cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12586408.v1
title: Additional file 1 of Counterbalancing the time-dependent effect on the human mitochondrial DNA molecular clock

description: Additional file 1: Supplementary figures: Figure S1. Phylogenetic tree of mtDNA macrohaplogroup L complete African sequences produced in this study. Figure S2. MtDNA haplogroup P phylogeny. Figure S3. MtDNA haplogroup B2 phylogeny.
DOI: 10.6084/m9.figshare.12586285
title: Additional file 5 of Structural variation of the malaria-associated human glycophorin A-B-E region

description: Additional file 5. Supplementary data.
DOI: 10.6084/m9.figshare.12586285.v1
title: Additional file 5 of Structural variation of the malaria-associated human glycophorin A-B-E region

description: Additional file 5. Supplementary data.
DOI: 10.6084/m9.figshare.12586168
title: Additional file 2 of A guide for studying among-individual behavioral variation from movement data in the wild

description: Additional file 2. Movement metrics of 35 African elephants used to study individual variation in movement (input for Additional file 1).
DOI: 10.6084/m9.figshare.12586168.v1
title: Additional file 2 of A guide for studying among-individual behavioral variation from movement data in the wild

description: Additional file 2. Movement metrics of 35 African elephants used to study individual variation in movement (input for Additional file 1).
DOI: 10.6084/m9.figshare.12586153
title: Additional file 2 of Identifying epigenetic biomarkers of established prognostic factors and survival in a clinical cohort of individuals with oropharyngeal cancer

description: Additional file 2: Supplementary Table 1. Genome-wide differentially-methylated CpG sites associated with smoking status below a multiple testing threshold of P &lt; 2.4e-07. Results are adjusted for age, sex, surrogate variables obtained by SVA, alcohol consumption and HPV16E6 seropositivity. Supplementary Table 2. - Genome-wide differentially-methylated CpG sites associated with alcohol consumption below a multiple testing threshold of P &lt; 2.4e-07. Results are adjusted for age, sex, surrogate variables obtained by SVA, smoking status and HPV16E6 seropositivity. Supplementary Table 3. - Genome-wide differentially-methylated CpG sites associated with ~3-year survival below a multiple testing threshold of P &lt; 2.4e-07. Results are adjusted for age, sex and surrogate variables obtained by SVA. Supplementary Table 4. Genome-wide differentially-methylated CpG sites associated with ~3-year survival below a multiple testing threshold of P &lt; 2.4e-07. Results are adjusted for age, sex, surrogate variables obtained by SVA, smoking status, alcohol consumption and HPV16E6 seropositivity. Supplementary Table 5. Genetic instrumental variables (IVs) used in Mendelian randomization analyses to assess epigenetic mediation between prognostic factors and ~3-year survival. The final # SNPs denotes genetic IVs which both proxy a CpG and where the same position is available in the genome-wide association study of 3-year survival survival. Supplementary Table 6. Lookup of CpG sites in the MRCIEU EWAS Catalog across all EWAS analyses below a Bonferroni p-value threshold of 5.7e-08. Betas for all studies reporting beta values are calculated as a weighted mean, weighted by sample size. Supplementary Table 7. CpG sites (P&lt;2.4e-7) associated with ~3-year survival adjusted for age, sex and surrogate variables obtained by SVA, compared against betas, standard errors and p-values at the same sites when comorbidity and stage are included as additional covariates in the EWAS model.
DOI: 10.6084/m9.figshare.12586153.v1
title: Additional file 2 of Identifying epigenetic biomarkers of established prognostic factors and survival in a clinical cohort of individuals with oropharyngeal cancer

