Recovering genetic regulatory networks from chromatin immunoprecipitation and steady-state microarray data

Erchin Serpedin, Wentao Zhao, Edward R. Dougherty

Research output: Contribution to journalArticle

11 Citations (Scopus)

Abstract

Recent advances in high-throughput DNA microarrays and chromatin immunoprecipitation (ChIP) assays have enabled the learning of the structure and functionality of genetic regulatory networks. In light of these heterogeneous data sets, this paper proposes a novel approach for reconstruction of genetic regulatory networks based on the posterior probabilities of gene regulations. Built within the framework of Bayesian statistics and computational Monte Carlo techniques, the proposed approach prevents the dichotomy of classifying gene interactions as either being connected or disconnected, thereby it reduces significantly the inference errors. Simulation results corroborate the superior performance of the proposed approach relative to the existing state-of-the-art algorithms. A genetic regulatory network for Saccharomyces cerevisiae is inferred based on the published real data sets, and biological meaningful results are discussed.

Original languageEnglish
Article number248747
JournalEurasip Journal on Bioinformatics and Systems Biology
Volume2008
DOIs
Publication statusPublished - 2008
Externally publishedYes

Fingerprint

Genetic Regulatory Networks
Chromatin Immunoprecipitation
Chromatin
Microarrays
Microarray Data
Gene expression
Yeast
Assays
DNA
Genes
Throughput
Statistics
Genetic Structures
Oligonucleotide Array Sequence Analysis
Bayesian Statistics
Saccharomyces cerevisiae
DNA Microarray
Gene Regulation
Monte Carlo Techniques
Computational Techniques

ASJC Scopus subject areas

  • Medicine(all)
  • Computer Science(all)
  • Signal Processing
  • Statistics and Probability
  • General

Cite this

Recovering genetic regulatory networks from chromatin immunoprecipitation and steady-state microarray data. / Serpedin, Erchin; Zhao, Wentao; Dougherty, Edward R.

In: Eurasip Journal on Bioinformatics and Systems Biology, Vol. 2008, 248747, 2008.

Research output: Contribution to journalArticle

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