Measuring similarities between gene expression profiles through new data transformations

doi:10.1186/1471-2105-8-29

BMC Bioinformatics

Volume 8

Viewing options:

Abstract
Full text
PDF (1.2MB)
Additional files

Associated material:

Related literature:

Articles citing this article
on BioMed Central
on Google Scholar
on ISI Web of Science
on PubMed Central
Other articles by authors
on Google Scholar

Kim K
Zhang S
Jiang K
Cai L
Lee IB
Feldman LJ
Huang H

on PubMed

Kim K
Zhang S
Jiang K
Cai L
Lee IB
Feldman LJ
Huang H
Related articles/pages
on Google

on Google Scholar

on PubMed

Tools:

Post to:

Research article

Measuring similarities between gene expression profiles through new data transformations

Kyungpil Kim¹^,2 , Shibo Zhang³ , Keni Jiang³ , Li Cai⁴ , In-Beum Lee² , Lewis J Feldman³ and Haiyan Huang¹

¹Department of Statistics, University of California, Berkeley, USA

²Department of Chemical Engineering, Pohang University of Science and Technology (POSTECH), Korea

³Department of Plant and Microbial Biology, University of California, Berkeley, USA

⁴Department of Biomedical Engineering, Rutgers University, USA

author email corresponding author email

BMC Bioinformatics 2007, 8:29doi:10.1186/1471-2105-8-29


Published:	27 January 2007

Additional files

Additional File 1:

One set of orthonormal eigenvectors. This PDF file contains one set of orthonormal eigenvectors referred in the Method section.

Format: PDF Size: 41KB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional File 2:

Proof of the properties of the estimators under the restricted normal model. This PDF file shows that the _iin formula (2) is an unbiased estimator of θ_iand (t) in formula (2) is a consistent estimator of λ(t) under the proposed restricted normal model.

Format: PDF Size: 20KB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional File 3:

The performance of new measures in a hierarchical clustering algorithm. This PDF file presents the application results of the hierarchical clustering algorithms with different measures implemented.

Format: PDF Size: 160KB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional File 4:

The effects of the TransChisq data transformation in measuring pattern similarity. This PDF file presents a simple simulation study for the effects of the data transformation in TransChisq with a comparison to PoissonC.

Format: PDF Size: 61KB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional File 5:

The guideline on the various parameters in the simulation dataset in Table 2. This PDF file presents the motivation and guideline for choosing the various parameters in the simulation dataset in Table 2.

Format: PDF Size: 118KB Download file

This file can be viewed with: Adobe Acrobat Reader