description: Additional file 2: Supplementary Table 1. Genome-wide differentially-methylated CpG sites associated with smoking status below a multiple testing threshold of P &lt; 2.4e-07. Results are adjusted for age, sex, surrogate variables obtained by SVA, alcohol consumption and HPV16E6 seropositivity. Supplementary Table 2. - Genome-wide differentially-methylated CpG sites associated with alcohol consumption below a multiple testing threshold of P &lt; 2.4e-07. Results are adjusted for age, sex, surrogate variables obtained by SVA, smoking status and HPV16E6 seropositivity. Supplementary Table 3. - Genome-wide differentially-methylated CpG sites associated with ~3-year survival below a multiple testing threshold of P &lt; 2.4e-07. Results are adjusted for age, sex and surrogate variables obtained by SVA. Supplementary Table 4. Genome-wide differentially-methylated CpG sites associated with ~3-year survival below a multiple testing threshold of P &lt; 2.4e-07. Results are adjusted for age, sex, surrogate variables obtained by SVA, smoking status, alcohol consumption and HPV16E6 seropositivity. Supplementary Table 5. Genetic instrumental variables (IVs) used in Mendelian randomization analyses to assess epigenetic mediation between prognostic factors and ~3-year survival. The final # SNPs denotes genetic IVs which both proxy a CpG and where the same position is available in the genome-wide association study of 3-year survival survival. Supplementary Table 6. Lookup of CpG sites in the MRCIEU EWAS Catalog across all EWAS analyses below a Bonferroni p-value threshold of 5.7e-08. Betas for all studies reporting beta values are calculated as a weighted mean, weighted by sample size. Supplementary Table 7. CpG sites (P&lt;2.4e-7) associated with ~3-year survival adjusted for age, sex and surrogate variables obtained by SVA, compared against betas, standard errors and p-values at the same sites when comorbidity and stage are included as additional covariates in the EWAS model.
DOI: 10.6084/m9.figshare.12586133
title: Additional file 3 of Integration of genomics, metagenomics, and metabolomics to identify interplay between susceptibility alleles and microbiota in adenoma initiation

description: Additional file 3.
DOI: 10.6084/m9.figshare.12586127
title: Additional file 2 of Integration of genomics, metagenomics, and metabolomics to identify interplay between susceptibility alleles and microbiota in adenoma initiation

description: Additional file 2.
DOI: 10.6084/m9.figshare.12586124
title: Additional file 1 of Integration of genomics, metagenomics, and metabolomics to identify interplay between susceptibility alleles and microbiota in adenoma initiation

description: Additional file 1.
DOI: 10.6084/m9.figshare.12586127.v1
title: Additional file 2 of Integration of genomics, metagenomics, and metabolomics to identify interplay between susceptibility alleles and microbiota in adenoma initiation

description: Additional file 2.
DOI: 10.6084/m9.figshare.12586133.v1
title: Additional file 3 of Integration of genomics, metagenomics, and metabolomics to identify interplay between susceptibility alleles and microbiota in adenoma initiation

description: Additional file 3.
DOI: 10.6084/m9.figshare.12586124.v1
title: Additional file 1 of Integration of genomics, metagenomics, and metabolomics to identify interplay between susceptibility alleles and microbiota in adenoma initiation

description: Additional file 1.
DOI: 10.6084/m9.figshare.12586111
title: Additional file 5 of Phosphatidic acid-dependent localization and basal de-phosphorylation of RA-GEFs regulate lymphocyte trafficking

description: Additional file 5: Table S1. Individual data in graphs of Fig. 1D, Fig. 2B, C, Fig. 3A, B, Fig. 4A, B, C, D, Fig. 7, Fig. 8 and Fig. S4. The graphs in Fig. 1D, Fig. 2B, C, Fig. 3A, B, Fig. 4A, B, C, D show the averages +SEM of three or five independent experiments. The graphs in Figs. 7 and 8 show the averages +SEM of the percentages of each ①, ② and ③ band of RA-GEF-1 or RA-GEF-2 from three independent experiments. The graphs in Fig. S4 show the averages +SEM of the fold increase of the abundance of Rap-1-GTP with CXCL12 stimulation from three independent experiments.
DOI: 10.6084/m9.figshare.12586111.v1
title: Additional file 5 of Phosphatidic acid-dependent localization and basal de-phosphorylation of RA-GEFs regulate lymphocyte trafficking

description: Additional file 5: Table S1. Individual data in graphs of Fig. 1D, Fig. 2B, C, Fig. 3A, B, Fig. 4A, B, C, D, Fig. 7, Fig. 8 and Fig. S4. The graphs in Fig. 1D, Fig. 2B, C, Fig. 3A, B, Fig. 4A, B, C, D show the averages +SEM of three or five independent experiments. The graphs in Figs. 7 and 8 show the averages +SEM of the percentages of each ①, ② and ③ band of RA-GEF-1 or RA-GEF-2 from three independent experiments. The graphs in Fig. S4 show the averages +SEM of the fold increase of the abundance of Rap-1-GTP with CXCL12 stimulation from three independent experiments.
DOI: 10.6084/m9.figshare.12586024
title: Additional file 3 of Design of experiments for fine-mapping quantitative trait loci in livestock populations

description: Additional file 3 R script including functions used for data simulation and analysis.
DOI: 10.6084/m9.figshare.12586021
title: Additional file 2 of Design of experiments for fine-mapping quantitative trait loci in livestock populations

description: Additional file 2 R script for data simulation and analysis. Running this script performs the complete data analysis and evaluation. It calls functions from Additional file 3.
DOI: 10.6084/m9.figshare.12586024.v1
title: Additional file 3 of Design of experiments for fine-mapping quantitative trait loci in livestock populations

