A Three Stage Integrative Pathway Search (TIPS©) framework to identify toxicity relevant genes and pathways

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Methodology article

A Three Stage Integrative Pathway Search (TIPS^©) framework to identify toxicity relevant genes and pathways

Zheng Li¹^,4 , Shireesh Srivastava¹^,6 , Sheenu Mittal¹^,5 , Xuerui Yang¹ , Lufang Sheng¹ and Christina Chan¹^,2^,3

¹Department of Chemical Engineering and Materials Science, Michigan State University, East Lansing, MI 48824, USA

²Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824, USA

³Department of Computer Science and Engineering, Michigan State University, East Lansing, MI 48824, USA

⁴MetagenX LLC. Okemos, MI, 48864, USA

⁵Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824, USA

⁶National Institute on Alcohol Abuse and Alcoholism (NIAAA/NIH), 5625 Fishers Lane, Rockville, MD 20851, USA

author email corresponding author email

BMC Bioinformatics 2007, 8:202doi:10.1186/1471-2105-8-202


Published:	14 June 2007

Additional file 1:

ICA gene weights. Additional file 1 is a list of the gene weights determined by ICA.

Format: XLS Size: 150KB Download file

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Additional file 2:

Important gene list. Additional file 2 is a list of important genes determined manually with a literature review.

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Additional file 3:

Genes selected by ANOVA. Additional file 3 lists 830 genes selected by ANOVA analysis.

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Additional file 4:

Normality test. Additional file 4 presents the normality test of the gene data.

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Additional file 5:

Network learned by LibB. Additional file 5 presents the network learned by search and score method of LibB.

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