Roger L. Chang

Graduate Student

I am a fifth year bioinformatics and systems biology PhD candidate in Bernhard Palsson's lab. I am a NSF Socrates fellow and NSF IGERT plant systems biology fellow. I am interested in applications of systems biology to address a diverse array of problems. My graduate work has primarily focused on two areas.

  1. Computational assessment of systemic drug response in humans and bacterial pathogens. I have developed a human tissue-specific metabolic model to study drug off-target effects with metabolic consequences. I am currently developing a framework for analyzing systemic effects of antibiotics in bacteria.

  2. Developing metabolic models of a photosynthetic system for industrial applications. I have completed a metabolic reconstruction for the green microalgae Chlamydomonas reinhardtii, which can be used for strain design to guide metabolic engineering efforts for improved biofuel and other commodity chemical production and to study metabolic properties of photon absorption.

Education

2007-present PhD (Bioinformatics and Systems Biology) University of California San Diego

2001-2005 BA (Molecular and Cell Biology) University of California Berkeley

Publications

Chang RL, Ghamsari L, Manichaikul A, Hom EF, Balaji S, Fu W, Shen Y, Hao T, Palsson BØ, Salehi-Ashtiani K, Papin JA. Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism. Mol Syst Biol. (2011).

Chang RL, Xie L, Xie L, Bourne PE, Palsson BØ. Drug off-target effects predicted using structural analysis in the context of a metabolic network model. PLoS Comput Biol. (2010).

Chang RL, Luo F, Johnson S, Scheuermann RH. Deterministic graph-theoretic algorithm for detecting modules in biological interaction networks. Int J Bioinform Res Appl. (2010).

Manichaikul A, Ghamsari L, Hom EF, Lin C, Murray RR, Chang RL, Balaji S, Hao T, Shen Y, Chavali AK, Thiele I, Yang X, Fan C, Mello E, Hill DE, Vidal M, Salehi-Ashtiani K, Papin JA. Metabolic network analysis integrated with transcript verification for sequenced genomes. Nature Methods. (2009).

Squires B, Macken C, Garcia-Sastre A, Godbole S, Noronha J, Hunt V, Chang R, Larsen CN, Klem E, Biersack K, Scheuermann RH. BioHealthBase: informatics support in the elucidation of influenza virus host pathogen interactions and virulence. Nucleic Acids Res. (2008).

Luo F, Yang Y, Chen CF, Chang R, Zhou J, Scheuermann RH. Modular organization of protein interaction networks. Bioinformatics. (2007).

Contact Information

Email Address: rlchang-AT-ucsd.edu

Mailing Address: 9500 Gilman Drive, Mail Code 0412, La Jolla, CA 92093-0412

Location

Location

417 Powell-Focht Bioengineering Hall

9500 Gilman Drive La Jolla, CA 92093-0412

Contact Us

Contact Us

In Silico Lab:  858-822-1144

Wet Lab:  858-822-0028

FAX:   858-822-3120

Website Concerns: sbrgit@ucsd.edu

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