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33,753 datasets found
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Variable-Width Bezier Splines in R
The University of AucklandThis report describes support for a new type of variable-width line in the 'vwline' package for R that is based on Bezier curves. There is also a new function for specifying the width of a variable-width line based on Bezier curves and there is a new linejoin and lineend style, called "extend", that is available when both the line and the width of the...Created 1 August 2019 • Updated 19 April 2024 -
eGenes identified in GWAS traits
The University of AucklandChromatin interactions (using Hi-C) and functional (using eQTL) data were used to identify long-range regulatory associations involving >20,000 GWAS variants and their target genes (i.e. eGenes). This dataset contains eGenes identified in >1,350 traits, together with their associated eQTL SNPs.Created 1 August 2019 • Updated 19 April 2024 -
Gametophyte niche differences among sympatric tree ferns
The University of AucklandR code and data for submitted Biology Letters paper to be run in conjunction with other data stored in gametophyte ecology project. Data includes: - development to size threshold of gametophytes of three species of Cyathea - germination percentages etc. - irradiance levels in the understorey of varied NZ forest types - orthophosphate concentrations of...Created 1 August 2019 • Updated 19 April 2024 -
eQTL associations on Chromosome 22
The University of AucklandDisease-associated SNPs on chromosome 22 were tested for eQTL associations using GTEx analysis (v7) and the CODeS3D pipeline. This dataset contains significant associations (FDR 0.05) from both methods.Created 1 August 2019 • Updated 19 April 2024 -
Phenotype-eGene associations in some multimorbid clusters.
The University of AucklandConvex biclustering of shared eGenes among phenotypes resulted in several clusters (Supplementary Figure 4). For each eGene in a cluster, an eGene score (i.e. the percentage of the phenotypes whose associated variants affect the expression of the eGene) is calculated. This data gives for each eGene, the eGene score, number of traits with which the eGene...Created 1 August 2019 • Updated 19 April 2024 -
eGenes in mendelian disorders
The University of AucklandChromatin interactions (using Hi-C) and functional (using eQTL) data were used to identify long-range regulatory associations involving >20,000 GWAS variants and their target genes (i.e. eGenes). Analysis of the OMIM data shows that eGenes, which are also involved in rare Mendelian disorders are spatially associated with eQTLs marked by common...Created 1 August 2019 • Updated 19 April 2024 -
eQTLs in the poly-unsaturated fat metabolism cluster
The University of AucklandChromatin interactions (using Hi-C) and functional (using eQTL) data were used to identify long-range regulatory associations involving >20,000 GWAS variants and their target genes (i.e. eGenes). Convex biclustering was then used to segregate phenotypes that share eGenes, which implies a common underlying molecular mechanism. In the cluster that is built...Created 1 August 2019 • Updated 19 April 2024 -
Pleiotropy matrices for eGenes and eQTLs
The University of AucklandThe Phenotype eQTL overlap sheet has names of phenotypes in columns TraitX and TraitY. The number of eQTLs identified for TraitX and TraitY are given in eQTLsX and eQTLsY. The column, Common, is the number of eQTLsY that are in eQTLsX. Ratio is Common divided by eQTLsX. The Phenotype eGene overlap sheet has names of phenotypes in columns TraitX and...Created 1 August 2019 • Updated 19 April 2024 -
Visualisation files for multimorbidity analysis
The University of AucklandChromatin interactions (using Hi-C) and functional (using eQTL) data were used to identify long-range regulatory associations involving >20,000 GWAS variants and their target genes (i.e. eGenes) in >1,350 phenotypes in the GWAS Catalog. Using convex biclustering, we segregated phenotypes based on the eGenes they share, which implies a common...Created 1 August 2019 • Updated 19 April 2024 -
Protocol for systematic review: Associations of children’s active school...
The University of AucklandSystematic review protocol using PROSPERO criteria for review titled: Associations of children’s active school travel with perceptions of the physical environment and characteristics of the social environment: a systematic review.Created 1 August 2019 • Updated 19 April 2024 -
PhD Thesis Appendix
The University of AucklandAppendix files associated with the PhD thesis "Chromatin organization and gene regulation in granulocytic cells" by Elsie Carlota Jacobson Supplementary table 1. Significantly differentially expressed genes. All genes with significantly differential gene expression (false discovery rate (FDR) <0.05) between either 5µm pores compared to control, 14µm pores...Created 1 August 2019 • Updated 19 April 2024 -
MetaPost Three Ways
The University of AucklandThis report describes three different approaches to communicating between R and MetaPost: importing the PostScript output from MetaPost with the 'grImport' package; calling the mpost program to solve MetaPost paths with the 'metapost' package; and calling the mplib library to solve MetaPost paths with the 'mplib' package.Created 1 August 2019 • Updated 19 April 2024 -
Supplementary_Material_Chapter_1_The_regulation_of_flowering_time
The University of AucklandSupplementary material from Chapter 1 of my thesis entitled The regulation of flowering timeCreated 1 August 2019 • Updated 19 April 2024 -
Supplementary_Material_Chapter_2_Materials_and_methods
The University of AucklandSupplementary material from Chapter 2 of my thesis entitled Materials and methodsCreated 1 August 2019 • Updated 19 April 2024 -
Supplementary_Material_Chapter_3_Characterising_the_late_flowering_phenotype_...
The University of AucklandSupplementary material from Chapter 3 of my thesis entitled Characterising the late flowering phenotype in Tnt1 line NF1634Created 1 August 2019 • Updated 19 April 2024 -
Supplementary_Material_Chapter_6_Transcriptomic_response_Medicago_truncatula_...
The University of AucklandSupplementary material from Chapter 6 of my thesis entitled Transcriptomic response of Medicago truncatula leaf tissue to a short day to long day shiftCreated 1 August 2019 • Updated 19 April 2024 -
Rendering HTML Content in R Graphics
The University of AucklandThis report describes several R packages that allow HTML content to be rendered as part of an R plot. The core package is called 'layoutEngine', but that package requires a "backend" package to perform HTML layout calculations. Three example backends are demonstrated: 'layoutEngineCSSBox', 'layoutEnginePhantomJS', and 'layoutEngineDOM'. We also introduce...Created 1 August 2019 • Updated 19 April 2024 -
Mineral alteration and fractures influence on the elastic properties of...
The University of AucklandIn this repository we provide the waveforms of all the elastic waves data of the manuscript by Duran, Adam, Wallis and Barnhoorn: "Mineral alteration and fractures influence on the elastic properties of pyroclastic rocks"Created 1 August 2019 • Updated 19 April 2024 -
Coastal cliff data
The University of AucklandThese data are those used in Perry & Dickson JGR Eathr Surfaces to explore the sample size required to train effective models using machine-learning methods. The data have had their geographic locations removed in order to anonymise them. Data collected during database complication but not include in the analysis have also been removedCreated 1 August 2019 • Updated 19 April 2024 -
Supplemental Files
The University of AucklandSupplemental Files referenced in doctoral thesis by Nicholas KnowltonCreated 1 August 2019 • Updated 19 April 2024
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