“iNETgrate”: integrating DNA methylation and gene expression data in a single gene network

Integrating multi–omics data in one model can increase statistical power. However, designing such a model is challenging because different omics are measured at different levels. We developed the iNETgrate package (https://bioconductor.org/packages/iNETgrate/) that efficiently integrates transcripto...

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Autores principales: Sajedi, Sogand, Ebrahimi, Ghazal, Roudi, Raheleh, Mehta, Isha, Samimi, Hanie, Kazempour, Shiva, Zainulabadeen, Aamir, Docking, Thomas Roderick, Arora, Sukeshi Patel, Cigarroa, Francisco, Seshadri, Sudha, Karsan, Aly, Zare, Habil
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Journal Experts 2023
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10462231/
https://www.ncbi.nlm.nih.gov/pubmed/37645739
http://dx.doi.org/10.21203/rs.3.rs-3246325/v1
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author Sajedi, Sogand
Ebrahimi, Ghazal
Roudi, Raheleh
Mehta, Isha
Samimi, Hanie
Kazempour, Shiva
Zainulabadeen, Aamir
Docking, Thomas Roderick
Arora, Sukeshi Patel
Cigarroa, Francisco
Seshadri, Sudha
Karsan, Aly
Zare, Habil
author_facet Sajedi, Sogand
Ebrahimi, Ghazal
Roudi, Raheleh
Mehta, Isha
Samimi, Hanie
Kazempour, Shiva
Zainulabadeen, Aamir
Docking, Thomas Roderick
Arora, Sukeshi Patel
Cigarroa, Francisco
Seshadri, Sudha
Karsan, Aly
Zare, Habil
author_sort Sajedi, Sogand
collection PubMed
description Integrating multi–omics data in one model can increase statistical power. However, designing such a model is challenging because different omics are measured at different levels. We developed the iNETgrate package (https://bioconductor.org/packages/iNETgrate/) that efficiently integrates transcriptome and DNA methylation data in a single gene network. Applying iNETgrate on five independent datasets improved prognostication compared to common clinical gold standards and a patient similarity network approach.
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spelling pubmed-104622312023-08-29 “iNETgrate”: integrating DNA methylation and gene expression data in a single gene network Sajedi, Sogand Ebrahimi, Ghazal Roudi, Raheleh Mehta, Isha Samimi, Hanie Kazempour, Shiva Zainulabadeen, Aamir Docking, Thomas Roderick Arora, Sukeshi Patel Cigarroa, Francisco Seshadri, Sudha Karsan, Aly Zare, Habil Res Sq Article Integrating multi–omics data in one model can increase statistical power. However, designing such a model is challenging because different omics are measured at different levels. We developed the iNETgrate package (https://bioconductor.org/packages/iNETgrate/) that efficiently integrates transcriptome and DNA methylation data in a single gene network. Applying iNETgrate on five independent datasets improved prognostication compared to common clinical gold standards and a patient similarity network approach. American Journal Experts 2023-08-18 /pmc/articles/PMC10462231/ /pubmed/37645739 http://dx.doi.org/10.21203/rs.3.rs-3246325/v1 Text en https://creativecommons.org/licenses/by/4.0/This work is licensed under a Creative Commons Attribution 4.0 International License (https://creativecommons.org/licenses/by/4.0/) , which allows reusers to distribute, remix, adapt, and build upon the material in any medium or format, so long as attribution is given to the creator. The license allows for commercial use.
spellingShingle Article
Sajedi, Sogand
Ebrahimi, Ghazal
Roudi, Raheleh
Mehta, Isha
Samimi, Hanie
Kazempour, Shiva
Zainulabadeen, Aamir
Docking, Thomas Roderick
Arora, Sukeshi Patel
Cigarroa, Francisco
Seshadri, Sudha
Karsan, Aly
Zare, Habil
“iNETgrate”: integrating DNA methylation and gene expression data in a single gene network
title “iNETgrate”: integrating DNA methylation and gene expression data in a single gene network
title_full “iNETgrate”: integrating DNA methylation and gene expression data in a single gene network
title_fullStr “iNETgrate”: integrating DNA methylation and gene expression data in a single gene network
title_full_unstemmed “iNETgrate”: integrating DNA methylation and gene expression data in a single gene network
title_short “iNETgrate”: integrating DNA methylation and gene expression data in a single gene network
title_sort “inetgrate”: integrating dna methylation and gene expression data in a single gene network
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10462231/
https://www.ncbi.nlm.nih.gov/pubmed/37645739
http://dx.doi.org/10.21203/rs.3.rs-3246325/v1
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