cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12487334.v1
title: Additional file 12 of Age-associated genes in human mammary gland drive human breast cancer progression

description: Additional file 12:Supplementary Table 1. Summary of Aging Breast Cancer (ABC) Genes.
DOI: 10.6084/m9.figshare.12487322
title: Additional file 1 of Analysis of oral microbiome from fossil human remains revealed the significant differences in virulence factors of modern and ancient Tannerella forsythia

description: Additional file 1. Supplementaty Tables.
DOI: 10.6084/m9.figshare.12487322.v1
title: Additional file 1 of Analysis of oral microbiome from fossil human remains revealed the significant differences in virulence factors of modern and ancient Tannerella forsythia

description: Additional file 1. Supplementaty Tables.
DOI: 10.6084/m9.figshare.12487235
title: Additional file 2 of TRF2 and VEGF-A: an unknown relationship with prognostic impact on survival of colorectal cancer patients

description: Additional file 2:Supplementary Table S2. List of mutations detected by NGS analysis in our patients’ dataset
DOI: 10.6084/m9.figshare.12487235.v1
title: Additional file 2 of TRF2 and VEGF-A: an unknown relationship with prognostic impact on survival of colorectal cancer patients

description: Additional file 2:Supplementary Table S2. List of mutations detected by NGS analysis in our patients’ dataset
DOI: 10.6084/m9.figshare.12487160
title: Additional file 6 of A detached leaf assay for testing transient gene expression and gene editing in cowpea (Vigna unguiculata [L.] Walp.)

description: Additional file 6: Table S1. Genetic variation between two cowpea accessions (IT97K-499-35 and IT86D-1010) using Spriggs et al. [40] and Lonardi et al. [26] genome resources for comparison. Table S2. List of genes identified in this study. Table S3. Color codes and descriptions for gene families in microsyntenic region spanning 5 genes upstream and downstream of gene of interest. Table S4. SPO11-1, REC8 and OSD1 protein pairwise identities (in percentages) of legume species relative to cowpea. Table S5. Splice variant analysis of SPO11-1, REC8 and OSD1 genes in IT86D-1010 genotype. Table S6. Gene structure of SPO11-1, REC8 and OSD1 genes in legumes and Arabidopsis. Table S7. Normalized read count of SPO11-1, REC8 and OSD1 genes in laser-captured cell-type datasets. Table S8. Cowpea U6 small nucleolar RNAs non-coding genes identified in this study. Table S9. Edits detected in SPO11-1, REC8 and OSD1 genes via the CRISPR/Cas9 transient assay in detached cowpea leaves. Table S10. Edits detected in SPO11-1-targeted T0 transgenic lines. Table S11. List of primers.
DOI: 10.6084/m9.figshare.12487160.v1
title: Additional file 6 of A detached leaf assay for testing transient gene expression and gene editing in cowpea (Vigna unguiculata [L.] Walp.)

description: Additional file 6: Table S1. Genetic variation between two cowpea accessions (IT97K-499-35 and IT86D-1010) using Spriggs et al. [40] and Lonardi et al. [26] genome resources for comparison. Table S2. List of genes identified in this study. Table S3. Color codes and descriptions for gene families in microsyntenic region spanning 5 genes upstream and downstream of gene of interest. Table S4. SPO11-1, REC8 and OSD1 protein pairwise identities (in percentages) of legume species relative to cowpea. Table S5. Splice variant analysis of SPO11-1, REC8 and OSD1 genes in IT86D-1010 genotype. Table S6. Gene structure of SPO11-1, REC8 and OSD1 genes in legumes and Arabidopsis. Table S7. Normalized read count of SPO11-1, REC8 and OSD1 genes in laser-captured cell-type datasets. Table S8. Cowpea U6 small nucleolar RNAs non-coding genes identified in this study. Table S9. Edits detected in SPO11-1, REC8 and OSD1 genes via the CRISPR/Cas9 transient assay in detached cowpea leaves. Table S10. Edits detected in SPO11-1-targeted T0 transgenic lines. Table S11. List of primers.
DOI: 10.6084/m9.figshare.12487130
title: Additional file 2 of Shifting evolutionary sands: transcriptome characterization of the Aptostichus atomarius species complex

description: Additional file 2. Gene families ordered by strength of selection detected by the COATS pipeline. Identities of genes showing both positive selection and having an assignable identity are highlighted.
DOI: 10.6084/m9.figshare.12487127
title: Additional file 1 of Shifting evolutionary sands: transcriptome characterization of the Aptostichus atomarius species complex

