cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28027934
title: Literature Search Results

description: The papers found for a literature search searching for published data sets of arthropods from paleomiddens. Contains papers and book chapters found from a Web of Science search in 2021, available datasets on the Neotoma Database in 2021, and checking references.
DOI: 10.6084/m9.figshare.28027934.v1
title: Literature Search Results

description: The papers found for a literature search searching for published data sets of arthropods from paleomiddens. Contains papers and book chapters found from a Web of Science search in 2021, available datasets on the Neotoma Database in 2021, and checking references.
DOI: 10.6084/m9.figshare.c.3641162_d3
title: MOESM3 of Improved sugar yields from biomass sorghum feedstocks: comparing low-lignin mutants and pretreatment chemistries

description: Additional file 3. R script to calculate overall sugar yields from ASE350 optimal temperature data using DE method.
DOI: 10.6084/m9.figshare.c.3641162_d4
title: MOESM6 of Improved sugar yields from biomass sorghum feedstocks: comparing low-lignin mutants and pretreatment chemistries

description: Additional file 6. R script to calculate overall sugar yields from ASE350 deacetylation data using DE-LO method.
DOI: 10.6084/m9.figshare.c.3641162_d5
title: MOESM7 of Improved sugar yields from biomass sorghum feedstocks: comparing low-lignin mutants and pretreatment chemistries

description: Additional file 7. R script to calculate overall sugar yields from ASE350 deacetylation data using DE-NL method.
DOI: 10.6084/m9.figshare.c.3641162_d7
title: MOESM5 of Improved sugar yields from biomass sorghum feedstocks: comparing low-lignin mutants and pretreatment chemistries

description: Additional file 5. Primary experimental data for ASE350 deacetylation experiments.
DOI: 10.6084/m9.figshare.c.3641162_d6
title: MOESM2 of Improved sugar yields from biomass sorghum feedstocks: comparing low-lignin mutants and pretreatment chemistries

description: Additional file 2. Primary experimental data for ASE350 optimal temperature experiments.
DOI: 10.6084/m9.figshare.c.3641162_d8
title: MOESM8 of Improved sugar yields from biomass sorghum feedstocks: comparing low-lignin mutants and pretreatment chemistries

description: Additional file 8. Primary experimental data for Zipperclave experiments.
DOI: 10.6084/m9.figshare.c.3641162_d9
title: MOESM9 of Improved sugar yields from biomass sorghum feedstocks: comparing low-lignin mutants and pretreatment chemistries

description: Additional file 9. R script to calculate overall sugar yields from Zipperclave data.
DOI: 10.6084/m9.figshare.c.3641213_d4
title: MOESM4 of Genome-wide association study and biological pathway analysis of the Eimeria maxima response in broilers

description: Additional file 4: Table S4. Title: List of annotated SNPs and their corresponding genes used for Ingenuity Pathway Analysis. Description: The table contains SNPs with the corresponding information on the genes in which they are located and together with p-values obtained in the genome-wide association study.
DOI: 10.6084/m9.figshare.c.3641213_d3
title: MOESM10 of Genome-wide association study and biological pathway analysis of the Eimeria maxima response in broilers

description: Additional file 10: Table S7. Title: List of biological pathways significantly enriched with genes in genomic regions associated with measured traits. Description: Results for the biological pathway significantly (P
DOI: 10.6084/m9.figshare.c.3641213_d6
title: MOESM2 of Genome-wide association study and biological pathway analysis of the Eimeria maxima response in broilers

description: Additional file 2: Table S2. Title: Descriptive statistics for the distances between SNPs across chromosomes. Description: The table contains information on the number of SNPs per chromosome and the mean, median and standard deviation (SD) for the average distances between neighboring SNPs. Results in the table refer to genotype data after quality control.
DOI: 10.6084/m9.figshare.c.3641213_d7
title: MOESM6 of Genome-wide association study and biological pathway analysis of the Eimeria maxima response in broilers

description: Additional file 6: Table S6. Title: Significant SNPs associated with traits measured on all challenged animals. Description: Significant SNPs associated with traits measured on all challenged animals. A genome-wide association analysis was performed using Cobb500 broilers for all the measured traits during the large-scale study. SNPs were considered significant at q-value
DOI: 10.6084/m9.figshare.c.3641213_d9
title: MOESM1 of Genome-wide association study and biological pathway analysis of the Eimeria maxima response in broilers

