Studying and modelling dynamic biological processes using time-series gene expression data

Ziv Bar-Joseph*, Anthony Gitter, Itamar Simon

*Corresponding author for this work

Research output: Contribution to journalReview articlepeer-review

338 Scopus citations

Abstract

Biological processes are often dynamic, thus researchers must monitor their activity at multiple time points. The most abundant source of information regarding such dynamic activity is time-series gene expression data. These data are used to identify the complete set of activated genes in a biological process, to infer their rates of change, their order and their causal effects and to model dynamic systems in the cell. In this Review we discuss the basic patterns that have been observed in time-series experiments, how these patterns are combined to form expression programs, and the computational analysis, visualization and integration of these data to infer models of dynamic biological systems.

Original languageAmerican English
Pages (from-to)552-564
Number of pages13
JournalNature Reviews Genetics
Volume13
Issue number8
DOIs
StatePublished - Aug 2012

Bibliographical note

Funding Information:
This work was supported in part by the US National Institutes of Health (NIH) grant 1RO1 GM085022 to Z.B.-J. Research in the laboratory of I.S. is supported by the Israel Science Foundation (grant 567/10), the German–Israeli Foundation (grant 998/2008), the Weinkselbaum family medical research fund and the European Research Council Starting Grant (281306).

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