cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3645311_d5.v1
title: Additional file 2: of Differences in the skeletal muscle transcriptome profile associated with extreme values of fatty acids content

description: Test of means (t-test) between groups with high and low fatty acid content in Longissimus dorsi muscle in Nellore steers. (XLSX 44 kb)
DOI: 10.6084/m9.figshare.c.3645311_d9.v1
title: Additional file 3: of Differences in the skeletal muscle transcriptome profile associated with extreme values of fatty acids content

description: Summary of total reads before and after filtering, percentage of mapped reads against Bos taurus UMD3.1 reference genome and, information of each group according to specifically fatty acid content from Longissimus dorsi muscle of Nellore steers. (XLSX 53 kb)
DOI: 10.6084/m9.figshare.c.3645428_d2.v1
title: Additional file 6: Table S2. of Genome-wide methylation profiling of ovarian cancer patient-derived xenografts treated with the demethylating agent decitabine identifies novel epigenetically regulated genes and pathways

description: Final list of the top 1029 CpG probes and their Î˛ values of DAC-treated ovarian cancer PDXs and control ones with full annotation information of probes. (XLSX 438 kb)
DOI: 10.6084/m9.figshare.c.3645428_d3.v1
title: Additional file 7: Table S3. of Genome-wide methylation profiling of ovarian cancer patient-derived xenografts treated with the demethylating agent decitabine identifies novel epigenetically regulated genes and pathways

description: Table for GO enrichment and pathway analysis. (XLSX 37 kb)
DOI: 10.6084/m9.figshare.c.3645428_d4.v1
title: Additional file 3: Table S1. of Genome-wide methylation profiling of ovarian cancer patient-derived xenografts treated with the demethylating agent decitabine identifies novel epigenetically regulated genes and pathways

description: All ovarian cancer cell lines and their culture conditions. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.c.3645434_d6.v1
title: Additional file 3: Table S3. of Resistance related metabolic pathways for drug target identification in Mycobacterium tuberculosis

description: The 24 sequenced Mycobacterium strains. Data can be viewed in Microsoft excel. (XLS 34 kb)
DOI: 10.6084/m9.figshare.c.3645434_d7.v1
title: Additional file 4: Table S4. of Resistance related metabolic pathways for drug target identification in Mycobacterium tuberculosis

description: Blast hits obtained for Rv1712, Rv2984, Rv2194, Rv1311, Rv1305, Rv2195, Rv1622c, Rv1456c and Rv2421c against three host intestinal bacteria. Bacterial species highlighted in bold showed homology to the query gene. Data can be viewed in Microsoft excel. (XLS 13 kb)
DOI: 10.6084/m9.figshare.c.3645434_d8.v1
title: Additional file 8: Table S5. of Resistance related metabolic pathways for drug target identification in Mycobacterium tuberculosis

description: KEGG pathway descriptors for M. tuberculosis genes retained after prioritization. Data can be viewed in Microsoft excel. (XLS 7 kb)
DOI: 10.6084/m9.figshare.c.3645434_d9.v1
title: Additional file 15: Table S6. of Resistance related metabolic pathways for drug target identification in Mycobacterium tuberculosis

description: Docking scores and number of interactions for the top ten compounds to Rv1712. The residues highlighted in bold are conserved catalytic residues while ligand C5P is highlighted in red. The numbers inside the () indicate the number of interactions formed between residue and the compound atom. Data can be viewed in Microsoft excel. (XLS 8 kb)
DOI: 10.15468/dl.q32e96
title: Occurrence Download

description: A dataset containing 51263 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "TaxonKey is Acer saccharum Marshall"
 ]
}