description: Additional file 1: Table S1. Title: Quality control of genotype data. Description: The genotype data were obtained from 1972 animals that were alive at day 16 of the challenge study. Genotype data were produced using 580 K Affymetrix® Axiom® HD genotyping array. The call rate threshold was set at 98 %, and all SNPs and samples with values less than 98 % were excluded. The minor allele frequency threshold was set at 1 % and animals with values less than 1 % were excluded. Heterozygote excess was assessed based on the distribution of F-statistics adjusted for skewness using adjbox function from the R package robustbase. Control animals were also excluded from the analysis. A total of 138,568 SNPs out of 580,961 were removed during the quality control.
DOI: 10.6084/m9.figshare.c.3641213_d10
title: MOESM5 of Genome-wide association study and biological pathway analysis of the Eimeria maxima response in broilers

description: Additional file 5: Table S5. Title: Descriptive statistics of the measured traits. Description: Descriptive statistics of the traits measured on the challenged animals during the large-scale challenge study. Plasma coloration was measured as absorbance (optical density) of blood plasma at different wavelengths. Oocyst count is expressed as the raw number of oocysts per gram of feces. Erythrocyte count is expressed in millions per mm3 (M∙mm−3). White blood cell and thrombocyte count is expressed in absolute number per mm3 (count∙mm−3. Lymphocytes and heterophils are also expressed in the percentage of total number of white blood cells. MCV, MCH and MCHC correspond to mean cellular volume, mean corpuscular hemoglobin and mean corpuscular hemoglobin concentration, respectively.
DOI: 10.6084/m9.figshare.c.3641213_d12
title: MOESM3 of Genome-wide association study and biological pathway analysis of the Eimeria maxima response in broilers

description: Additional file 3: Table S3. Title: List of annotated SNPs used for Biological Pathway Analysis. Description: The table contains SNPs used in the genome-wide association study with p-values
DOI: 10.6084/m9.figshare.c.3641240_d2
title: MOESM1 of Hemodynamic numerical simulations of the disturbance due to intracoronary flow measurements by a Doppler guide wire

description: Additional file 1. Fourier coefficient decomposition for the first guess of the Newtonâ  s method.
DOI: 10.6084/m9.figshare.c.3641270_d2
title: Additional file 2: of Quantitative trait loci identified for blood chemistry components of an advanced intercross line of chickens under heat stress

description: Phenotypic data for blood chemistry components in 468 advanced intercross line chickens.Â (XLSX 123Â kb)
DOI: 10.6084/m9.figshare.c.3641291_d1
title: MOESM3 of Quantitative proteomic analysis of the influence of lignin on biofuel production by Clostridium acetobutylicum ATCC 824

description: Additional file 3: Fig. S1. Alterations in relative abundance of protein expressions (iTRAQ ratio representing fold changes) in other metabolic pathways during growth on C and Cl. Table S1. Comparing protein regulations between C (control) and CL at exponential (Exp) and stationary (Sta) phases. Table includes identified proteins, fold change and p value for each comparison.
DOI: 10.6084/m9.figshare.c.3641291_d3
title: MOESM2 of Quantitative proteomic analysis of the influence of lignin on biofuel production by Clostridium acetobutylicum ATCC 824

description: Additional file 2. Proteomic data. The detailed proteomics information included, Phenyx ID, quantification ID and fold changes (iTRAQ ratio; ExpCL vs ExpC, StaCL/StaC, StaC vs ExpC and StaCL vs ExpC) are provided in separate excel file â  Supporting information proteomics iTRAQâ  .
DOI: 10.6084/m9.figshare.c.3641339_d1
title: Additional file 2: Table S2. of Mutation in WDR4 impairs tRNA m7G46 methylation and causes a distinct form of microcephalic primordial dwarfism

description: The SNP calls in the haplotype around the mutation in both probands. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3641339_d2
title: Additional file 1: Table S1. of Mutation in WDR4 impairs tRNA m7G46 methylation and causes a distinct form of microcephalic primordial dwarfism

description: List of survived rare variants observed in each patient after applying the various filters. (XLSX 12 kb)
DOI: 10.15468/dl.6p8vxq
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-128.24279 59.88492,-128.05967 61.28327,-136.53299 67.39271,-139.19651 67.07642,-140.21198 59.91821,-128.24279 59.88492))",
 "OccurrenceStatus is Present",
 "TaxonKey is Limnephilus sansoni Banks, 1918"
 ]
}

 The dataset includes 32 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033916-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7266/gy2vcr98
title: Gas absorption data obtained under experimental conditions of varying pressures and superficial gas velocities
DOI: 10.15468/dl.35u2du
title: Occurrence Download

description: A dataset containing 67 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Myliobatis chilensis Philippi, 1892)"
 ]
}

