Regulatory Networks

Application of the Dynamic Regulatory Events Miner (DREM) to study amino acid starvation response in yeast.

Research

Our group develops computational methods for understanding the dynamics, interactions and conservation of complex biological systems. As new high-throughput biological data sources become available, they hold the promise of revolutionizing molecular biology by providing a large-scale view of cellular activity. However, each type of data is noisy, contains many missing values and only measures a single aspect of cellular activity. Our computational focus is on methods for large scale data integration. We primarily rely on machine learning and statistical methods. Most of our work is carried out in close collaboration with experimentalists. Many of the computational tools we develop are available and widely used.

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Latest Publications

  • S. Navlakha and Z. Bar-Joseph
    Distributed Information Processing in Biological and Computational Systems
    COMMUNICATIONS OF THE ACM (CACM), 58 (1), Pages 94-102, 2015
    Video interview with Saket for this paper
    * Cover page story of the CACM January 2015 issue
  • S. Navlakha, C. Faloutsos and Z. Bar-Joseph.
    MASSEXODUS: Modeling evolving networks in adversarial environments
    Data Mining and Knowledge Discovery (DAMI), to appear, 2015
  • A. Gitter and Z. Bar-Joseph
    The SDREM method for reconstructing signaling and regulatory response networks: Applications applications for studying disease progression
    Chpater in: The Systems Biology of Alzheimers disease, Humana / Springer press, to appear, 2015
Full list of publications

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