 The dataset includes 51263 records from 215 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038076-241126133413365/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.3645551_d1.v1
title: Additional file 2: of Single-cell profiling of human megakaryocyte-erythroid progenitors identifies distinct megakaryocyte and erythroid differentiation pathways

description: Supplementary Tables S1 - S3. Table S1. Gene assays included in multiplex RT-PCR analysis with coefficient of dilution (R2) examined over fourfold serial dilutions with technical triplicates at each dilution. Table S2. Normalized Ct values for gene expression data for all genes and cells. Table S3. Raw data for single-cell gene expression analysis (non-normalized Ct values). (XLSX 1059 kb)
DOI: 10.6084/m9.figshare.c.3645659_d9.v1
title: Additional file 4: Tables S2-S9. of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Table S2: Functional classification of C. brasiliense unigenes set based on Arabidopsis GO annotation. Table S3: Expression profile matrix of C. brasiliense unigenes. Table S4: Preferentially expressed genes in the organs sampled (leaves, stem and roots) of C. brasiliense. Table S5: Functional classification of preferentially expressed genes. Table S6: Number of preferentially expressed genes associated to specific GO terms. Table S7: Over-represented biological processes in specific organs. Table S8: Matrix of the percentage identities between the aligned cytochrome P450. Table S9: Primers used in RT-qPCR assays. (XLSX 16223 kb)
DOI: 10.6084/m9.figshare.c.3645659_d8.v1
title: Additional file 1: of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: C. brasiliense unigenes set. (TXT 68107 kb)
DOI: 10.6084/m9.figshare.c.3645659_d10.v1
title: Additional file 6: 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 PAL proteins. (TXT 16 kb)
DOI: 10.6084/m9.figshare.c.3645659_d11.v1
title: Additional file 9: of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Coding sequences alignment between unigene UN02124 of C. brasiliense and Ruta graveolens CYP98A22 protein. (TXT 3 kb)
DOI: 10.6084/m9.figshare.c.3645659_d12.v1
title: Additional file 11: of Identification of candidate genes related to calanolide biosynthesis by transcriptome sequencing of Calophyllum brasiliense (Calophyllaceae)

description: Coding sequences alignment between CYP-like unigenes from C. brasiliense and CYP proteins from different plant species involved in furanocoumarins biosynthesis. (TXT 74 kb)
DOI: 10.6084/m9.figshare.c.3645668_d4.v1
title: MOESM8 of Serological markers to measure recent changes in malaria at population level in Cambodia

description: Additional file 8. Incidence rate ratios and p values estimated to indicate difference between the Ab intensity (ln(MFI)) and the levels of exposure per age group (6–5 and 16–50 years). Significant differences between the different levels of exposure (High-, Medium-, Low prevalence) were seen for all specific Ags (p&lt;0.00025). The incidence rate ratios (IRR) confirm that the MFI value decline together with the PCR prevalence in the villages and rise with age. Incidence Rate Ratio that indicates for how much (if &gt; 1) or less (if
DOI: 10.6084/m9.figshare.c.3645668_d6.v1
title: MOESM1 of Serological markers to measure recent changes in malaria at population level in Cambodia

description: Additional file 1. Raw data file. This file contains all raw data used for all analyses in this study.
DOI: 10.6084/m9.figshare.c.3645671_d1.v1
title: Additional file 2: of Serum extracellular vesicular miR-21-5p is a predictor of the prognosis in idiopathic pulmonary fibrosis

description: The full Ct dataset corresponding to mouse microRNA PCR array data. (XLSX 20Â kb)
DOI: 10.6084/m9.figshare.c.3645674_d2.v1
title: MOESM3 of HOX gene complement and expression in the planarian Schmidtea mediterranea

description: Additional file 3: Table S2. Zone assignment of transcripts from normalized RNAseq data. The raw data for the zone plots of transcript expression in Fig.Â 2A are given here. Only genes with normalized CPM &gt; 0.5 are shown.
DOI: 10.6084/m9.figshare.c.3645674_d1.v1
title: MOESM1 of HOX gene complement and expression in the planarian Schmidtea mediterranea

description: Additional file 1: Table S1. Sequences and accession numbers used in the phylogenetic analysis in Fig.Â 1. New S. med gene names are given, and homology to any previously described planarian HOX fragments is given as well as references to where they were published. Predicted amino acid sequences are given for any planarian genes as well as the primary homeobox-containing ORF from Macrostomum lignano transcripts. All GenBank accession numbers for genes used in the phylogenies in Fig.Â 1 and S3 are listed.
DOI: 10.6084/m9.figshare.c.3645752_d1.v1
title: Additional file 2: of COMParative Early Treatment Effectiveness between physical therapy and usual care for low back pain (COMPETE): study protocol for a randomized controlled trial