description: Additional file 1. List of gene families under selection and number of sites under selection in each, top blast hit identities of gene families.
DOI: 10.6084/m9.figshare.12487130.v1
title: Additional file 2 of Shifting evolutionary sands: transcriptome characterization of the Aptostichus atomarius species complex

description: Additional file 2. Gene families ordered by strength of selection detected by the COATS pipeline. Identities of genes showing both positive selection and having an assignable identity are highlighted.
DOI: 10.6084/m9.figshare.12487127.v1
title: Additional file 1 of Shifting evolutionary sands: transcriptome characterization of the Aptostichus atomarius species complex

description: Additional file 1. List of gene families under selection and number of sites under selection in each, top blast hit identities of gene families.
DOI: 10.6084/m9.figshare.12487076
title: Additional file 2 of What are the sociodemographic and gender determinants of non-fatal self-harm in older adult users and non-users of antidepressants? A national population-based study

description: Additional file 2. Factors associated with non-fatal self-harm in men and women aged ≥75 years and in antidepressants users and non-users.
DOI: 10.6084/m9.figshare.12487073
title: Additional file 1 of What are the sociodemographic and gender determinants of non-fatal self-harm in older adult users and non-users of antidepressants? A national population-based study

description: Additional file 1. Factors associated with non-fatal self-harm in all persons aged ≥75 years and in antidepressants users and non-users.
DOI: 10.6084/m9.figshare.12487076.v1
title: Additional file 2 of What are the sociodemographic and gender determinants of non-fatal self-harm in older adult users and non-users of antidepressants? A national population-based study

description: Additional file 2. Factors associated with non-fatal self-harm in men and women aged ≥75 years and in antidepressants users and non-users.
DOI: 10.6084/m9.figshare.12487073.v1
title: Additional file 1 of What are the sociodemographic and gender determinants of non-fatal self-harm in older adult users and non-users of antidepressants? A national population-based study

description: Additional file 1. Factors associated with non-fatal self-harm in all persons aged ≥75 years and in antidepressants users and non-users.
DOI: 10.6084/m9.figshare.12487061
title: Additional file 1 of Evaluation of morbidity in Schistosoma mansoni-positive primary and secondary school children after four years of mass drug administration of praziquantel in western Kenya

description: Additional file 1 These are details of the raw data for the study participants (n = 295) used in the analyses of results presented in the current paper.
DOI: 10.6084/m9.figshare.12487061.v1
title: Additional file 1 of Evaluation of morbidity in Schistosoma mansoni-positive primary and secondary school children after four years of mass drug administration of praziquantel in western Kenya

description: Additional file 1 These are details of the raw data for the study participants (n = 295) used in the analyses of results presented in the current paper.
DOI: 10.6084/m9.figshare.12487034
title: Additional file 1 of Drug retention of 7 biologics and tofacitinib in biologics-naïve and biologics-switched patients with rheumatoid arthritis: the ANSWER cohort study

description: Additional file 1: Figure S1. Estimated cumulative incidence with discontinuation due to non-toxic events in the bDMARDs-naïve cases (a) and the bDMARDs-switched cases (b). ABT = abatacept, ADA = adalimumab, CZP = certolizumab pegol, ETN = etanercept, GLM = golimumab, IFX = infliximab, TCZ = tocilizumab, TOF = tofacitinib, bDMARDs = biological disease-modifying antirheumatic drugs.
DOI: 10.6084/m9.figshare.12487034.v1
title: Additional file 1 of Drug retention of 7 biologics and tofacitinib in biologics-naïve and biologics-switched patients with rheumatoid arthritis: the ANSWER cohort study

description: Additional file 1: Figure S1. Estimated cumulative incidence with discontinuation due to non-toxic events in the bDMARDs-naïve cases (a) and the bDMARDs-switched cases (b). ABT = abatacept, ADA = adalimumab, CZP = certolizumab pegol, ETN = etanercept, GLM = golimumab, IFX = infliximab, TCZ = tocilizumab, TOF = tofacitinib, bDMARDs = biological disease-modifying antirheumatic drugs.
DOI: 10.6084/m9.figshare.12486908
title: Additional file 1 of The core genome multi-locus sequence typing of Mycoplasma anserisalpingitidis

description: Additional file 1: Supplementary Table 1. Background information and cgMLST profiles of the 81 M. anserisalpingitidis strains examined in the study.
DOI: 10.6084/m9.figshare.12486914
title: Additional file 2 of The core genome multi-locus sequence typing of Mycoplasma anserisalpingitidis