 The dataset includes 67 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033917-241126133413365/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.3641384_d2
title: MOESM1 of Within leaf variation is the largest source of variation in agroinfiltration of Nicotiana benthamiana

description: Additional file 1: Table S1. Measurements of luciferase activity from the first experiment and calculation of variance components. Table S2. Measurements of luciferase activity from the second experiment and calculation of variance components.
DOI: 10.6084/m9.figshare.c.3641387_d1
title: Additional file 2: of Psychometric properties of the Spanish version of the Jefferson Scale of Empathy: making sense of the total score through a second order confirmatory factor analysis

description: DataSheet. (XLSX 107 kb)
DOI: 10.6084/m9.figshare.c.3641399_d1
title: MOESM7 of Genome-wide methylation analysis demonstrates that 5-aza-2-deoxycytidine treatment does not cause random DNA demethylation in fragile X syndrome cells

description: Additional file 7: Table S4. List of DMRs and their chromosome position in the comparison between WT1 and WT2 versus FXS1.
DOI: 10.6084/m9.figshare.c.3641414_d2
title: Additional file 2: of The role of breast-feeding in infant immune system: a systems perspective on the intestinal microbiome

description: GO enrichment tables for human genes involved in the system. (CSV 79 kb)
DOI: 10.6084/m9.figshare.c.3641414_d3
title: Additional file 4: of The role of breast-feeding in infant immune system: a systems perspective on the intestinal microbiome

description: Microbial abundance tables. (CSV 14 kb)
DOI: 10.6084/m9.figshare.c.3641414_d4
title: Additional file 1: of The role of breast-feeding in infant immune system: a systems perspective on the intestinal microbiome

description: Supporting supplementary figures for data analysis. (PDF 2,238 kb)
DOI: 10.6084/m9.figshare.c.3641462_d6
title: MOESM12 of Revealing new candidate genes for reproductive traits in pigs: combining Bayesian GWAS and functional pathways

description: Additional file 12: Table S4. Pathway and Gene Ontology terms (GO) of genes associated with significant SNPs identified for NT.
DOI: 10.6084/m9.figshare.c.3641462_d7
title: MOESM14 of Revealing new candidate genes for reproductive traits in pigs: combining Bayesian GWAS and functional pathways

description: Additional file 14: Table S6. Transcription factors (TF) identified for genes associated with NT, location in base pairs (bp) of the window sequence that carries binding sites, and p-value of the window confidence that was obtained from the TFM-explorer tool.
DOI: 10.6084/m9.figshare.c.3641462_d12
title: MOESM11 of Revealing new candidate genes for reproductive traits in pigs: combining Bayesian GWAS and functional pathways

description: Additional file 11: Table S3. Pathway and Gene Ontology terms (GO) of genes associated with significant SNPs identified for SB.
DOI: 10.6084/m9.figshare.c.3641462_d14
title: MOESM13 of Revealing new candidate genes for reproductive traits in pigs: combining Bayesian GWAS and functional pathways

description: Additional file 13: Table S5. Transcription factors (TF) identified for genes associated with SB, location in base pairs (bp) of the window sequence that carries binding sites, and p-value of the window confidence that was obtained from the TFM-explorer tool.
DOI: 10.6084/m9.figshare.c.3641465_d1
title: Additional file 2: Table S2. of Application of dynamic topic models to toxicogenomics data

description: Top 300 genes that represent each topic at 4 time points. (XLSX 166 kb)
DOI: 10.6084/m9.figshare.c.3641465_d2
title: Additional file 4: Table S4. of Application of dynamic topic models to toxicogenomics data

description: Sample clustering results using dynamic tree cut. (XLSX 42 kb)
DOI: 10.6084/m9.figshare.c.3641465_d3
title: Additional file 3: Table S3. of Application of dynamic topic models to toxicogenomics data

description: Functional analysis results for each topic at 4 time points: Fisherâ  s exact test with a p value cut-off of 0.05 was used in KEGG and GO. (XLSX 82 kb)
DOI: 10.6084/m9.figshare.c.3641465_d4
title: Additional file 1: Table S1. of Application of dynamic topic models to toxicogenomics data

description: Information for each topic, including Mode of Action (MoA), therapeutic category, and DILI annotation. (XLSX 29 kb)
DOI: 10.6084/m9.figshare.c.3641477_d1
title: Additional file 1: Table S1. of Bioinformatic analyses in early host response to Porcine Reproductive and Respiratory Syndrome virus (PRRSV) reveals pathway differences between pigs with alternate genotypes for a major host response QTL