description: Additional file 3 R script including functions used for data simulation and analysis.
DOI: 10.6084/m9.figshare.12586021.v1
title: Additional file 2 of Design of experiments for fine-mapping quantitative trait loci in livestock populations

description: Additional file 2 R script for data simulation and analysis. Running this script performs the complete data analysis and evaluation. It calls functions from Additional file 3.
DOI: 10.6084/m9.figshare.12585974
title: Additional file 1 of The VetMAX™ M. tuberculosis complex PCR kit detects MTBC DNA in antemortem and postmortem samples from white rhinoceros (Ceratotherium simum), African elephants (Loxodonta africana) and African buffaloes (Syncerus caffer)

description: Additional file 1: Table S1. Test results for n = 48 African buffaloes (Syncerus caffer) randomly selected from two geographically distinct endemic areas and their mycobacterial culture results. Table S2. VetMAX PCR Kit test results for tissue and respiratory samples from n = 10 white rhinoceros (Ceratotherium simum) and n = 24 African elephants (Loxodonta africana) with known mycobacterial culture results.
DOI: 10.6084/m9.figshare.12585974.v1
title: Additional file 1 of The VetMAX™ M. tuberculosis complex PCR kit detects MTBC DNA in antemortem and postmortem samples from white rhinoceros (Ceratotherium simum), African elephants (Loxodonta africana) and African buffaloes (Syncerus caffer)

description: Additional file 1: Table S1. Test results for n = 48 African buffaloes (Syncerus caffer) randomly selected from two geographically distinct endemic areas and their mycobacterial culture results. Table S2. VetMAX PCR Kit test results for tissue and respiratory samples from n = 10 white rhinoceros (Ceratotherium simum) and n = 24 African elephants (Loxodonta africana) with known mycobacterial culture results.
DOI: 10.6084/m9.figshare.12585935
title: Additional file 3 of Individual, health system, and contextual barriers and facilitators for the implementation of clinical practice guidelines: a systematic metareview

description: Additional file 3. Checklist for Systematic Reviews and Research Syntheses.
DOI: 10.6084/m9.figshare.12585935.v1
title: Additional file 3 of Individual, health system, and contextual barriers and facilitators for the implementation of clinical practice guidelines: a systematic metareview

description: Additional file 3. Checklist for Systematic Reviews and Research Syntheses.
DOI: 10.6084/m9.figshare.12585671
title: Raw data FRAP Activity of Extracts of Rosa Damascene Petals and Receptacles

description: Data Analysis Standard FRAP activity.<br>Data Analysis of FRAP Activity Based on Extracts of Rosa damascene<br>FRAP Activity of Extracts of Rosa damascene Petals and Receptacles (Average. Post Hoc,Tukey HSD Test)<br>
DOI: 10.6084/m9.figshare.12585665
title: JVASP-81196 to JVASP-85699

description: JARVIS-DFT input/output files
DOI: 10.6084/m9.figshare.12585644
title: IPF Pan-transcriptome

description: Supplementary material for the manuscript "Pan-transcriptome-based Candidate Therapeutic Discovery for Idiopathic Pulmonary Fibrosis"
DOI: 10.6084/m9.figshare.12585656
title: Raw data from No evidence for individual recognition in threespine or ninespine sticklebacks (<i>Gasterosteus aculeatus</i> or <i>Pungitius pungitius</i>)

description: Recognition plays an important role in the formation and organization of animal groups. Many animals are capable of class-level recognition, discriminating, for example, on the basis of species, kinship or familiarity. Individual recognition requires that animals recognize distinct cues, and learn to associate these with the specific individual from which they are derived. In this study, we asked whether sticklebacks (<i>Gasterosteus aculeatus</i> and <i>Pungitius pungitius</i>) were capable of learning to recognize individual conspecifics. We have used these fish as model organisms for studying selective social learning, and demonstrating a capacity for individual recognition in these species would provide an exciting opportunity for studying how biases for copying specific individuals shape the dynamics of information transmission. To test for individual recognition, we trained subjects to associate green illumination with the provision of a food reward close to one of two conspecifics, and, for comparison, one of two physical landmarks. Both species were capable of recognizing the rewarded landmark, but neither showed a preference for associating with the rewarded conspecific. Our study provides no evidence for individual recognition in either species. We speculate that the fission–fusion structure of their social groups may not favour a capacity for individual recognition.
DOI: 10.6084/m9.figshare.12585665.v1
title: JVASP-81196 to JVASP-85699