description: Additional file 2: Supplementary Table 2. chewBBACA cgMLST profiles of 55 M. gallisepticum strains analysed with Ridom SeqSphere+ in a previous study. The cgMLST profiles of M. gallisepticum strains from the publication of Ghanem et al. [15] were determined with the in-house adjusted chewBBACA software [24], compatible with the mycoplasma genetic code.
DOI: 10.6084/m9.figshare.12486908.v1
title: Additional file 1 of The core genome multi-locus sequence typing of Mycoplasma anserisalpingitidis

description: Additional file 1: Supplementary Table 1. Background information and cgMLST profiles of the 81 M. anserisalpingitidis strains examined in the study.
DOI: 10.6084/m9.figshare.12486914.v1
title: Additional file 2 of The core genome multi-locus sequence typing of Mycoplasma anserisalpingitidis

description: Additional file 2: Supplementary Table 2. chewBBACA cgMLST profiles of 55 M. gallisepticum strains analysed with Ridom SeqSphere+ in a previous study. The cgMLST profiles of M. gallisepticum strains from the publication of Ghanem et al. [15] were determined with the in-house adjusted chewBBACA software [24], compatible with the mycoplasma genetic code.
DOI: 10.6084/m9.figshare.12486884
title: Additional file 8 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 8. Immunoprecipitation-mass spectrometry of four core ISGs (IFI35, STAT1, NMI, and PNPT1) in IFN-stimulated and unstimulated cells.
DOI: 10.6084/m9.figshare.12486887
title: Additional file 9 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 9. Label-free quantitation intensities of ribosomal proteins in monosomes and polysomes.
DOI: 10.6084/m9.figshare.12486884.v1
title: Additional file 8 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 8. Immunoprecipitation-mass spectrometry of four core ISGs (IFI35, STAT1, NMI, and PNPT1) in IFN-stimulated and unstimulated cells.
DOI: 10.6084/m9.figshare.12486875
title: Additional file 7 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 7. Gene Ontology terms differentially enriched between unstimulated and IFN-stimulated interactomes.
DOI: 10.6084/m9.figshare.12486887.v1
title: Additional file 9 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 9. Label-free quantitation intensities of ribosomal proteins in monosomes and polysomes.
DOI: 10.6084/m9.figshare.12486869
title: Additional file 6 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 6. Autocorrelation z scores between pairs of stimulated and unstimulated chromatograms.
DOI: 10.6084/m9.figshare.12486875.v1
title: Additional file 7 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 7. Gene Ontology terms differentially enriched between unstimulated and IFN-stimulated interactomes.
DOI: 10.6084/m9.figshare.12486863
title: Additional file 5 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 5. Representation of known CORUM protein complexes in the IFN interactome.
DOI: 10.6084/m9.figshare.12486869.v1
title: Additional file 6 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 6. Autocorrelation z scores between pairs of stimulated and unstimulated chromatograms.
DOI: 10.6084/m9.figshare.12486860
title: Additional file 4 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 4. SEC-PCP-SILAC interactomes of unstimulated and IFN-stimulated HeLa cells at 70% precision.
DOI: 10.6084/m9.figshare.12486851
title: Additional file 3 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 3. GO term enrichment on significantly changed SILAC ratios of IFN-stimulated cells at 4 h or 24 h IFN treatment.
DOI: 10.6084/m9.figshare.12486860.v1
title: Additional file 4 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 4. SEC-PCP-SILAC interactomes of unstimulated and IFN-stimulated HeLa cells at 70% precision.
DOI: 10.6084/m9.figshare.12486863.v1
title: Additional file 5 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 5. Representation of known CORUM protein complexes in the IFN interactome.
DOI: 10.6084/m9.figshare.12486851.v1
title: Additional file 3 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 3. GO term enrichment on significantly changed SILAC ratios of IFN-stimulated cells at 4 h or 24 h IFN treatment.
DOI: 10.6084/m9.figshare.12486842
title: Additional file 2 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 2. Shotgun proteomic SILAC ratios of IFN-stimulated cells at 4 h or 24 h IFN treatment.
DOI: 10.6084/m9.figshare.12486842.v1
title: Additional file 2 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 2. Shotgun proteomic SILAC ratios of IFN-stimulated cells at 4 h or 24 h IFN treatment.
DOI: 10.6084/m9.figshare.12486827
title: Additional file 12 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 12. Label-free proteomics of IFN-stimulated cells treated with siRNAs targeting RPL28, RPS26, RPS28, or control siRNAs.
DOI: 10.6084/m9.figshare.12486821
title: Additional file 11 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 11. Gene set enrichment analysis of SILAC ratios in siRPL28-treated and IFN-stimulated cells compared to untreated controls.
DOI: 10.6084/m9.figshare.12486827.v1
title: Additional file 12 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 12. Label-free proteomics of IFN-stimulated cells treated with siRNAs targeting RPL28, RPS26, RPS28, or control siRNAs.
DOI: 10.6084/m9.figshare.12486812
title: Additional file 10 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 10. Shotgun proteomic SILAC ratios of siRPL28-treated cells plus IFN for 8 h.
DOI: 10.6084/m9.figshare.12486821.v1
title: Additional file 11 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 11. Gene set enrichment analysis of SILAC ratios in siRPL28-treated and IFN-stimulated cells compared to untreated controls.
DOI: 10.6084/m9.figshare.12486812.v1
title: Additional file 10 of Dynamic rewiring of the human interactome by interferon signaling

