cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11665038.v1
title: MOESM2 of Differential basal expression of immune genes confers Crassostrea gigas resistance to Pacific oyster mortality syndrome

description: Additional file 2. List of DEGs shared by at least two resistant families. This table presents the Log2 fold change of each CGI differentially expressed (significant) in the three resistant oyster families (RF21, RF23 and RF48) compared to the three susceptible families (SF11, SF14 and SF15), the Blast results, the enriched functional categories and details of each comparison (Log2 fold change, p-value and number of reads).
DOI: 10.6084/m9.figshare.11665005
title: MOESM1 of A scoping review of the uses and institutionalisation of knowledge for health policy in low- and middle-income countries

description: Additional file 1.Â Charting Database: Details for each article included in the review.
DOI: 10.6084/m9.figshare.11665005.v1
title: MOESM1 of A scoping review of the uses and institutionalisation of knowledge for health policy in low- and middle-income countries

description: Additional file 1.Â Charting Database: Details for each article included in the review.
DOI: 10.6084/m9.figshare.11664972
title: MOESM3 of Repair of sub-lethal freezing damage in leaves of Arabidopsis thaliana

description: Additional file 3: Table S3. Relative expression (2-∆Ct) of 41 genes in Arabidopsis leaves frozen to different temperatures right after thawing (RAT) or after recovery for 1 day (1D-REC), 3 days (3D-REC) or 6 days (6D-REC) at 4 °C for non-acclimated and cold acclimated plants.
DOI: 10.6084/m9.figshare.11664972.v1
title: MOESM3 of Repair of sub-lethal freezing damage in leaves of Arabidopsis thaliana

description: Additional file 3: Table S3. Relative expression (2-∆Ct) of 41 genes in Arabidopsis leaves frozen to different temperatures right after thawing (RAT) or after recovery for 1 day (1D-REC), 3 days (3D-REC) or 6 days (6D-REC) at 4 °C for non-acclimated and cold acclimated plants.
DOI: 10.6084/m9.figshare.11664960
title: MOESM1 of Repair of sub-lethal freezing damage in leaves of Arabidopsis thaliana

description: Additional file 1: Table S1. Orthologs of potential recovery related proteins identified by a proteomic study in onion [13] and identified in Arabidopsis by BLAST search.
DOI: 10.6084/m9.figshare.11664960.v1
title: MOESM1 of Repair of sub-lethal freezing damage in leaves of Arabidopsis thaliana

description: Additional file 1: Table S1. Orthologs of potential recovery related proteins identified by a proteomic study in onion [13] and identified in Arabidopsis by BLAST search.
DOI: 10.6084/m9.figshare.11664930
title: MOESM1 of Transcriptomics and Epigenomics in head and neck cancer: available repositories and molecular signatures

description: Additional file 1. Supplementary Table
DOI: 10.6084/m9.figshare.11664930.v1
title: MOESM1 of Transcriptomics and Epigenomics in head and neck cancer: available repositories and molecular signatures

description: Additional file 1. Supplementary Table
DOI: 10.6084/m9.figshare.11664849
title: MOESM1 of The effects of bariatric surgery on clinical profile, DNA methylation, and ageing in severely obese patients

description: Additional file 1: Table S1. Type of the bariatric surgery in 40 severely obese patients. Table S2. Baseline and follow-up characteristics of severely obese cohort before and 12 months after bariatric surgery. Table S3. 4857 significant CpG sites associated with pre- and post bariatric surgery difference form EWAS analysis. Table S4. Correlations of change in DNA methylation with change in clinical measures in pre- and post-surgery cohort. Table S5. Reactome enriched terms based on EWAS results. Table S6. Gene ontology terms enriched based on correlated with clinical traits CpG sites from DAVID software. Table S7. Top 10 gene ontology terms enriched based on correlated with clinical traits CpG sites from Metacore software. Table S8. Top 10 gene-dieseses assotiations enriched based on correlated with clinical traits CpG sites from Metacore software. Table S9. Top 30 trancription factors calculated based on a correlated CpG sites with clinical traits by Metacore software. Table S10. TCF7L1 and LMO2 transcription factore and their associated genes from Metacore software. Table S11. DNA methylation levels significantly associated with gene expression levels from blood derived from publically available data (https://www.genenetwork.nl/biosqtlbrowser/). Table S12. 4857 significant CpG sites associated with pre-and post bariatric surgery difference from EWAS analysis separately for 3 cohorts and a combined effect. Table S13. Characteristics of 2 Lifelines subcohorts, healthy lean and healthy obese.
DOI: 10.6084/m9.figshare.11664849.v1
title: MOESM1 of The effects of bariatric surgery on clinical profile, DNA methylation, and ageing in severely obese patients

