Exposome Shiny: a Toolbox for exposome data analysis
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Inclou dades d'ús des de 2022
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hdl:2117/361528
Correu electrònic de l'autorxavier.escriba.montagutgmail.com
Tipus de documentProjecte Final de Màster Oficial
Data2021-10-13
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Reconeixement 3.0 Espanya
Abstract
The exposome is a collection of environmental factors, such as air pollution, stress and diet, to which an individual is exposed and which can have an effect on health. There are several large projects aimed at the study of the exposome and their impact on human traits such as HELIX, EXPOsOMICS and Hercules among others. ATHELETE is another recent funded European project whose one of its main objectives is to develop a toolbox for exposome data analyses. This toolbox is amied to be used to systematically quantify the effects of a wide range of community-level and individual-level environmental risk factors on mental, cardiometabolic, and respiratory health outcomes. This Master thesis addresses this goal. We have developed Exposome Shiny, a toolbox that bundles many different methodologies required when performing exposome data analyses. These include descriptive analysis, imputation of missing data (duet to limit of detection missings as well as missing at random), hierarchical clustering, exposome-wide association analyses (ExWAS) and multivariate ExWAS. Moreover, this tool not only focuses on performing analysis using the exposome data, it also offers the possibility of integrating omic data and performing association analyses. The results of the omic-exposome association as well as the results from the ExWAS analysis can be interpreted from a biological point of view by using information available at the Comparative Toxicogenomic Database (CTD) that allows to extract information from the genes or chemicals of interest. Exposome Shiny has been developed using the Shiny R package an uses some Bioconductor pacakges to perform data analyses (rexposome, omicRexposome and CTDquerier). Our tool does not require any knowledge of R programming to be operated, it provides the researchers of the exposome a simple way of performing different types of analysis and hence to obtain publication-ready tables and figures. Exposome Shiny is available as open source code on GitHub (https://github.com/ESCRI11/exposomeShiny). We also provide a user guide online book freely available at https://escri11.github.io/exposome_ bookdown.
MatèriesEnvironmental health, Human genome, Diseases -- Risk factors, Salut ambiental, Genoma humà, Malalties -- Factors de risc
TitulacióMÀSTER UNIVERSITARI EN ENGINYERIA AERONÀUTICA (Pla 2014)
Col·leccions
Fitxers | Descripció | Mida | Format | Visualitza |
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thesis.pdf | 6,857Mb | Accés restringit | ||
budget.pdf | 421,4Kb | Accés restringit |