental signals for fungal sexual mating and filamentous growth

description: List enriched GO in SsÎ MAT-1b mutant compared to the wild-type MAT-1. (XLS 41Â kb)
DOI: 10.6084/m9.figshare.c.3645842_d6.v1
title: Additional file 1: Table S1. of Transcriptome analysis of Sporisorium scitamineum reveals critical environmental signals for fungal sexual mating and filamentous growth

description: List of All-Unigene De novo assembled in this study. (XLS 2360Â kb)