MOGONET integrates multi-omics data using graph convolutional networks allowing patient classification and biomarker identification.

Nature Communications
Tongxin WangKun Huang

Abstract

To fully utilize the advances in omics technologies and achieve a more comprehensive understanding of human diseases, novel computational methods are required for integrative analysis of multiple types of omics data. Here, we present a novel multi-omics integrative method named Multi-Omics Graph cOnvolutional NETworks (MOGONET) for biomedical classification. MOGONET jointly explores omics-specific learning and cross-omics correlation learning for effective multi-omics data classification. We demonstrate that MOGONET outperforms other state-of-the-art supervised multi-omics integrative analysis approaches from different biomedical classification applications using mRNA expression data, DNA methylation data, and microRNA expression data. Furthermore, MOGONET can identify important biomarkers from different omics data types related to the investigated biomedical problems.

References

Jun 20, 2000·Neurobiology of Aging·H AkiyamaT Wyss-Coray
May 24, 2005·Pharmacology & Therapeutics·Matthias J Kleinz, Anthony P Davenport
Aug 17, 2005·Cancer Research·Marilena V IorioCarlo M Croce
Nov 6, 2007·Frontiers in Bioscience : a Journal and Virtual Library·Gabriella CastoriaFerdinando Auricchio
Jan 1, 1997·IEEE Transactions on Neural Networks·R Setiono, H Liu
Sep 4, 2008·Journal of Periodontology·Joseph Rogers
Feb 11, 2009·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Joel S ParkerPhilip S Bernard
Feb 25, 2009·Cell Research·Hailong WuYin-Yuan Mo
May 26, 2009·Nucleic Acids Research·Jing ChenAnil G Jegga
Jan 6, 2012·Nature Reviews. Neuroscience·Zu-Hang Sheng, Qian Cai
Apr 5, 2012·Current Alzheimer Research·David A BennettRobert S Wilson
Sep 25, 2012·Nature·UNKNOWN Cancer Genome Atlas Network
Oct 13, 2012·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Laoighse MulraneDarran P O'Connor
Jan 28, 2014·Nature Methods·Bo WangAnna Goldenberg
Jul 9, 2014·Journal of the American Medical Informatics Association : JAMIA·Dokyoon KimJu Han Kim
Jul 15, 2015·Nature·Hisham MohammedJason S Carroll
Aug 19, 2015·BMC Bioinformatics·Angela SerraDario Greco
Sep 15, 2015·Statistics in Medicine·Mark A van de WielSaskia M Wilting
Dec 26, 2015·Nucleic Acids Research·Antonio ColapricoHoutan Noushmehr
Feb 24, 2016·Machine Learning in Medical Imaging·Xiaofeng ZhuDinggang Shen
Jul 7, 2016·Nucleic Acids Research·Giancarlo BaroneSpencer J Collis
Oct 16, 2016·Brain Imaging and Behavior·Timothy J HohmanUNKNOWN Alzheimer’s Neuroimaging Initiative
Oct 7, 2017·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Kumardeep ChaudharyLana X Garmire
Nov 4, 2017·PLoS Computational Biology·Florian RohartKim-Anh Lê Cao
Dec 23, 2017·Briefings in Bioinformatics·Giulia TiniMarie-Pier Scott-Boyer
May 22, 2018·Journal of Oncology Translational Research·R S Wahdan-AlaswadA D Thor
May 29, 2018·Neuropeptides·Javad MasoumiJalal Abdolalizadeh
Aug 8, 2018·Scientific Data·Philip L De JagerDavid A Bennett
Apr 3, 2019·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·Nathan A BihlmeyerSudeshna Das

❮ Previous
Next ❯

Software Mentioned

mixOmics R package
View Correlation Discovery Network ( VCDN )
ROSMAP
mixOmics R
PLSDA
VCDN
MOGONE
XGBoost
AD
MOGONET

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.