description: Additional file 1: Table S1. Type of the bariatric surgery in 40 severely obese patients. Table S2. Baseline and follow-up characteristics of severely obese cohort before and 12 months after bariatric surgery. Table S3. 4857 significant CpG sites associated with pre- and post bariatric surgery difference form EWAS analysis. Table S4. Correlations of change in DNA methylation with change in clinical measures in pre- and post-surgery cohort. Table S5. Reactome enriched terms based on EWAS results. Table S6. Gene ontology terms enriched based on correlated with clinical traits CpG sites from DAVID software. Table S7. Top 10 gene ontology terms enriched based on correlated with clinical traits CpG sites from Metacore software. Table S8. Top 10 gene-dieseses assotiations enriched based on correlated with clinical traits CpG sites from Metacore software. Table S9. Top 30 trancription factors calculated based on a correlated CpG sites with clinical traits by Metacore software. Table S10. TCF7L1 and LMO2 transcription factore and their associated genes from Metacore software. Table S11. DNA methylation levels significantly associated with gene expression levels from blood derived from publically available data (https://www.genenetwork.nl/biosqtlbrowser/). Table S12. 4857 significant CpG sites associated with pre-and post bariatric surgery difference from EWAS analysis separately for 3 cohorts and a combined effect. Table S13. Characteristics of 2 Lifelines subcohorts, healthy lean and healthy obese.
DOI: 10.6084/m9.figshare.11664066
title: Supplementary data for Cinachyrella sp. and Paratetilla sp. population structure and microbiome study

description: 16S rRNA sequences from marine sponges Cinachyrella sp. and Paratetilla sp. together with other supplementary data.
DOI: 10.6084/m9.figshare.11664066.v1
title: Supplementary and raw data for Cinachyrella sp. and Paratetilla sp. population structure and microbiome study

description: 16S rRNA sequences from marine sponges Cinachyrella sp. and Paratetilla sp. together with other supplementary data.
DOI: 10.6084/m9.figshare.11664066.v2
title: Supplementary and raw data for Cinachyrella sp. and Paratetilla sp. population structure and microbiome study

description: 16S rRNA sequences from marine sponges Cinachyrella sp. and Paratetilla sp. together with other supplementary data.
DOI: 10.6084/m9.figshare.11664066.v4
title: Supplementary data for Cinachyrella sp. and Paratetilla sp. population structure and microbiome study

description: 16S rRNA sequences from marine sponges Cinachyrella sp. and Paratetilla sp. together with other supplementary data.
DOI: 10.6084/m9.figshare.11664042
title: BAMA and ICS data from HVTN 097, HVTN 100, and RV144

description: Binding antibody multiplex assay (BAMA) and intracellular cytokine staining (ICS) data from HVTN 100, HVTN 097, and RV144. The posted data underlie the vaccine immunogenicity findings in the papers "Landscapes of binding antibody and T-cell responses to pox-protein HIV vaccines in Thais and South Africans" by Zhao and Fiore-Gartland et al., 2020 PLOS One; "Immune correlates of the Thai RV144 HIV vaccine regimen in South Africa" by Gray et al., 2019 Sci Trans Med; and "Subtype C ALVAC-HIV and bivalent subtype C gp120/MF59 HIV-1 vaccine in low-risk, HIV-uninfected, South African adults: a phase 1/2 trial" by Bekker et al., 2018 Lancet HIV.<br>
DOI: 10.25376/hra.11664030
title: submitted Abstract RCT.pdf

