Stuart Kim

Dr. Kim's lab's research focuses are in C. elegans aging, human aging, cell lineage analyzer, and ModENCODE.

Students, fellows, and faculty in the Department of Developmental Biology are working at the forefront of basic science research to understand the molecular mechanisms that generate and maintain diverse cell types in many different contexts, including the embryo, various adult organs, and the evolution of different species. Research groups use a wide array of cutting-edge approaches including genetics, genomics, computation, biochemistry, and advanced imaging, in organisms ranging from microbes to humans. This work has connections to many areas of human health and disease, including stem cell biology, aging, cancer, diabetes, arthritis, infectious disease, autoimmune disease, neurological disorders, and novel strategies for stimulating repair or regeneration of body tissues.

Graduate and Fellowship Programs

• Cancer Biology (Phd Program)
• Chemical and Systems Biology (Phd Program)
• Developmental Biology (Phd Program)

Publications

Roles of the developmental regulator unc-62/Homothorax in limiting longevity in Caenorhabditis elegans. PLoS genetics Van Nostrand, E. L., Sánchez-Blanco, A., Wu, B., Nguyen, A., Kim, S. K. 2013; 9 (2)

An Engineering Approach to Extending Lifespan in C. elegans PLOS GENETICS Sagi, D., Kim, S. K. 2012; 8 (6)

Variable Pathogenicity Determines Individual Lifespan in Caenorhabditis elegans PLOS GENETICS Sanchez-Blanco, A., Kim, S. K. 2011; 7 (4)

An elt-3/elt-5/elt-6 GATA transcription circuit guides aging in C-elegans CELL Budovskaya, Y. V., Wu, K., Southworth, L. K., Jiang, M., Tedesco, P., Johnson, T. E., Kim, S. K. 2008; 134 (2): 291-303

AGEMAP: A gene expression database for aging in mice PLOS GENETICS Zahn, J. M., Poosala, S., Owen, A. B., Ingram, D. K., Lustig, A., Carter, A., Weeraratna, A. T., Taub, D. D., Gorospe, M., Mazan-Mamczarz, K., Lakatta, E. G., Boheler, K. R., Xu, X., Mattson, M. P., Falco, G., Ko, M. S., Schlessinger, D., Firman, J., Kummerfeld, S. K., Ill, W. H., Zonderman, A. B., Kim, S. K., Becker, K. G.All Authors 2007; 3 (11): 2326-2337

Transcriptional profiling of aging in human muscle reveals a common aging signature PLOS GENETICS Zahn, J. M., Sonu, R., Vogel, H., Crane, E., Mazan-Mamczarz, K., Rabkin, R., Davis, R. W., Becker, K. G., Owen, A. B., Kim, S. K. 2006; 2 (7): 1058-1069

A transcriptional profile of aging in the human kidney PLOS BIOLOGY Rodwell, G. E., Sonu, R., Zahn, J. M., Lund, J., Wilhelmy, J., Wang, L. L., Xiao, W. Z., Mindrinos, M., Crane, E., Segal, E., Myers, B. D., Brooks, J. D., Davis, R. W., Higgins, J., Owen, A. B., Kim, S. K. 2004; 2 (12): 2191-2201

A gene-coexpression network for global discovery of conserved genetic modules SCIENCE Stuart, J. M., Segal, E., Koller, D., Kim, S. K. 2003; 302 (5643): 249-255

Chromosomal clustering of muscle-expressed genes in Caenorhabditis elegans NATURE Roy, P. J., Stuart, J. M., Lund, J., Kim, S. K. 2002; 418 (6901): 975-979

A gene expression map for Caenorhabditis elegans SCIENCE Kim, S. K., Lund, J., Kiraly, M., Duke, K., Jiang, M., Stuart, J. M., Eizinger, A., Wylie, B. N., Davidson, G. S. 2001; 293 (5537): 2087-2092

Reproductive Aging Drives Protein Accumulation in the Uterus and Limits Lifespan in C. elegans PLOS GENETICS Zimmerman, S. M., Hinkson, I. V., Elias, J. E., Kim, S. K. 2015; 11 (12)

Genome-Wide Scan Informed by Age-Related Disease Identifies Loci for Exceptional Human Longevity PLOS GENETICS Fortney, K., Dobriban, E., Garagnani, P., Pirazzini, C., Monti, D., Mari, D., Atzmon, G., Barzilai, N., Franceschi, C., Owen, A. B., Kim, S. K. 2015; 11 (12)

Optimal multiple testing under a Gaussian prior on the effect sizes BIOMETRIKA Dobriban, E., Fortney, K., Kim, S. K., Owen, A. B. 2015; 102 (4): 753-766

Applying Personal Genetic Data to Injury Risk Assessment in Athletes PLOS ONE Goodlin, G. T., Roos, A. K., Roos, T. R., Hawkins, C., Beache, S., Baur, S., Kim, S. K. 2015; 10 (4)

Reconciliation of daf-2 suppression by elt-3 in Caenorhabditis elegans from Tonsaker et al. (2012) and Kim et al. (2012). Mechanisms of ageing and development Kim, S. K., Budovskaya, Y. V., Johnson, T. E. 2013; 134 (1-2): 64-65

The GATA Transcription Factor egl-27 Delays Aging by Promoting Stress Resistance in Caenorhabditis elegans PLOS GENETICS Xu, X., Kim, S. K. 2012; 8 (12)

Interpretome: a freely available, modular, and secure personal genome interpretation engine. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing Karczewski, K. J., Tirrell, R. P., Cordero, P., Tatonetti, N. P., Dudley, J. T., Salari, K., Snyder, M., Altman, R. B., Kim, S. K. 2012: 339-350

Response to Tonsaker et al. Mechanisms of ageing and development Kim, S. K., Budovskaya, Y. V., Johnson, T. E. 2012; 133 (1): 54-56

Seeing elegance in gene regulatory networks of the worm CURRENT OPINION IN GENETICS & DEVELOPMENT Van Nostrand, E. L., Kim, S. K. 2011; 21 (6): 776-786

The early bird catches the worm: new technologies for the Caenorhabditis elegans toolkit NATURE REVIEWS GENETICS Xu, X., Kim, S. K. 2011; 12 (11): 793-801