description: Appendix 2. Treatment-based Classification Approach - Manual Therapy. Appendix 3. Treatment-based Classification Approach - Core Strengthening. Appendix 4. Treatment-based Classification Approach - Extension Oriented Treatment Approach. (PDF 792 kb)
DOI: 10.6084/m9.figshare.c.3645764_d2.v1
title: Additional file 3: of Variation in population levels of sedentary time in European children and adolescents according to cross-European studies: a systematic literature review within DEDIPAC

description: Data extraction file. (XLSX 80Â kb)
DOI: 10.6084/m9.figshare.c.3645767_d2.v1
title: MOESM3 of A genome-wide perspective about the diversity and demographic history of seven Spanish goat breeds

description: Additional file 3: Table S2. Number of SNPs per chromosome and average, minimum and maximum distances between SNPs.
DOI: 10.6084/m9.figshare.c.3645767_d4.v1
title: MOESM6 of A genome-wide perspective about the diversity and demographic history of seven Spanish goat breeds

description: Additional file 6: Table S4. Average ROH sizes (kb) for 12 goat populations.
DOI: 10.6084/m9.figshare.c.3645773_d1.v1
title: Additional file 1: of The oldest described eurypterid: a giant Middle Ordovician (Darriwilian) megalograptid from the Winneshiek LagerstĂ¤tte of Iowa

description: Data matrix for the phylogenetic analysis. (NEX 35 kb)
DOI: 10.6084/m9.figshare.c.3645788_d2.v1
title: Additional file 3: of The timing of complementary feeding in preterm infants and the effect on overweight: study protocol for a systematic review

description: Risk of Bias Assessment Tool. Risk of Bias Assessment Tool form that will be used to assess the risk of bias in included studies in this systematic review. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3645869_d1.v1
title: Additional file 2: of A new high-throughput screening-compatible gap junctional intercellular communication assay

description: Determination of the optimal ratio of donor and acceptor cells. This is the raw data (fluorescence intensity reads) in Fig.Â 3a (Microsoft Excel format). (XLS 51Â kb)
DOI: 10.6084/m9.figshare.c.3645890_d2.v1
title: MOESM2 of Bitpacking techniques for indexing genomes: I. Hash tables

description: Additional file 2. Source code for constructing benchmarks. Source code in an archive format, using tar and bzip2, for users to generate their own benchmarks for any genomic text in FASTA format. This is the same package as provided in our companion paper on bitpacking for enhanced suffix arrays.
DOI: 10.6084/m9.figshare.28049888
title: Dataset.xlsx

description: m R辅助冰尾上的s 其中央昼夜节律。
DOI: 10.6084/m9.figshare.c.3645890_d1.v1
title: MOESM1 of Bitpacking techniques for indexing genomes: I. Hash tables