description: JARVIS-DFT input/output files
DOI: 10.6084/m9.figshare.12585656.v1
title: Raw data from No evidence for individual recognition in threespine or ninespine sticklebacks (<i>Gasterosteus aculeatus</i> or <i>Pungitius pungitius</i>)

description: Recognition plays an important role in the formation and organization of animal groups. Many animals are capable of class-level recognition, discriminating, for example, on the basis of species, kinship or familiarity. Individual recognition requires that animals recognize distinct cues, and learn to associate these with the specific individual from which they are derived. In this study, we asked whether sticklebacks (<i>Gasterosteus aculeatus</i> and <i>Pungitius pungitius</i>) were capable of learning to recognize individual conspecifics. We have used these fish as model organisms for studying selective social learning, and demonstrating a capacity for individual recognition in these species would provide an exciting opportunity for studying how biases for copying specific individuals shape the dynamics of information transmission. To test for individual recognition, we trained subjects to associate green illumination with the provision of a food reward close to one of two conspecifics, and, for comparison, one of two physical landmarks. Both species were capable of recognizing the rewarded landmark, but neither showed a preference for associating with the rewarded conspecific. Our study provides no evidence for individual recognition in either species. We speculate that the fission–fusion structure of their social groups may not favour a capacity for individual recognition.
DOI: 10.6084/m9.figshare.12585626
title: Raw data Analysis of anticollagenase an IC50 value.xlsx

description: Data Analysis Activity Anti-Collagenase Of Rosa damascene Petals and Receptacles<br> Anti-Collagenase Activity Of Rosa Damascene Petals And Receptacles<br> IC<sub>50</sub> Value Of The Anti-Collagenase Activity Of Petals And Receptacles<br>
DOI: 10.6084/m9.figshare.12585644.v1
title: IPF Pan-transcriptome

description: Supplementary material for the manuscript "Pan-transcriptome-based Candidate Therapeutic Discovery for Idiopathic Pulmonary Fibrosis"
DOI: 10.6084/m9.figshare.12585596
title: Pseudomons _strains_29A _and_43A_genomes

description: A log file from Unicycler, as well as a .gfa file arising from Unicycler from assemblis of the genomes of Pseudomonas strains 29A and 43A.
DOI: 10.6084/m9.figshare.12585596.v2
title: Pseudomons _strains_29A _and_43A_genomes

description: A log file from Unicycler, as well as a .gfa file arising from Unicycler from assemblis of the genomes of Pseudomonas strains 29A and 43A.
DOI: 10.6084/m9.figshare.12585596.v1
title: Pseudomons _strain_43A_genome

description: A log file from Unicycler, as well as a .gfa file arising from Unicycler from assembly of the genome of Pseudomonas strain 43A.
DOI: 10.6084/m9.figshare.12585541
title: Individual samples of the two study species (<i>Anableps dowei</i> and <i>Jenynsia lineata</i>) sequenced using quaddRAD. from The direction of genital asymmetry is expressed stochastically in internally fertilizing anablepid fishes

description: This table contains information on the individuals used for genome-wide sequencing the in this study. This includes specimens of two species: (<i>Anableps dowei</i> and <i>Jenynsia lineata</i>). It includes information on sex and sidedness of genital asymmetry for all the specimens.
DOI: 10.6084/m9.figshare.12585541.v1
title: Genome wide association analyses for <i>Jenynsia lineata</i> (a) and <i>Anableps dowei</i> (b,c,d,e). from The direction of genital asymmetry is expressed stochastically in internally fertilizing anablepid fishes

description: These tables contain the results of the association mapping conducted using PLINK for <i>Jenynsia lineata</i> (a), all specimens of <i>Anableps dowei</i> combining compatible breeding morphs for males and females (b), all specimens of <i>A. dowei</i> combining incompatible breeding morphs for males and females (c), only males of <i>A. dowei</i> (d), and only females of <i>A. dowei</i> (e).
DOI: 10.6084/m9.figshare.12585497
title: Efect of introduced parasites on the survival and microbiota of nestling cactus inches (Geospiza scandens) in the Galápagos Islands

description: 1) Effect of parasitism on fledging success of Cactus finches (Geospiza scandens) on San Cristobal, Galapagos. 2) Effect of parasitism and tissue type on bacterial diversity (microbiome) of Cactus finches.
DOI: 10.6084/m9.figshare.12585497.v1
title: Efect of introduced parasites on the survival and microbiota of nestling cactus inches (Geospiza scandens) in the Galápagos Islands