description: Additional file 10. Shotgun proteomic SILAC ratios of siRPL28-treated cells plus IFN for 8 h.
DOI: 10.6084/m9.figshare.12486716
title: Additional file 14 of DNA interference is controlled by R-loop length in a type I-F1 CRISPR-Cas system

description: Additional file 14. Individual data values. Values are provided for: Fig. 1: pannels D, E; Fig. 2: pannel D; Fig. 3: pannels B, C; F; Fig. 4: pannels B, D.
DOI: 10.6084/m9.figshare.12486719
title: Additional file 1 of DNA interference is controlled by R-loop length in a type I-F1 CRISPR-Cas system

description: Additional file 1: Table S1. Spacer sequences in the CRISPR2 region of Aggregatibacter actinomycetemcomitans D7S-1.
DOI: 10.6084/m9.figshare.12486716.v1
title: Additional file 14 of DNA interference is controlled by R-loop length in a type I-F1 CRISPR-Cas system

description: Additional file 14. Individual data values. Values are provided for: Fig. 1: pannels D, E; Fig. 2: pannel D; Fig. 3: pannels B, C; F; Fig. 4: pannels B, D.
DOI: 10.6084/m9.figshare.12486719.v1
title: Additional file 1 of DNA interference is controlled by R-loop length in a type I-F1 CRISPR-Cas system

description: Additional file 1: Table S1. Spacer sequences in the CRISPR2 region of Aggregatibacter actinomycetemcomitans D7S-1.
DOI: 10.6084/m9.figshare.12486548.v1
title: Data for Nonadditive and legacy effects of spring and autumn warming on soil respiration in an old-field grassland

description: Data of soil respiration, heterotrophic respiration, plant leaf photosynthesis and above-ground biomass responses to spring and autumn warming.
DOI: 10.6084/m9.figshare.12486590.v1
title: A model to predict surface gas transfer rate in streams based on turbulence production by aquatic vegetation.zip

description: Data presented and discussed on "A model to predict surface gas transfer rate in streams based on turbulence production by aquatic vegetation", by Chien-Yung Tseng and Rafael O. Tinoco, published in Advances in Water Resources. Data files are described in detail in the Data Description File.
DOI: 10.6084/m9.figshare.12486512
title: Repeat elements reference sequences (mouse)

description: FASTA files with repeat families sequences in the mouse genome.
DOI: 10.6084/m9.figshare.12486509
title: JVASP-9675 to JVASP-10369

description: Input/output files
DOI: 10.6084/m9.figshare.12486497
title: JVASP-5851 to JVASP-8243

description: JARVIS-DFT input/output files
DOI: 10.6084/m9.figshare.12486512.v1
title: Repeat elements reference sequences (mouse)

description: FASTA files with repeat families sequences in the mouse genome.
DOI: 10.6084/m9.figshare.12486512.v2
title: Repeat elements reference sequences (mouse)

description: FASTA files with repeat families sequences in the mouse genome.
DOI: 10.6084/m9.figshare.12486452
title: JVASP-1819 to JVASP-3774

description: JARVIS-DFT Input/output files
DOI: 10.6084/m9.figshare.12486479
title: Raw data for Supplementary methods and Figure 3 and 4

