Junhyong Kim

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Junhyong Kim is the Edmund J. and Louise W. Kahn Term Endowed Professor of Biology at the University of Pennsylvania and the author of over eighty published scientific papers.

Contents

Career

Kim specializes in computational biology, genomics, and evolutionary biology. Originally from South Korea, he received his undergraduate degree in Microbiology at Seoul National University. During his undergraduate years, he became strongly interested in computer science and programming. He developed a program to fold tRNA sequences published in the Korean Journal of Biochemistry. [1] This paper is now known as the first computational biology paper published in Korea. He received his PhD in Ecology and Evolution at Stony Brook University in 1992 under the supervision of Lev Ginzburg and Dan Dykhuizen. His dissertation was entitled "Factors influencing the growth of populations and their spatial distribution." His post-doctoral research was with Margaret Kidwell at the University of Arizona working on molecular evolution of Drosophila species. In 1994, he became an assistant professor in the Department of Biology at Yale University and was promoted to a tenured position in 2000. In 2002 he moved to the University of Pennsylvania where he is currently the Edmund J. and Louise Kahn Term Endowed Professor in Biology, an Adjunct Professor of Computer Science, and the Co-Director of the Penn Genome Frontiers Institute. He has been on the Steering Committee and the Conference Chair for Workshop on Algorithms in Bioinformatics; program chair and program committee for Intelligent Systems for Molecular Biology; and he is the longest running Associate Editor for IEEE/ACM Transactions on Computational Biology and Bioinformatics. Junhyong Kim's honors include the Sloan Foundation Young Investigator Award, Yale Faculty Award, Visiting Fellow at the Newton Institute (Cambridge University) and IHES (France), Ellison Medical Foundation Senior Scholar in Aging, [2] and a Guggenheim Fellowship. [3]

Kim has worked on a diverse set of research areas. His early works concentrated on mathematical phylogenetics, which started during his graduate school with Drs. Robert R. Sokal and F. James Rohlf who pioneered computational methods in evolutionary tree estimation. Among his works in this area, Junhyong Kim introduced the use of algebraic geometric techniques in phylogenetic estimation. [4] In 1999, working with John Carlson at Yale, he developed a novel algorithm for computationally identifying G Protein-Coupled Receptors (GPCR) without using primary sequence homology, which led to the cloning of olfactory receptors in insects. [5] After his move to Penn, his research has concentrated on comparative functional genomics, especially gene expression and RNA biology in two model systems. In one area, he is working with budding yeast to understand the mechanisms and evolution of timing control for gene expression. [6] [7] In the other area, he is working with James Eberwine to understand the RNA biology of mammalian neurons and the evolution of individual cell characteristics. With Dr. Eberwine he helped develop a novel method for using direct RNA transfer to reprogram mammalian cells and helped decipher the mechanisms of RNA localization in neurons. [8] [9] More recently, the Kim and Eberwine labs have been working together to understand transcriptome variability in single cells and how the variation relates to dysfunction of cells. Drs. Kim and Eberwine are currently directing a new 5-year project with a grant from the National Institutes of Health. [10] [11]

Related Research Articles

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<span class="mw-page-title-main">Olfactory receptor neuron</span> Transduction nerve cell within the olfactory system

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28S ribosomal RNA is the structural ribosomal RNA (rRNA) for the large subunit (LSU) of eukaryotic cytoplasmic ribosomes, and thus one of the basic components of all eukaryotic cells. It has a size of 25S in plants and 28S in mammals, hence the alias of 25S–28S rRNA.

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Edward Marcotte is a professor of biochemistry at The University of Texas at Austin, working in genetics, proteomics, and bioinformatics. Marcotte is an example of a computational biologist who also relies on experiments to validate bioinformatics-based predictions.

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<span class="mw-page-title-main">John J. Tyson</span> American mathematical biologist

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Transcriptomics technologies are the techniques used to study an organism's transcriptome, the sum of all of its RNA transcripts. The information content of an organism is recorded in the DNA of its genome and expressed through transcription. Here, mRNA serves as a transient intermediary molecule in the information network, whilst non-coding RNAs perform additional diverse functions. A transcriptome captures a snapshot in time of the total transcripts present in a cell. Transcriptomics technologies provide a broad account of which cellular processes are active and which are dormant. A major challenge in molecular biology is to understand how a single genome gives rise to a variety of cells. Another is how gene expression is regulated.

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References

  1. ↑ Lee, S.T.; Kim, J.; Kang, H.S. (1984). "A computer program for searching for tRNA gene from base sequences of DNA". Korean Biochemical Journal. 17: 275–287.
  2. ↑ "2010 Senior Scholar in Aging Award". www.ellisonfoundation.org.
  3. ↑ "Junhyong Kim". John Simon Guggenheim Memorial Foundation. Archived from the original on 5 May 2013. Retrieved 8 April 2013.
  4. ↑ Kim, J (2000). "Slicing hyperdimensional oranges: The geometry of phylogenetic estimation". Mol. Phylogenet. Evol. 17 (1): 58–75. CiteSeerX   10.1.1.118.7544 . doi:10.1006/mpev.2000.0816. PMID   11020305.
  5. ↑ Clyne, Peter J.; Warr, Coral G.; Freeman, Marc R.; Lessing, Derek; Kim, Junhyong; Carlson, John R. (1999). "A Novel Family of Divergent Seven-Transmembrane Proteins: Candidate Odorant Receptors in Drosophila". Neuron. 22 (2): 327–338. doi: 10.1016/S0896-6273(00)81093-4 . PMID   10069338. S2CID   8924711.
  6. ↑ Simola, DF; Francis, C; Sniegowski, PD; Kim, J (2010). "Heterochronic evolution reveals modular timing changes in budding yeast transcriptomes". Genome Biology. 11 (10): R105. doi: 10.1186/gb-2010-11-10-r105 . PMC   3218661 . PMID   20969771.
  7. ↑ Daugharty, E.; Goodman, A.; Kim, J. (2012). "Pervasive antisense transcription is conserved in budding yeast". Mol. Biol. Evol. 30 (2): 409–421. doi: 10.1093/molbev/mss240 . PMID   23079418.
  8. ↑ Sul, J.-Y.; Wu, C.K.; Zeng, F.; Jochems, J.; Lee, M.T.; Kim, T.K; Peritz, T.; Buckley, P.; Cappelleri, D.J.; Maronski, M.; Kim, M.; Kumar, V.; Meaney, D.; Kim, J.; Eberwine, J. (2009). "Transcripome transfer produces a predictable cellular phenotype". PNAS USA. 106 (18): 7624–7629. Bibcode:2009PNAS..106.7624S. doi: 10.1073/pnas.0902161106 . PMC   2670883 . PMID   19380745.
  9. ↑ Kim, Junhyong; Eberwine, James (2010). "RNA as the state memory of cellular phenotype". Trends in Cell Biology. 20 (6): 311–318. doi:10.1016/j.tcb.2010.03.003. PMC   2892202 . PMID   20382532.
  10. ↑ "NIH Awards Penn Scientists $10 million Over Five Years for Innovative Research on Single Cells". University of Pennsylvania School of Medicine. November 13, 2012. Retrieved March 15, 2013.
  11. ↑ "Role of Single Cell MRNA Variation in Systems Associated with Electrically Excitable Cells". National Institutes of Health. Retrieved March 15, 2013.
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