Joint estimation of multiple mixed graphical models for pan-cancer network analysis

Stat
Bochao Jia, Faming Liang

Abstract

Graphical models have been used in many scientific fields for exploration of conditional independence relationships for a large set of random variables. Although a variety of methods have been proposed in the literature for estimating graphical models with different types of data, none of them is applicable for jointly estimating multiple mixed graphical models. To tackle this problem, we propose a joint mixed learning method. The proposed method is very flexible, which works for various mixed types of data, such as those mixed with Gaussian, multinomial, and Poisson, and also allows people to incorporate domain knowledge into network construction by restricting some links to be included in or excluded from the networks. As an application, the proposed method is applied to pan-cancer network analysis for six types of cancer with data from The Cancer Genome Atlas. To our knowledge, this is the first work for joint estimation of multiple mixed graphical models.

References

Dec 15, 2007·Biostatistics·Jerome FriedmanRobert Tibshirani
Jan 1, 2008·Journal of the Royal Statistical Society. Series B, Statistical Methodology·Hao Helen Zhang
Aug 26, 2010·Diagnostic Molecular Pathology : the American Journal of Surgical Pathology, Part B·Natsumi IraharaShuji Ogino
Mar 26, 2011·PloS One·Xin Victoria WangTerence P Speed
Jan 17, 2012·Journal of Endodontics·Gustavo Pompermaier GarletRenato Menezes Silva
Jun 1, 1984·IEEE Transactions on Pattern Analysis and Machine Intelligence·S Geman, D Geman
May 9, 2012·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Helen M MohanEvelyn P Murphy
Mar 1, 2011·Biometrika·Jian GuoJi Zhu
May 13, 2014·Journal of the Royal Statistical Society. Series B, Statistical Methodology·Patrick DanaherDaniela M Witten
Jan 1, 2015·BMC Systems Biology·Qingyang ZhangJi-Ping Wang
Jun 17, 2015·Journal of the American Statistical Association·Christine B PetersonMarina Vannucci
Jun 19, 2015·Journal of Computational and Graphical Statistics : a Joint Publication of American Statistical Association, Institute of Mathematical Statistics, Interface Foundation of North America·Jason D Lee, Trevor J Hastie
Jul 4, 2015·Cell Death and Differentiation·U KnackmussS Herzog
Mar 1, 2016·Journal of the Royal Statistical Society. Series B, Statistical Methodology·Huitong QiuBrian Caffo
Jun 3, 2017·Cancer Discovery·UNKNOWN AACR Project GENIE Consortium

❮ Previous
Next ❯

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.

Related Papers

Multivariate Behavioral Research
Mark de Rooij, Martijn Schouteden
IEEE/ACM Transactions on Computational Biology and Bioinformatics
Aiying ZhangYu-Ping Wang
Conference Proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Sameer MishraMay D Wang
© 2021 Meta ULC. All rights reserved