description: Pseudotyped viruses are useful virological tools due to their safety and versatility. Based on a VSV pseudotyped virus production system, we developed a pseudotyped virus-based neutralization assay against SARS-CoV-2 in biosafety level 2 facilities. Compared with the binding antibody test, the neutralization assay could discriminate the protective agents from the antibody family. This protocol includes production, titration of the SARS-CoV-2 S pseudotyped virus and neutralization assay based on it. Various types of samples targeting virus attachment and entry could be evaluated for their potency, including serum samples derived from animals and humans, monoclonal antibodies, fusion inhibitors (peptides or small molecules). If the pseudotyped virus stock has been prepared in advance, it will take 2 days to get the potency data for the candidate samples. Experience of handling cells is needed before implementing this protocol.
DOI: 10.6084/m9.figshare.12486395
title: Code and data for bee microbiome thermotolerance analyses

description: Data and code to reproduce figures and analyses from manuscript on social bee microbiome thermal traits.
DOI: 10.6084/m9.figshare.12486395.v2
title: Code and data for bee microbiome thermotolerance analyses

description: Data and code to reproduce figures and analyses from manuscript on social bee microbiome thermal traits.
DOI: 10.6084/m9.figshare.12486395.v1
title: Code and data for bee microbiome thermotolerance analyses

description: Data and code to reproduce figures and analyses from manuscript on social bee microbiome thermal traits.
DOI: 10.6084/m9.figshare.12486350
title: Dataset for the manuscript "Deriving the absorption of brown carbon from multiple wavelengths: The effect of black carbon morphologies " by Luo et al.

description: This is the Dataset for the manuscript "Deriving the absorption of brown carbon from multiple wavelengths: The effect of black carbon morphologies " by Luo et al.
DOI: 10.6084/m9.figshare.12486335
title: Col0_C1.100k.bam

description: Bam file<br>
DOI: 10.6084/m9.figshare.12486350.v1
title: Deriving_BrC.zip

description: This is the Dataset for the manuscript "Deriving the absorption of brown carbon from multiple wavelengths: The effect of black carbon morphologies " by Luo et al.
DOI: 10.6084/m9.figshare.12486233
title: Thermoelectric Power Factors

description: Thermoelectric power factor data from Tshitoyan et al. "Unsupervised word embeddings capture latent knowledge from materials science literature." <br>https://www.nature.com/articles/s41586-019-1335-8<br><br>Data format: <br>(material_formulas, is_known_thermoelectric, maximum_power_factor)<br><br>License: CC-BY-NC-ND (Attribution-NonCommercial-NoDerivatives)https://creativecommons.org/licenses/by-nc-nd/4.0/deed.en<br>
DOI: 10.6084/m9.figshare.12486335.v1
title: Col0_C1.100k.bam

description: Bam file<br>
DOI: 10.6084/m9.figshare.12486233.v1
title: Thermoelectric Power Factors

description: Thermoelectric power factor data from Tshitoyan et al. "Unsupervised word embeddings capture latent knowledge from materials science literature." <br>https://www.nature.com/articles/s41586-019-1335-8<br><br>Data format: <br>(material_formulas, is_known_thermoelectric, maximum_power_factor)<br><br>License: CC-BY-NC-ND (Attribution-NonCommercial-NoDerivatives)https://creativecommons.org/licenses/by-nc-nd/4.0/deed.en<br>
DOI: 10.15131/shef.data.12486134
title: Children, Technology and Play - UK Survey

description: The <i>UK Survey Data</i> forms part of <b>Children, Technology and Play</b> (2019-2020), an 8-month co-produced study by academics from the University of Sheffield and University of Cape Town, South Africa, the LEGO Foundation and Dubit. The study explored the contemporary play environments of children to identify the ways in which their play is shaped by technology, examine the relationship between digital play, learning and creativity, and explore the role of adults in mediating digital play.<br> As part of the UK research, an online survey was conducted by Dubit of 2,429 families with children aged 3-11 years across the UK. This dataset comprises analysis of the statistical data from the survey. The analysis was carried out using SPSS (Statistical Package for the Social Sciences) version 26. The analysis involved the creation of tables using either customised tables by direct coding (CTABLES) or by using the CROSSTABS procedure which produced the chi-squared statistics which determined any statistical significance in relation to age/gender/social class/ethnicity.<br><b></b> The project received ethical approval from the University of Sheffield (no. 028701).<br> The research tools, including the survey questions, and other datasets from the study are deposited elsewhere in ORDA and have been brought together in the <b>Children, Technology and Play collection</b>.
DOI: 10.6084/m9.figshare.12486014
title: ref_all.zip

description: This is a reference dataset for fishpond classification using remote sensing images.
DOI: 10.6084/m9.figshare.12486014.v1
title: ref_all.zip

description: This is a reference dataset for fishpond classification using remote sensing images.