A patient-gene model for temporal expression profiles in clinical studies.

A patient-gene model for temporal expression profiles in clinical studies. Research Abstract Details 

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A patient-gene model for temporal expression profiles in clinical studies. Abstract Text:

Naftali Kaminski,Ziv Bar-Joseph,

Pharmacogenomics and clinical studies that measure the temporal expression levels of patients can identify important pathways and biomarkers that are activated during disease progression or in response to treatment. However, researchers face a number of challenges when trying to combine expression profiles from these patients. Unlike studies that rely on lab animals or cell lines, individuals vary in their baseline expression and in their response rate. In this paper we present a generative model for such data. Our model represents patient expression data using two levels, a gene level, which corresponds to a common response pattern, and a patient level, which accounts for the patient specific expression patterns and response rate. Using an EM algorithm, we infer the parameters of the model. We used our algorithm to analyze multiple sclerosis patient response to interferon-beta. As we show, our algorithm was able to improve upon prior methods for combining patients data. In addition, our algorithm was able to correctly identify patient specific response patterns.

A patient-gene model for temporal expression profiles in clinical studies. Publishing Authors By Initials

N Kaminski,Z Bar-Joseph,

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A patient-gene model for temporal expression profiles in clinical studies. Journal Published:

PUBLICATION TYPE: Research Support, U.S. Gov't,

Journal: Journal of computational biology : a journal of co

VOLUME: 14

Page Numbers: 324-38

Journal Abbreviation: J. Comput. Biol.

ISSN: 1066-5277

DAY: 3

MONTH: Apr

YEAR: 2007

A patient-gene model for temporal expression profiles in clinical studies. Information

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LANGUAGE: eng

NlmUniqueID: 9433358

A patient-gene model for temporal expression profiles in clinical studies. Keywords Mesh Terms:

KEYWORDS: Yeasts

MESH TERMS: cytology

Chemical & Substance for Abstract: A patient-gene model for temporal expression profiles in clinical studies. Information

Substance Name: Interferon-beta

Registry Number: 77238-31-4

Grant and Affiliation Information for A patient-gene model for temporal expression profiles in clinical studies.

AFFILIATION: Simmons Center for Interstitial Lung Disease, University of Pittsburgh Medical School, Pittsburgh, Pennsylvania, USA.

Country: United States

AGENCY: United States NIAID

GRANT: N01 AI-S001

ACRONYM: AI

MEDLINETA: J Comput Biol

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