description: 1) Effect of parasitism on fledging success of Cactus finches (Geospiza scandens) on San Cristobal, Galapagos. 2) Effect of parasitism and tissue type on bacterial diversity (microbiome) of Cactus finches.
DOI: 10.6084/m9.figshare.12585541.v2
title: Individual samples of the two study species (<i>Anableps dowei</i> and <i>Jenynsia lineata</i>) sequenced using quaddRAD. from The direction of genital asymmetry is expressed stochastically in internally fertilizing anablepid fishes

description: This table contains information on the individuals used for genome-wide sequencing the in this study. This includes specimens of two species: (<i>Anableps dowei</i> and <i>Jenynsia lineata</i>). It includes information on sex and sidedness of genital asymmetry for all the specimens.
DOI: 10.6084/m9.figshare.12585437
title: A utility-aware multi-task scheduling method in cloud manufacturing using extended NSGA-II embedded with game theory

description: This is the experimental data of the manuscript entitled "A utility-aware multi-task scheduling method in cloud manufacturing using extended NSGA-II embedded with game theory". All data are generated through computer simulation and saved in the file with csv format. The data are the simulation of the real-world case. There are nine instances for these experiments, which cover multiple scales. Three attributes including time, cost, and reliability of services for achieving corresponding subtasks are shown in datasets.
DOI: 10.6084/m9.figshare.12585374
title: Gene database of Clostridium perfringens ATCC 13124

description: <i>Clostridium perfringens </i>is a spore-forming, Gram-positive anaerobic bacterium commonly found in the natural environment. It could cause serious food poisoning, and has the shortest generation time of any bacteria at 6.3 minutes in thioglycolate medium. Given its fast doubling time, and formidable arsenal of pathogenic effectors, it has been the subject of intense research in host-microbe interactions. This work sought to provide fundamental information about the genetic repertoire of <i>C. perfringens</i> ATCC 13124 by parsing its annotated genome sequence downloaded from Genbank. Comprising gene name, gene function and gene sequence of all genes in the genome of <i>C. perfringens</i>, the resource should find use in guiding experiments seeking to construct loss-of-function mutants in studying pathogenesis, as well as understanding its survivability in the gastrointestinal tract environment.
DOI: 10.6084/m9.figshare.12585437.v1
title: A utility-aware multi-task scheduling method in cloud manufacturing using extended NSGA-II embedded with game theory

description: This is the experimental data of the manuscript entitled "A utility-aware multi-task scheduling method in cloud manufacturing using extended NSGA-II embedded with game theory". All data are generated through computer simulation and saved in the file with csv format. The data are the simulation of the real-world case. There are nine instances for these experiments, which cover multiple scales. Three attributes including time, cost, and reliability of services for achieving corresponding subtasks are shown in datasets.
DOI: 10.6084/m9.figshare.12585053
title: Patterns of freeze-thaw cycles in 122 lakes in the Northern Hemisphere

description: A dataset of ice freeze cycles for 122 lakes found in the Northern Hemisphere between 1939-2016. Lake ice cover records (did the lake freeze or not) for 122 lakes with time-series extending from 1939-2015+ from the National Snow and Ice Data Center and the data portal from the Long-term Ecological Research Network (Benson et al., 2000; Sharma et al., 2019). For each lake, we also include the GPS coordinates in decimal degrees and country.
DOI: 10.6084/m9.figshare.12585050
title: Hydration Changes & Ultrasound Fat

description: Data set for "Ultrasound Measurements of Subcutaneous Fat Thickness Are Robust Against Hydration Changes"<br>
DOI: 10.6084/m9.figshare.12585050.v1
title: Hydration Changes & Ultrasound Fat

description: Data set for "Ultrasound Measurements of Subcutaneous Fat Thickness Are Robust Against Hydration Changes"<br>
DOI: 10.6084/m9.figshare.12584957
title: NEON Hyperspectral Tiles

description: Tiles of AOP flyovers of NEON's ONAQ site in Utah.
DOI: 10.6084/m9.figshare.12584975
title: data.zip

description: Training, validition, and testing data of LiDAR derived feature maps for hydrological streamline detection of Rowan county watershed acquired from USGS (author: Larry Stanislawski (lstan@usgs.gov) and Ethan Shavers (eshavers@usgs.gov)).
DOI: 10.25392/leicester.data.12584828
title: Ensete microsatellite database enssrmarker

description: Molecular marker database to supportThe landscape of microsatellites in the enset (<i>Ensete ventricosum</i>) genome and web-based marker resource development Manosh Kumar Biswas, Jaypal N. Darbar, James S. Borrell, Mita Bagchi, Dhiman Biswas,Gizachew Woldesenbet Nuraga, Sebsebe Demissew, Paul Wilkin, Trude Schwarzacher and J. S. (Pat) Heslop-Harrison<br>