description: Abstract submitted to Pediatric Academy Societies, Baltimore, MD 2019; see Powerpoint presentation in separate file
DOI: 10.25376/hra.11664030.v1
title: submitted Abstract RCT.pdf

description: Abstract submitted to Pediatric Academy Societies, Baltimore, MD 2019; see Powerpoint presentation in separate file
DOI: 10.6084/m9.figshare.11664015
title: Simulated significant wave height (3-hourly, 150a) from FIO-ESM v2.0 1pctCO2 experiment r1i1p1f1

description: Simulated significant wave height (3-hourly, 150a) from FIO-ESM v2.0 1pctCO2 experiment (CO2 prescribed to increase at 1% per year) r1i1p1f1, which is branch from Jan 1, 301 of piControl experiment. The grid, named gx1v6, is the displaced pole (the North Pole displaced to the Greenland) grid with 1.1 degree in longitude and 0.27-0.54 degree in latitude.
DOI: 10.6084/m9.figshare.11663994
title: 2019 02 02 Field Notes

description: Field notes including image and/or video records.<br>Project order 92a.
DOI: 10.6084/m9.figshare.11663994.v1
title: 2019 02 02 Field Notes

description: Field notes including image and/or video records.<br>Project order 92a.
DOI: 10.6084/m9.figshare.11663991
title: GLDS-200 example amplicon processed directory

description: Example processed GeneLab amplicon dataset directory structure
DOI: 10.6084/m9.figshare.11663967
title: 2019 01 12 Field Notes

description: Field notes including image and/or video records.<br>Project order 91a.
DOI: 10.6084/m9.figshare.11663991.v1
title: GLDS-200 example amplicon processed directory

description: Example processed GeneLab amplicon dataset directory structure
DOI: 10.6084/m9.figshare.11663967.v1
title: 2019 01 12 Field Notes

description: Field notes including image and/or video records.<br>Project order 91a.
DOI: 10.6084/m9.figshare.11663925
title: InStrain tutorial data

description: Data for the inStrain tutorial (https://instrain.readthedocs.io/en/latest/)
DOI: 10.6084/m9.figshare.11663889
title: Hypoxia, acid-base balance, high-intensity exercise

description: Study A: 16 healthy volunteers underwent a resting 12-h exposure to normobaric hypoxia (3000m) and blood gas analysis was assessed hourly.<br>Study B: 24 recreationally active volunteers participated in a randomized, crossover design portable tethered sprint test (PTSR) under normoxia and after either 1 h (n=12) or 12 h (n=12) of exposure to a simulated altitude of 3000m. <br>
DOI: 10.6084/m9.figshare.11663892
title: Draft Genome of Funaria hygrometrica

description: This repository contains the draft genome sequence of Funaria hygrometrica, the gtf file containing gene and transcript coordinates, assembled transcript sequences and their best protein translations. Full description of the data files are provided in the Readme.txt file.
DOI: 10.6084/m9.figshare.11663856
title: Trip Builder RDF Dataset (GitHub)

description: TripBuilderRDF is a semantic trajectory dataset constructed from user-generated content obtained from Flickr, combined with data from Wikipedia. The dataset contains user trajectories in 3 different Italian cities: Pisa, Rome, and Firenze.File structure of the project:src/main/resources/TripBuilderRawData - Raw data containing original dataset (https://github.com/igobrilhante/TripBuilder)src/main/resources/trajectory_ijgis.ttl.gz - RDF version of the raw datasrc/main/java - Java program to convert the raw data.
DOI: 10.6084/m9.figshare.11663853
title: CRSsim_data

description: CRISPR regulatory screen data simulated with CRSsim (https://github.com/patfiaux/CRSsim). Simulated data with 8 enhancers.
DOI: 10.6084/m9.figshare.11663853.v1
title: CRSsim_data

