A computational framework for complex disease stratification from multiple large-scale datasets.

<p><strong>Background</strong><br/> Multilevel data integration is becoming a major area of research in systems biology. Within this area, multi-‘omics datasets on complex diseases are becoming more readily available and there is a need to set standards and good practices for...

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Những tác giả chính: De Meulder, B, Lefaudeux, D, Bansal, A, Mazein, A, Chaiboonchoe, A, Ahmed, H, Balaur, I, Saqi, M, Pellet, J, Ballereau, S, Lemonnier, N, Sun, K, Pandis, I, Yang, X, Batuwitage, M, Kretsos, K, Van Eyll, J, Bedding, A, Davison, T, Dodson, P, Larminie, C, Postle, A, Corfield, J, Djukanovic, R, Chung, K, Adcock, I, Guo, Y, Sterk, P, Manta, A, Rowe, A, Baribaud, F, Auffray, C
Tác giả khác: U-Biopred Study Group And The Etriks Consortium
Định dạng: Journal article
Ngôn ngữ:English
Được phát hành: BioMed Central 2018
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author De Meulder, B
Lefaudeux, D
Bansal, A
Mazein, A
Chaiboonchoe, A
Ahmed, H
Balaur, I
Saqi, M
Pellet, J
Ballereau, S
Lemonnier, N
Sun, K
Pandis, I
Yang, X
Batuwitage, M
Kretsos, K
Van Eyll, J
Bedding, A
Davison, T
Dodson, P
Larminie, C
Postle, A
Corfield, J
Djukanovic, R
Chung, K
Adcock, I
Guo, Y
Sterk, P
Manta, A
Rowe, A
Baribaud, F
Auffray, C
author2 U-Biopred Study Group And The Etriks Consortium
author_facet U-Biopred Study Group And The Etriks Consortium
De Meulder, B
Lefaudeux, D
Bansal, A
Mazein, A
Chaiboonchoe, A
Ahmed, H
Balaur, I
Saqi, M
Pellet, J
Ballereau, S
Lemonnier, N
Sun, K
Pandis, I
Yang, X
Batuwitage, M
Kretsos, K
Van Eyll, J
Bedding, A
Davison, T
Dodson, P
Larminie, C
Postle, A
Corfield, J
Djukanovic, R
Chung, K
Adcock, I
Guo, Y
Sterk, P
Manta, A
Rowe, A
Baribaud, F
Auffray, C
author_sort De Meulder, B
collection OXFORD
description <p><strong>Background</strong><br/> Multilevel data integration is becoming a major area of research in systems biology. Within this area, multi-‘omics datasets on complex diseases are becoming more readily available and there is a need to set standards and good practices for integrated analysis of biological, clinical and environmental data. We present a framework to plan and generate single and multi-‘omics signatures of disease states.</p><br/> <p><strong>Methods</strong><br/> The framework is divided into four major steps: dataset subsetting, feature filtering, ‘omics-based clustering and biomarker identification.</p><br/> <p><strong>Results</strong><br/> We illustrate the usefulness of this framework by identifying potential patient clusters based on integrated multi-‘omics signatures in a publicly available ovarian cystadenocarcinoma dataset. The analysis generated a higher number of stable and clinically relevant clusters than previously reported, and enabled the generation of predictive models of patient outcomes.</p><br/> <p><strong>Conclusions</strong><br/> This framework will help health researchers plan and perform multi-‘omics big data analyses to generate hypotheses and make sense of their rich, diverse and ever growing datasets, to enable implementation of translational P4 medicine.</p><br/>
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spelling oxford-uuid:02e537b8-3d9a-4a37-a8c5-776b8dca096f2022-03-26T08:43:16ZA computational framework for complex disease stratification from multiple large-scale datasets.Journal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:02e537b8-3d9a-4a37-a8c5-776b8dca096fEnglishSymplectic Elements at OxfordBioMed Central2018De Meulder, BLefaudeux, DBansal, AMazein, AChaiboonchoe, AAhmed, HBalaur, ISaqi, MPellet, JBallereau, SLemonnier, NSun, KPandis, IYang, XBatuwitage, MKretsos, KVan Eyll, JBedding, ADavison, TDodson, PLarminie, CPostle, ACorfield, JDjukanovic, RChung, KAdcock, IGuo, YSterk, PManta, ARowe, ABaribaud, FAuffray, CU-Biopred Study Group And The Etriks ConsortiumRocca-Serra, PSansone, S<p><strong>Background</strong><br/> Multilevel data integration is becoming a major area of research in systems biology. Within this area, multi-‘omics datasets on complex diseases are becoming more readily available and there is a need to set standards and good practices for integrated analysis of biological, clinical and environmental data. We present a framework to plan and generate single and multi-‘omics signatures of disease states.</p><br/> <p><strong>Methods</strong><br/> The framework is divided into four major steps: dataset subsetting, feature filtering, ‘omics-based clustering and biomarker identification.</p><br/> <p><strong>Results</strong><br/> We illustrate the usefulness of this framework by identifying potential patient clusters based on integrated multi-‘omics signatures in a publicly available ovarian cystadenocarcinoma dataset. The analysis generated a higher number of stable and clinically relevant clusters than previously reported, and enabled the generation of predictive models of patient outcomes.</p><br/> <p><strong>Conclusions</strong><br/> This framework will help health researchers plan and perform multi-‘omics big data analyses to generate hypotheses and make sense of their rich, diverse and ever growing datasets, to enable implementation of translational P4 medicine.</p><br/>
spellingShingle De Meulder, B
Lefaudeux, D
Bansal, A
Mazein, A
Chaiboonchoe, A
Ahmed, H
Balaur, I
Saqi, M
Pellet, J
Ballereau, S
Lemonnier, N
Sun, K
Pandis, I
Yang, X
Batuwitage, M
Kretsos, K
Van Eyll, J
Bedding, A
Davison, T
Dodson, P
Larminie, C
Postle, A
Corfield, J
Djukanovic, R
Chung, K
Adcock, I
Guo, Y
Sterk, P
Manta, A
Rowe, A
Baribaud, F
Auffray, C
A computational framework for complex disease stratification from multiple large-scale datasets.
title A computational framework for complex disease stratification from multiple large-scale datasets.
title_full A computational framework for complex disease stratification from multiple large-scale datasets.
title_fullStr A computational framework for complex disease stratification from multiple large-scale datasets.
title_full_unstemmed A computational framework for complex disease stratification from multiple large-scale datasets.
title_short A computational framework for complex disease stratification from multiple large-scale datasets.
title_sort computational framework for complex disease stratification from multiple large scale datasets
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