Gene network reconstruction from transcriptional dynamics under kinetic model uncertainty: a case for the second derivative.

ABSTRACT:

Motivation

Measurements of gene expression over time enable the reconstruction of transcriptional networks. However, Bayesian networks and many other current reconstruction methods rely on assumptions that conflict with the differential equations that describe transcriptional kinetics. Practical approximations of kinetic models would enable inferring causal relationships between genes from expression data of microarray, tag-based and conventional platforms, but conclusions are sensitive to the assumptions made.

Results

The representation of a sufficiently large portion of genome enables computation of an upper bound on how much confidence one may place in influences between genes on the basis of expression data. Information about which genes encode transcription factors is n

SUBMITTER: Bickel DR 

PROVIDER: S-EPMC2654806 | biostudies-literature | 2009 Mar

REPOSITORIES: biostudies-literature