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References from A guide to multi-omics data collection and integration for translational medicine. Local targets link to admitted publications; unresolved targets remain external evidence.
The challenges of explainable AI in biomedical data science
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Fibromine is a multi-omics database and mining tool for target discovery in pulmonary fibrosis
10.1038/s41598-021-01069-w · 2021 · External reference
DevOmics: an integrated multi-omics database of human and mouse early embryo
2021 · External reference
Establish six-gene prognostic model for glioblastoma based on multi-omics data of TCGA database
2021 · External reference
jMorp updates in 2020: large enhancement of multi-omics data resources on the general Japanese population
10.1093/nar/gkaa1034 · 2021 · External reference
DriverDBv3: a multi-omics database for cancer driver gene research
2020 · External reference
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ColPortal, an integrative multiomic platform for analysing epigenetic interactions in colorectal cancer
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Integration of multi-omics datasets enables molecular classification of COPD
2018 · External reference
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Extensions of sparse canonical correlation analysis with applications to genomic data
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Integrating different data types by regularized unsupervised multiple kernel learning with application to cancer subtype discovery
10.1093/bioinformatics/btv244 · 2015 · External reference
Methods for biological data integration: Perspectives and challenges
10.1098/rsif.2015.0571 · 2015 · External reference
A review on machine learning principles for multi-view biological data integration
2018 · External reference
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10.1093/nar/gky889 · External reference
Multi-omic tumor data reveal diversity of molecular mechanisms that correlate with survival
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A non-negative matrix factorization method for detecting modules in heterogeneous omics multi-modal data
2016 · External reference
Integrative and comparative genomic analyses identify clinically relevant pulmonary carcinoid groups and unveil the supra-carcinoids
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Computational approaches leveraging integrated connections of multi-omic data toward clinical applications
10.1039/d1mo00158b · 2022 · External reference
Fast dimension reduction and integrative clustering of multi-omics data using low-rank approximation: application to cancer molecular classification
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A multivariate approach to the integration of multi-omics datasets
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Regularized Generalized Canonical Correlation Analysis: A Framework for Sequential Multiblock Component Methods
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Benchmarking joint multi-omics dimensionality reduction approaches for the study of cancer
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10.1093/nar/gky889
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Prediction of Alzheimer’s disease based on deep neural network by integrating gene expression and DNA methylation dataset
10.1016/j.eswa.2019.112873 · 2020 · External reference
Multimodal machine learning in precision health: A scoping review
10.1038/s41746-022-00712-8 · 2022 · External reference
MOGONET integrates multi-omics data using graph convolutional networks allowing patient classification and biomarker identification
10.1038/s41467-021-23774-w · 2021 · External reference
Subtype-GAN: a deep learning approach for integrative cancer subtyping of multi-omics data
10.1093/bioinformatics/btab109 · 2021 · External reference
10.1101/217554
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Joint and individual variation explained (JIVE) for integrated analysis of multiple data types
2013 · External reference
Integrative clustering of multi-level ’omic data based on non-negative matrix factorization algorithm
10.1371/journal.pone.0176278 · 2017 · External reference
Biomarker discovery by integrated joint non-negative matrix factorization and pathway signature analyses
10.1038/s41598-018-28066-w · 2018 · External reference
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10.1093/bioinformatics/btz822
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iBAG: integrative Bayesian analysis of high-dimensional multiplatform genomics data
10.1093/bioinformatics/bts655 · 2013 · External reference
Integration of Multi-omics Data for Gene Regulatory Network Inference and Application to Breast Cancer
2018 · External reference
Integration of multi-omics data for integrative gene regulatory network inference
10.1504/ijdmb.2017.087178 · 2017 · External reference
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Sparse PLS discriminant analysis: biologically relevant feature selection and graphical displays for multiclass problems
10.1186/1471-2105-12-253 · 2011 · External reference
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PathME: pathway based multi-modal sparse autoencoders for clustering of patient-level multi-omics data
10.1186/s12859-020-3465-2 · 2020 · External reference
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Integrating multi-OMICS data through sparse canonical correlation analysis for the prediction of complex traits: a comparison study
10.1093/bioinformatics/btaa530 · 2020 · External reference
A strategy for multimodal data integration: application to biomarkers identification in spinocerebellar ataxia
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Regularized generalized canonical correlation analysis for multiblock or multigroup data analysis
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Integrated microbiota and metabolite profiles link Crohn’s disease to sulfur metabolism
10.1038/s41467-020-17956-1 · 2020 · External reference
Visualising associations between paired ‘omics’ data sets
10.1186/1756-0381-5-19 · 2012 · External reference
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Principal component gene set enrichment (PCGSE)
10.1186/s13040-015-0059-z · 2015 · External reference
Multi-omics systems toxicology study of mouse lung assessing the effects of aerosols from two heat-not-burn tobacco products and cigarette smoke, Computational and Structural
2020 · External reference
10.1093/bioinformatics/btv268
10.1093/bioinformatics/btv268 · External reference
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10.1093/bioinformatics/btv258
10.1093/bioinformatics/btv258 · External reference
The Application of Bayesian Methods in Cancer Prognosis and Prediction
10.21873/cgp.20298 · 2022 · External reference
Evaluating methods of inferring gene regulatory networks highlights their lack of performance for single cell gene expression data
10.1186/s12859-018-2217-z · 2018 · External reference
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2019 · External reference
A comprehensive survey of the approaches for pathway analysis using multi-omics data integration
10.1093/bib/bbac435 · 2022 · External reference
PaintOmics 3: a web resource for the pathway analysis and visualization of multi-omics data
10.1093/nar/gky466 · 2018 · External reference
multiGSEA: a GSEA-based pathway enrichment analysis for multi-omics data
10.1186/s12859-020-03910-x · 2020 · External reference
10.1038/s41467-019-13983-9
10.1038/s41467-019-13983-9 · External reference
10.1074/mcp.tir118.001251
10.1074/mcp.tir118.001251 · External reference
Inferring Interaction Networks From Multi-Omics Data
2019 · External reference
Learning mixed graphical models with separate sparsity parameters and stability-based model selection
10.1186/s12859-016-1039-0 · 2016 · External reference
The Personal Genome Project-UK, an open access resource of human multi-omics data
10.1038/s41597-019-0205-4 · 2019 · External reference
ReactomeGSA - Efficient Multi-Omics Comparative Pathway Analysis
10.1074/mcp.tir120.002155 · 2020 · External reference
10.1093/nar/gkab382
10.1093/nar/gkab382 · External reference
Integrated pathway-level analysis of transcriptomics and metabolomics data with IMPaLA
2011 · External reference