description: GO term enrichment performed on all 10 dpi time by time comparisons. For every time by time comparison the Enrichment Score for the significant DAVID clusters as well as a description of these clusters is presented for up-regulated and down-regulated lists of transcripts with an FDRâ
DOI: 10.6084/m9.figshare.c.3641513_d5
title: Additional file 3: Table S3. of Gastric bypass surgery reveals independency of obesity and diabetes melitus type 2

description: Relative changes in variables after RYGB. The changes in all traits are calculated as fraction relative to pre-surgery values for non-diabetics and diabetics turned non-diabetics, respectively. The changes and significance are calculated for female and males separately. (XLS 28 kb)
DOI: 10.6084/m9.figshare.c.3641513_d6
title: Additional file 5: Table S5. of Gastric bypass surgery reveals independency of obesity and diabetes melitus type 2

description: Komogorov-Smirnoff test for equality of distributions of traits between NDM and DMT2-NDM. Traits are tested for distributional similarity between the non-diabetic subpopulation and the diabetic turned non-diabetic subpopulation. (XLS 22 kb)
DOI: 10.6084/m9.figshare.c.3641531_d2
title: Additional file 4: of A novel group of diverse Polinton-like viruses discovered by metagenome analysis

description: PhyML trees (Newick format), trimmed alignments used for phylogenetic tree construction, and original alignments for MCP, ATPase and pDNAP. (TXT 510 kb)
DOI: 10.6084/m9.figshare.c.3641531_d3
title: Additional file 2: of A novel group of diverse Polinton-like viruses discovered by metagenome analysis

description: Geographical origins of the PLV. (XLSX 273 kb)
DOI: 10.6084/m9.figshare.c.3641534_d1
title: MOESM5 of A frameshift mutation in GON4L is associated with proportionate dwarfism in Fleckvieh cattle

description: Additional file 5: Table S2. Annotation of ten candidate causal variants. The functional consequence of ten candidate causal variants was obtained from Ensembl using the Variant Effect Predictor tool.
DOI: 10.6084/m9.figshare.c.3641531_d4
title: Additional file 1: of A novel group of diverse Polinton-like viruses discovered by metagenome analysis

description: Annotated genomes of Polinton-like viruses. (TXT 748 kb)
DOI: 10.6084/m9.figshare.c.3641534_d4
title: MOESM6 of A frameshift mutation in GON4L is associated with proportionate dwarfism in Fleckvieh cattle

description: Additional file 6: Table S3. Genotype distribution of ten candidate causal mutations for dwarfism in 1147 animals from the 1000 bull genomes project. Alternate allele frequency and genotype distribution of ten variants in 29 breeds (homozygous animals for the reference allele | heterozygous animals | homozygous animals for the alternate allele). Blue color indicates two variants that were not polymorphic among the 1147 sequenced animals.
DOI: 10.15468/dl.mpsngs
title: Occurrence Download

description: A dataset containing 22616 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Herpetotheres cachinnans (Linnaeus, 1758)"
 ]
}

 The dataset includes 22616 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033918-241126133413365/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.3641573_d8
title: Additional file 8: of Identification and characterization of abundant repetitive sequences in Eragrostis tef cv. Enatite genome

description: Nucleotide sequences from paralogs in Clade 2 (Additional file 6 : Figure S6). (FAS 6 kb)
DOI: 10.6084/m9.figshare.c.3641573_d9
title: Additional file 14: of Identification and characterization of abundant repetitive sequences in Eragrostis tef cv. Enatite genome

description: Multiple alignment of non-LTR RT paralog sequences identified in teff cv Enantite and Tsedey. (MSF 45 kb)
DOI: 10.6084/m9.figshare.c.3641573_d12
title: Additional file 9: of Identification and characterization of abundant repetitive sequences in Eragrostis tef cv. Enatite genome

description: Multiple alignment of CACTA transposase paralog sequences identified in teff, Rice and Maize. (MSF 12 kb)
DOI: 10.6084/m9.figshare.c.3641573_d10
title: Additional file 5: of Identification and characterization of abundant repetitive sequences in Eragrostis tef cv. Enatite genome

description: Multiple alignment of non-LTR RT paralog sequences identified in teff, Rice and Maize. (MSF 33 kb)
DOI: 10.6084/m9.figshare.c.3641573_d14
title: Additional file 13: of Identification and characterization of abundant repetitive sequences in Eragrostis tef cv. Enatite genome