description: CRISPR regulatory screen data simulated with CRSsim (https://github.com/patfiaux/CRSsim). Simulated data with 8 enhancers.
DOI: 10.6084/m9.figshare.11663856.v1
title: TripBuilderRDF

description: TripBuilderRDF is a semantic trajectory dataset constructed from user-generated content obtained from Flickr, combined with data from Wikipedia. The dataset contains user trajectories in 3 different Italian cities: Pisa, Rome, and Firenze.File structure of the project:src/main/resources/TripBuilderRawData - Raw data containing original dataset (https://github.com/igobrilhante/TripBuilder)src/main/resources/trajectory_ijgis.ttl.gz - RDF version of the raw datasrc/main/java - Java program to convert the raw data.
DOI: 10.6084/m9.figshare.11663841
title: GATA1_RELICS_analysis

description: Analysis of GATA1 CRISPRi screen from Fulco et al. (2016) with RELICS
DOI: 10.6084/m9.figshare.11663856.v2
title: Trip Builder RDF

description: TripBuilderRDF is a semantic trajectory dataset constructed from user-generated content obtained from Flickr, combined with data from Wikipedia. The dataset contains user trajectories in 3 different Italian cities: Pisa, Rome, and Firenze.File structure of the project:src/main/resources/TripBuilderRawData - Raw data containing original dataset (https://github.com/igobrilhante/TripBuilder)src/main/resources/trajectory_ijgis.ttl.gz - RDF version of the raw datasrc/main/java - Java program to convert the raw data.
DOI: 10.6084/m9.figshare.11663841.v1
title: GATA1_RELICS_analysis

description: Analysis of GATA1 CRISPRi screen from Fulco et al. (2016) with RELICS
DOI: 10.6084/m9.figshare.11663841.v3
title: GATA1_RELICS_analysis

description: Analysis of GATA1 CRISPRi screen from Fulco et al. (2016) with RELICS
DOI: 10.6084/m9.figshare.11663856.v3
title: Trip Builder RDF Dataset

description: TripBuilderRDF is a semantic trajectory dataset constructed from user-generated content obtained from Flickr, combined with data from Wikipedia. The dataset contains user trajectories in 3 different Italian cities: Pisa, Rome, and Firenze.File structure of the project:src/main/resources/TripBuilderRawData - Raw data containing original dataset (https://github.com/igobrilhante/TripBuilder)src/main/resources/trajectory_ijgis.ttl.gz - RDF version of the raw datasrc/main/java - Java program to convert the raw data.
DOI: 10.6084/m9.figshare.11663835
title: location error using towers

description: The Tower_info.mat contain the tower locations for 1451 towers used in this study. <br>The before_upgrade.mat contain the location error using towers before the ugprade.<br>The after_upgrade.mat contain the location error using towers after the ugprade.<br>
DOI: 10.6084/m9.figshare.11663841.v2
title: GATA1_RELICS_analysis

description: Analysis of GATA1 CRISPRi screen from Fulco et al. (2016) with RELICS
DOI: 10.6084/m9.figshare.11663832
title: IL2RA_RELICS_analysis

description: Analysis of IL2RA CRISPRa screen from Simeonov et al. (2017) with RELICS
DOI: 10.6084/m9.figshare.11663835.v1
title: location error using towers

description: The Tower_info.mat contain the tower locations for 1451 towers used in this study. <br>The before_upgrade.mat contain the location error using towers before the ugprade.<br>The after_upgrade.mat contain the location error using towers after the ugprade.<br>
DOI: 10.6084/m9.figshare.11663832.v2
title: IL2RA_RELICS_analysis

description: Analysis of IL2RA CRISPRa screen from Simeonov et al. (2017) with RELICS
DOI: 10.6084/m9.figshare.11663814
title: MYC_RELICS_analysis

description: Analysis of MYC CRISPRi screen from Fulco et al. (2016) with RELICS
DOI: 10.6084/m9.figshare.11663832.v1
title: IL2RA_RELICS_analysis