description: Additional file 1. Source code. Source code in an archive format, using tar and bzip2, for all bitpackingÂ implementations of hash tables, based on a modification of the SDSL 2.0 package. Package also includes the benchmarking programs used for timing experiments. This is the same package as provided in our companion paper on bitpacking for enhanced suffix arrays.
DOI: 10.6084/m9.figshare.c.3645980_d14.v1
title: Additional file 16 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S11. Disease-associated cell types identified by the GSO method with an FDR of 10 %. DISEASE: Disease name. CELL_TYPE: Cell-type name. P_VALUE: Unadjusted P value computed using the GSO method. Q_VALUE: Minimum FDR at which the association can be declared significant, computed using the Benjaminiâ  Hochberg procedure for multiple testing. SIG_GSC: Whether the association is declared significant using the GSC method at an FDR of 10 %. SIG_TEXT: Whether the association is declared significant using text-mining at an FDR of 10 %. (XLS 69 kb)
DOI: 10.6084/m9.figshare.c.3645980_d16.v1
title: Additional file 12 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S7. Term mappings for the cell types used in the analyses. NAME: Cell-type name used throughout the analyses (derived from the FANTOM5 project sample name). CL_ID: Cell ontology identifier mapped to the cell type. MESH: The one or two MeSH terms mapped to the cell type used to conduct the text-mining. (XLS 14 kb)
DOI: 10.6084/m9.figshare.c.3645980_d17.v1
title: Additional file 19 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S12. The number of diseaseâ  cell-type associations identified by the GSC and GSO methods supported by text-mining at FDRs of 5, 10 and 20 %. Precision, recall and the F1 score are computed using associations identified by the text-mining method as true positives. Overlap significance was measured using Fisherâ  s exact test. (XLS 7.50 kb)
DOI: 10.6084/m9.figshare.c.3645980_d20.v1
title: Additional file 3 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S3. Performance of the GSC method when applied to interactomes created using various confidence score cutoffs and run using various restart probabilities. All diseases with two or more associated genes were used. 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-mining results. (XLS 10 kb)
DOI: 10.6084/m9.figshare.c.3645980_d18.v1
title: Additional file 13 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S8. Term mappings for the diseases used in the analyses. NAME: Disease name used throughout the analyses (obtained from DisGeN ET). UMLS: UMLS identifiers mapped to the disease. MESH: MeSH term mapped to the disease used to conduct the text-mining. (XLS 66 kb)
DOI: 10.6084/m9.figshare.c.3645980_d19.v1
title: Additional file 14 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S9. Diseaseâ  cell-type association P values computed using the text-mining method. (XLS 438 kb)
DOI: 10.6084/m9.figshare.c.3645980_d21.v1
title: Additional file 15 of Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types

description: Table S10. Diseaseâ  cell-type association P values computed using the GSO method. (XLS 686 kb)
DOI: 10.6084/m9.figshare.c.3645989_d1.v1
title: Additional file 3: Table S2. of Quantitative analyses of the hepatic proteome of methylmercury-exposed Atlantic cod (Gadus morhua) suggest oxidative stress-mediated effects on cellular energy metabolism

description: Full list of 1143 quantified proteins and associated data from label-free proteomics analysis of liver protein samples from controls (n = 10), 0.5 mg/kg BW MeHg (n = 9) and 2 mg/kg BW MeHg (n = 9) fish. (XLSX 610 kb)
DOI: 10.6084/m9.figshare.c.3645989_d2.v1
title: Additional file 5: Table S4. of Quantitative analyses of the hepatic proteome of methylmercury-exposed Atlantic cod (Gadus morhua) suggest oxidative stress-mediated effects on cellular energy metabolism

description: Full list of significantly enriched KEGG, GO (BP, MF and CC) and Interpro protein domains from STRING network analysis. (XLS 50 kb)
DOI: 10.6084/m9.figshare.c.3645989_d4.v1
title: Additional file 4: Table S3. of Quantitative analyses of the hepatic proteome of methylmercury-exposed Atlantic cod (Gadus morhua) suggest oxidative stress-mediated effects on cellular energy metabolism

description: Full list of significantly enriched top 50 GO BP and MF and all significant MetaCore processes network terms and the associated proteins. (XLSX 73 kb)
DOI: 10.6084/m9.figshare.c.3645989_d5.v1
title: Additional file 2: Table S1. of Quantitative analyses of the hepatic proteome of methylmercury-exposed Atlantic cod (Gadus morhua) suggest oxidative stress-mediated effects on cellular energy metabolism

description: 125 proteins differentially regulated by MeHg. (XLSX 94 kb)
DOI: 10.6084/m9.figshare.c.3646001_d2.v1
title: Additional file 2: of Indica rice genome assembly, annotation and mining of blast disease resistance genes

description: Sequence data size for rice cultivars. (XLSX 15Â kb)
DOI: 10.6084/m9.figshare.c.3646118_d3.v1
title: Additional file 1: of A generic schema and data collection forms applicable to diverse entomological studies of mosquitoes

description: The data collection forms. This excel document allows users to easily edit and print the data collection forms. The master dictionary is also included with the data collection forms. (XLSX 143Â kb)
DOI: 10.6084/m9.figshare.c.3646139_d1.v1
title: Additional file 2: Table S2. of Integrated metabolic modelling reveals cell-type specific epigenetic control points of the macrophage metabolic network