description: Multiple alignment of Ty3-gypsy RT paralog sequences identified in teff cv Enantite and Tsedey. (MSF 49 kb)
DOI: 10.6084/m9.figshare.c.3641573_d17
title: Additional file 10: of Identification and characterization of abundant repetitive sequences in Eragrostis tef cv. Enatite genome

description: Multiple alignment of hAT dimerization domain paralog sequences identified in teff, Rice and Maize. (MSF 7 kb)
DOI: 10.6084/m9.figshare.c.3641573_d15
title: Additional file 12: of Identification and characterization of abundant repetitive sequences in Eragrostis tef cv. Enatite genome

description: Multiple alignment of Ty1-copia RT paralog sequences identified in teff cv Enantite and Tsedey. (MSF 51 kb)
DOI: 10.6084/m9.figshare.c.3641573_d16
title: Additional file 1: of Identification and characterization of abundant repetitive sequences in Eragrostis tef cv. Enatite genome

description: Library Etef_repeats_V1.4 containing the repeats isolated in this study. (FAS 615 kb)
DOI: 10.6084/m9.figshare.c.3641588_d2
title: Additional file 2 of A multi-task graph-clustering approach for chromosome conformation capture data sets identifies conserved modules of chromosomal interactions

description: The resulting cluster assignments reported in this study, and the feature matrices used for enrichment analysis. (XLS 4270 kb)
DOI: 10.6084/m9.figshare.c.3641603_d1
title: Additional file 5: Table S5. of Genome dynamics of multidrug-resistant Acinetobacter baumannii during infection and treatment

description: Multiply mutated genes. All genes with multiple SNV and ISAba1 events are listed with their predicted function. The text color indicates what the class of mutations are: SNV or ISAba1 events, and whether the mutation was isolate-specific, patient-restricted, or patient-dependent. Green: IS SNV; blue: PR SNV; purple: PS SNV; orange: IS ISAba1; brown: PR ISAba1; pink: PS ISAba1. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.c.3641603_d2
title: Additional file 4: Table S4. of Genome dynamics of multidrug-resistant Acinetobacter baumannii during infection and treatment

description: Isolate-specific, patient-restricted, patient-specific ISAba1 events. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3641603_d3
title: Additional file 3: Table S3. of Genome dynamics of multidrug-resistant Acinetobacter baumannii during infection and treatment

description: Isolate-specific, patient-restricted, patient-specific SNVs. (XLSX 64 kb)
DOI: 10.6084/m9.figshare.c.3641603_d4
title: Additional file 1: Table S1. of Genome dynamics of multidrug-resistant Acinetobacter baumannii during infection and treatment

description: Summary of patient and isolate data. Clade designation and infection type (monoclonal, polyclonal, mixed) is based on strain relatedness in the core phylogeny (Fig.Â 1). Number of SNVs (isolate-specific, patient-restricted, patient-dependent); number of ISAba1 events (isolate-specific, patient-restricted, patient-dependent). (XLSX 32 kb)
DOI: 10.6084/m9.figshare.c.3641603_d5
title: Additional file 2: Table S2. of Genome dynamics of multidrug-resistant Acinetobacter baumannii during infection and treatment

description: Isolate metadata including date and location of isolation, and antibiotic susceptibility data. Colistin susceptibility was assayed using both E-test strips (bioMĂŠrieux) and broth microdilution tests (Sensititre platform). (XLSX 63 kb)
DOI: 10.6084/m9.figshare.c.3641612_d1
title: MOESM3 of Identification of genetic variation in the swine toll-like receptors and development of a porcine TLR genotyping array

description: Additional file 3. Number of gDNA samples included in each library pool and the corresponding sequencing read depth at each position (DP). Large White, Landrace, Duroc, Pietrain samples were merged in two library pools each according to their commercial origin. The numbers between brackets indicate the number of animals in each of the pools for these four breeds.
DOI: 10.6084/m9.figshare.c.3641612_d3
title: MOESM7 of Identification of genetic variation in the swine toll-like receptors and development of a porcine TLR genotyping array

description: Additional file 7. List of the 93 polymorphisms present on the genotyping array. Description: The column “alternative allele frequency” shows the allele frequency of the alternative allele as calculated from the individual’s genotypes.
DOI: 10.6084/m9.figshare.c.3641612_d2
title: MOESM5 of Identification of genetic variation in the swine toll-like receptors and development of a porcine TLR genotyping array

description: Additional file 5. Variant types according to their predicted effect and impact on protein sequence based on SnpEff.