description: Analysis of IL2RA CRISPRa screen from Simeonov et al. (2017) with RELICS
DOI: 10.6084/m9.figshare.11663811
title: data_phenotyping_and_genotypes_DEDpathogens_Hessenauer&Fijarczyk

description: Hybridization and resulting introgression can drive the success of invasive species via the rapid acquisition of adaptive traits. The Dutch Elm Disease (DED) pandemics in the past 100 years were caused by three fungal lineages with permeable reproductive barriers: Ophiostoma ulmi, Ophiostoma novo-ulmi subsp. novo-ulmi and Ophiostoma novo-ulmi subsp. americana. Using whole genome sequences and growth phenotyping of a worldwide collection of isolates, we show that introgression has been the main driver of genomic diversity and that it impacted fitness related traits. Introgressions contain genes involved in host-pathogen interactions and reproduction. Introgressed isolates have enhanced growth rate at high temperature and produce different necrosis sizes on an in vivo model for pathogenicity. In addition, lineages diverge in many pathogenicity-associated genes and exhibit differential mycelial growth in the presence of a proxy of a host defence compound, implying an important role of a host tree in molecular and functional differentiation of pathogens.<br>This dataset includes the phenotyping results of this study as well as the genotypes in VCF format, please refer to Hessenauer&Fijarczyk 2020 for more details
DOI: 10.6084/m9.figshare.11663814.v1
title: MYC_RELICS_analysis

description: Analysis of MYC CRISPRi screen from Fulco et al. (2016) with RELICS
DOI: 10.6084/m9.figshare.11663814.v2
title: MYC_RELICS_analysis

description: Analysis of MYC CRISPRi screen from Fulco et al. (2016) with RELICS
DOI: 10.6084/m9.figshare.11663811.v1
title: data_phenotyping_and_genotypes_DEDpathogens_Hessenauer&Fijarczyk

description: Hybridization and resulting introgression can drive the success of invasive species via the rapid acquisition of adaptive traits. The Dutch Elm Disease (DED) pandemics in the past 100 years were caused by three fungal lineages with permeable reproductive barriers: Ophiostoma ulmi, Ophiostoma novo-ulmi subsp. novo-ulmi and Ophiostoma novo-ulmi subsp. americana. Using whole genome sequences and growth phenotyping of a worldwide collection of isolates, we show that introgression has been the main driver of genomic diversity and that it impacted fitness related traits. Introgressions contain genes involved in host-pathogen interactions and reproduction. Introgressed isolates have enhanced growth rate at high temperature and produce different necrosis sizes on an in vivo model for pathogenicity. In addition, lineages diverge in many pathogenicity-associated genes and exhibit differential mycelial growth in the presence of a proxy of a host defence compound, implying an important role of a host tree in molecular and functional differentiation of pathogens.<br>This dataset includes the phenotyping results of this study as well as the genotypes in VCF format, please refer to Hessenauer&Fijarczyk 2020 for more details
DOI: 10.6084/m9.figshare.11663808
title: CD69_RELICS_analysis

description: Analysis of CD69 CRISPRa screen from Simeonov et al. (2017) with RELICS
DOI: 10.6084/m9.figshare.11663784
title: Additional file 1

description: Read details of the gut metagenome sequence of control and spermidine treated <i>Bombyx mori larvae.<br></i>
DOI: 10.6084/m9.figshare.11663808.v2
title: CD69_RELICS_analysis

description: Analysis of CD69 CRISPRa screen from Simeonov et al. (2017) with RELICS
DOI: 10.6084/m9.figshare.11663808.v1
title: CD69_RELICS_analysis

description: Analysis of CD69 CRISPRa screen from Simeonov et al. (2017) with RELICS
DOI: 10.25392/leicester.data.11663775
title: T. I. Huszar PhD thesis titled 'Massively parallel sequencing of forensic markers: Sequence variation and forensic application' - electronic appendices

