Jump to ContentJump to Main Navigation
Show Summary Details
More options …

Statistical Applications in Genetics and Molecular Biology

Editor-in-Chief: Sanguinetti, Guido


IMPACT FACTOR 2018: 0.536
5-year IMPACT FACTOR: 0.764

CiteScore 2018: 0.49

SCImago Journal Rank (SJR) 2018: 0.316
Source Normalized Impact per Paper (SNIP) 2018: 0.342

Mathematical Citation Quotient (MCQ) 2017: 0.04

Online
ISSN
1544-6115
See all formats and pricing
More options …
Volume 9, Issue 1

Issues

Volume 10 (2011)

Volume 9 (2010)

Volume 6 (2007)

Volume 5 (2006)

Volume 4 (2005)

Volume 2 (2003)

Volume 1 (2002)

A Random Coefficients Model for Regional Co-Expression Associated with DNA Copy Number

Wessel N van Wieringen / Johannes Berkhof / Mark A van de Wiel
Published Online: 2010-06-22 | DOI: https://doi.org/10.2202/1544-6115.1531

Regional co-expression refers to the phenomenon of contiguous genes exhibiting similar expression patterns. Among others, DNA copy number aberrations may be causally involved in regional co-expression. We propose a random coefficients model to explain regional co-expression from DNA copy number information, while modeling residual co-expression due to other causes by a correlated error structure. We show how the model parameters may be estimated (computationally efficient and consistently) from high-dimensional data, and suggest several robustifications of the estimation procedure. From the model we are able to assess whether there is a shared effect on expression levels due to the DNA copy number aberrations, but also whether this effect is homogeneous across genes. In two examples we use the proposed methodology to investigate the association between DNA copy number aberrations and regional co-expression.

Keywords: bootstrap; constrained estimation; data integration; gene expression; microarray; mRNA; quadratic programming; shrinkage

About the article

Published Online: 2010-06-22


Citation Information: Statistical Applications in Genetics and Molecular Biology, Volume 9, Issue 1, ISSN (Online) 1544-6115, DOI: https://doi.org/10.2202/1544-6115.1531.

Export Citation

©2011 Walter de Gruyter GmbH & Co. KG, Berlin/Boston.Get Permission

Citing Articles

Here you can find all Crossref-listed publications in which this article is cited. If you would like to receive automatic email messages as soon as this article is cited in other publications, simply activate the “Citation Alert” on the top of this page.

[1]
Wessel N. van Wieringen and Aad W. van der Vaart
Bioinformatics, 2011, Volume 27, Number 4, Page 556

Comments (0)

Please log in or register to comment.
Log in