Understanding physiology in the continuum: Integration of information from multiple -omics levels

Kubra Kamisoglu; Alison Acevedo; Richard R. Almon; Susette Coyle; Siobhan Corbett; Debra C. Dubois; Tung T. Nguyen; William J. Jusko; Ioannis P. Androulakis

doi:10.3389/fphar.2017.00091

Understanding physiology in the continuum: Integration of information from multiple -omics levels

Kubra Kamisoglu, Alison Acevedo, Richard R. Almon, Susette Coyle, Siobhan Corbett, Debra C. Dubois, Tung T. Nguyen, William J. Jusko, Ioannis P. Androulakis

Rutgers, The State University

Research output: Contribution to journal › Article › peer-review

8 Scopus citations

Abstract

In this paper, we discuss approaches for integrating biological information reflecting diverse physiologic levels. In particular, we explore statistical and model-based methods for integrating transcriptomic, proteomic and metabolomics data. Our case studies reflect responses to a systemic inflammatory stimulus and in response to an anti-inflammatory treatment. Our paper serves partly as a review of existing methods and partly as a means to demonstrate, using case studies related to human endotoxemia and response to methylprednisolone (MPL) treatment, how specific questions may require specific methods, thus emphasizing the non-uniqueness of the approaches. Finally, we explore novel ways for integrating -omics information with PKPD models, toward the development of more integrated pharmacology models.

Original language	American English
Article number	91
Journal	Frontiers in Pharmacology
Volume	8
Issue number	FEB
DOIs	https://doi.org/10.3389/fphar.2017.00091
State	Published - Feb 27 2017

ASJC Scopus subject areas

Pharmacology
Pharmacology (medical)

Keywords

Glucocorticoids
Inflammation
LPS
Metabolomics
Pharmacogenomics
Proteomics
Transcriptomics

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10.3389/fphar.2017.00091

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title = "Understanding physiology in the continuum: Integration of information from multiple -omics levels",

abstract = "In this paper, we discuss approaches for integrating biological information reflecting diverse physiologic levels. In particular, we explore statistical and model-based methods for integrating transcriptomic, proteomic and metabolomics data. Our case studies reflect responses to a systemic inflammatory stimulus and in response to an anti-inflammatory treatment. Our paper serves partly as a review of existing methods and partly as a means to demonstrate, using case studies related to human endotoxemia and response to methylprednisolone (MPL) treatment, how specific questions may require specific methods, thus emphasizing the non-uniqueness of the approaches. Finally, we explore novel ways for integrating -omics information with PKPD models, toward the development of more integrated pharmacology models.",

keywords = "Glucocorticoids, Inflammation, LPS, Metabolomics, Pharmacogenomics, Proteomics, Transcriptomics",

author = "Kubra Kamisoglu and Alison Acevedo and Almon, {Richard R.} and Susette Coyle and Siobhan Corbett and Dubois, {Debra C.} and Nguyen, {Tung T.} and Jusko, {William J.} and Androulakis, {Ioannis P.}",

note = "Publisher Copyright: {\textcopyright} 2017 Kamisoglu, Acevedo, Almon, Coyle, Corbett, Dubois, Nguyen, Jusko and Androulakis.",

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doi = "10.3389/fphar.2017.00091",

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AU - Kamisoglu, Kubra

AU - Acevedo, Alison

AU - Almon, Richard R.

AU - Coyle, Susette

AU - Corbett, Siobhan

AU - Dubois, Debra C.

AU - Nguyen, Tung T.

AU - Jusko, William J.

AU - Androulakis, Ioannis P.

PY - 2017/2/27

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AB - In this paper, we discuss approaches for integrating biological information reflecting diverse physiologic levels. In particular, we explore statistical and model-based methods for integrating transcriptomic, proteomic and metabolomics data. Our case studies reflect responses to a systemic inflammatory stimulus and in response to an anti-inflammatory treatment. Our paper serves partly as a review of existing methods and partly as a means to demonstrate, using case studies related to human endotoxemia and response to methylprednisolone (MPL) treatment, how specific questions may require specific methods, thus emphasizing the non-uniqueness of the approaches. Finally, we explore novel ways for integrating -omics information with PKPD models, toward the development of more integrated pharmacology models.

KW - Glucocorticoids

KW - Inflammation

KW - LPS

KW - Metabolomics

KW - Pharmacogenomics

KW - Proteomics

KW - Transcriptomics

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Understanding physiology in the continuum: Integration of information from multiple -omics levels

Abstract

ASJC Scopus subject areas

Keywords

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