description: Created on 20 Jan 2020 - 17:22 by Tunde HuszarElectronic appendices in excel format to the PhD Thesis of Tunde I. Huszar, titled 'Massively parallel sequencing of forensic markers: Sequence variation and forensic application': ● Appendix C Global set - Comprehensive Y-STR sequence allele information (C_Global_YSTR.xlxs) ● Appendix D Global set - Comprehensive aSTR sequence allele information (D_Global_aSTR.xlxs) ● Appendix E Global set - Comprehensive database of mtDNA variation, OREO script, probes and examples. (E_Global_mtDNA.xlxs) ● Appendix F PoBI set - sequence allele information for all forensic markers. (F_PoBI_markers.xlxs) ● Appendix G PoBI set - Further population genetics matrices and graphs. (G_PoBI_popgen_graphs.xlxs)
DOI: 10.25392/leicester.data.11663775.v1
title: T. I. Huszar PhD thesis titled 'Massively parallel sequencing of forensic markers: Sequence variation and forensic application' - electronic appendices

description: Created on 20 Jan 2020 - 17:22 by Tunde HuszarElectronic appendices in excel format to the PhD Thesis of Tunde I. Huszar, titled 'Massively parallel sequencing of forensic markers: Sequence variation and forensic application': ● Appendix C Global set - Comprehensive Y-STR sequence allele information (C_Global_YSTR.xlxs) ● Appendix D Global set - Comprehensive aSTR sequence allele information (D_Global_aSTR.xlxs) ● Appendix E Global set - Comprehensive database of mtDNA variation, OREO script, probes and examples. (E_Global_mtDNA.xlxs) ● Appendix F PoBI set - sequence allele information for all forensic markers. (F_PoBI_markers.xlxs) ● Appendix G PoBI set - Further population genetics matrices and graphs. (G_PoBI_popgen_graphs.xlxs)
DOI: 10.6084/m9.figshare.11663748.v1
title: Sediment Balance in Coastal Louisiana from 2006 to 2015

description: A decadal (2006 to 2015) sediment mass and volume balance for coastal Louisiana from calculated from the Coastwide Reference Monitoring System (CRMS) data using Bayesian kriging.
DOI: 10.6084/m9.figshare.11663748.v2
title: Sediment Balance in Coastal Louisiana from 2006 to 2015

description: A decadal (2006 to 2015) sediment mass and volume balance for coastal Louisiana from calculated from the Coastwide Reference Monitoring System (CRMS) data using Bayesian kriging.
DOI: 10.6084/m9.figshare.11663718
title: Making Drones Interesting Again

description: Building aUAS to fit the needs of research. A presentation on the ability to design and manufacture drones and sensor platforms. This presentation was given at the Earth Science Information Partners (ESIP) Winter Meeting held in Bethesda, MD in January 2020.
DOI: 10.6084/m9.figshare.11663718.v1
title: Making Drones Interesting Again

description: Building aUAS to fit the needs of research. A presentation on the ability to design and manufacture drones and sensor platforms. This presentation was given at the Earth Science Information Partners (ESIP) Winter Meeting held in Bethesda, MD in January 2020.
DOI: 10.6084/m9.figshare.11663634
title: INCA_rawdata.csv

description: Rawdata and metadata for the INCA study, titled:"Neonatal microbiota development and the effect of early life antibiotics are determined by two distinct settler types"Eck, Rutten et. al., Plos ONE, 2020
DOI: 10.6084/m9.figshare.11663598
title: Comparing the diversity of the casein genes in the Asian mouflon and domestic sheep- West Asia WGS SNP

description: Dataset of SNPs identified in the whole genome sequences of 12 domestic sheep individuals originary from West Asia. Sequences were retrieved from NCBI database.
DOI: 10.6084/m9.figshare.11663598.v1
title: Comparing the diversity of the casein genes in the Asian mouflon and domestic sheep- West Asia WGS SNP

description: Dataset of SNPs identified in the whole genome sequences of 12 domestic sheep individuals originary from West Asia. Sequences were retrieved from NCBI database.