description: Medium composition and biomass formulation. The biomass equations are given with the metabolites abbreviations IDs as found in the models (sheet 2). In the sheet three, the 1st column contains the medium composition used to constrain Recon 1 using the metabolites abbreviation as used in the model. In the second column are displayed the medium composition for Recon 2. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3646139_d3.v1
title: Additional file 6: Table S8. of Integrated metabolic modelling reveals cell-type specific epigenetic control points of the macrophage metabolic network

description: List of cofactor combinations that were not considered in the reaction equations for the determination of the entry points in Fig.Â 6. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3646244_d1.v1
title: Additional file 1: of Influence of upper and temporal transconjunctival sclerocorneal incision on marginal reflex distance after cataract surgery

description: Preoperative and postoperative MRD1 values, and preoperative distance between medial and lateral canthi. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3646253_d1.v1
title: Additional file 4: of Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries

description: Complete edgeR results for HOMINGS taxon probes, comparing Plaque vs. WS pairs. The spreadsheet otherwise is formatted in the same way as Additional file 3.
DOI: 10.6084/m9.figshare.c.3646253_d3.v1
title: Additional file 12: of Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries

description: Clinical metadata for subjects. Lists each subjectâ  s age at time of sampling, gender, the universal ID code for the restored primary tooth from which the sample was taken and the clinical characteristics of the composite restoration around the margins of which plaque was collected.
DOI: 10.6084/m9.figshare.c.3646253_d2.v1
title: Additional file 5: of Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries

description: Complete edgeR results for HOMINGS taxon probes, comparing WS vs. NS pairs. There were no probes with an adjusted p value â ¤0.05, so the rows only were sorted according to the number of samples in which the relative abundance of a taxon probe exceeded 1Â % of total reads (in descending order, using column H).
DOI: 10.6084/m9.figshare.c.3646253_d4.v1
title: Additional file 9: of Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries

description: Counts for spectra assigned to SEED ontology proteins by MEGAN5. Each row lists spectral counts assigned to a SEED protein. The spreadsheet otherwise is formatted in the same way as Additional file 6.
DOI: 10.6084/m9.figshare.c.3646253_d5.v1
title: Additional file 11: of Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries

description: Complete edgeR results for spectra assigned to SEED proteins by MEGAN5, comparing WS vs. NS pairs. The proteins names assigned by MEGAN5 were derived from the SEED ontology database. The spreadsheet is formatted in the same way as Additional file 8, except that column H sorts the proteins by the number of microcosms in which they were detected (in descending order).
DOI: 10.6084/m9.figshare.c.3646253_d7.v1
title: Additional file 8: of Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries

description: Complete edgeR results for spectra assigned at the species level by the MEGAN5 LCA, comparing WS vs. NS pairs. The species names assigned by MEGAN5 were derived from the NCBI taxonomy database. The spreadsheet otherwise is formatted in the same way as Additional file 3.
DOI: 10.6084/m9.figshare.c.3646253_d9.v1
title: Additional file 3: of Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries

description: Complete edgeR results for HOMINGS taxon probes, comparing Plaque vs. NS pairs. Each row summarizes the results for a HOMINGS taxon probe that was detected in at least one plaque or NS sample. The rows were first sorted into two groups (using column G), those with an adjusted p value ≤0.05 (shown in blue) and those in which the adjusted p value exceeded that threshold. Within each group, the rows then were sorted according to the number of plaque samples in which reads for a probe were ≥1 % (as a percent of total reads), in descending order (using column H). The taxon probe names in the FDR ≤ 5 % group were shaded red when the log fold change value was positive (P &gt; NS), and green when the log fold change value was negative (NS &gt; P).
DOI: 10.6084/m9.figshare.c.3646253_d11.v1
title: Additional file 1: of Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries

description: ProbeSeq results as received from the HOMINGS core facility. The first worksheet provides read count summaries for each sample. The second worksheet lists read counts for all HOMINGS probes (including those not detected) for each sample. The third worksheet presents the read counts as a percent of total reads for each sample, and the fourth worksheet summarizes results for each sample as stacked column plots.