Medical College of Wisconsin
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CURRICULUM VITAE

Young-In Chi PhD
Assistant Professor
Department of Surgery
Division of Administration

OFFICE ADDRESS:
Medical Education Building
8701 Watertown Plank Rd
Milwaukee, WI 53226

EDUCATION:
08/30/1984 - 05/08/1988 BA, Central Methodist College, Fayette, MO
08/25/1988 - 12/17/1994 PhD, Purdue University, West Lafayette, IN

POSTGRADUATE TRAINING AND FELLOWSHIP APPOINTMENTS:
10/01/1994 - 01/31/1998 Postdoctoral Fellow, Department of Chemistry, University of California, Berkeley, CA 94720
02/01/1998 - 08/30/2003 Research Fellow, Joslin Diabetes Center, Harvard Medical School, Boston, MA 02215

MILITARY SERVICE:
09/1980 - 12/1983 Republic of Korea Army

FACULTY APPOINTMENTS:
09/2003 - 08/2011 Assistant Professor, Department of Molecular and Cellular Biochemistry, University of Kentucky School of Medicine, Lexington, KY
09/2011 - 06/2017 Assistant Professor, Hormel Institute, University of Minnesota, Austin, MN
07/2017 - 12/2018 Research Professor, Department of Internal Medicine, Kyungpook National University School of Medicine, Deagu, Republic of Korea
02/2018 - Present Assistant Professor, Department of Surgery, Division of Research, The Medical College of Wisconsin, Milwaukee, WI

CENTER/INSTITUTE AFFILIATIONS:
02/11/2019 - Present Member, The Mellowes Center for Genomic Sciences and Precision Medicine, Medical College of Wisconsin, Milwaukee, WI

EDUCATIONAL ADMINISTRATIVE APPOINTMENTS:
N/A

HOSPITAL AND CLINICAL ADMINISTRATIVE APPOINTMENTS:
N/A

RESEARCH ADMINISTRATIVE APPOINTMENTS:
01/01/2007 - 05/31/2011 SER-CAT alternative board member and institution representative, Advanced Photon Source, Argonne National Lab.

HOSPITAL STAFF PRIVILEGES:
N/A

AWARDS AND HONORS:
09/1985 - 05/1986 Bernice Fuller Connell Scholarship
09/1986 - 05/1988 Kappa Mu Epsilon Honorary Mathematics Society
05/1988 William L. Spencer Award
05/1988 Sigma Epsilon Pi Academic Award
05/1988 Magna cum laude graduate, Central Methodist College
09/1990 - 12/1994 David Ross Research Fellowship
01/1999 - 12/2000 Juvenile Diabetes Research Foundation Postdoc Fellowship
01/2001 - 08/2003 Mary K. Iacocca Fellowship
07/2001 American Diabetes Association Annual Meeting Travel Grant Award
09/2004 - 08/2011 Charles T. Wethington Research Award
07/2008 - 06/2013 American Diabetes Association Career Development Award

MEMBERSHIPS IN HONORARY AND PROFESSIONAL SOCIETIES:
American Society of Human Genetics
American Crystallographic Association
Korean-American Scientists and Engineers Association
Biophysical Society
American Diabetes Association
Protein Society

EDITORSHIPS/EDITORIAL BOARDS/JOURNAL REVIEWS:
Ad-Hoc Reviewer
Biophysical Chemistry
Proceedings of the National Academy of Sciences
Acta Crystallographica section D
Diabetes
Journal of Endocrinology and Diabetes
Journal of Immune Research
Nature Structural and Molecular Biology
Oncotarget
Cell Reports
Journal of Drug Design and Research
Nucleic Acid Research
Computers in Biology and Medicine
Acta Crystallographica section F
European Journal of Medical Genetics
Journal of Biological Chemistry
Journal of Cellular and Molecular Medicine
Journal of Molecular Biology
RNA
Scientific Reports (Nature Publishing Group)
Biochemistry
Genes and Development
Nature Genetics
Journal of Diabetes Research

LOCAL/REGIONAL APPOINTED LEADERSHIP AND COMMITTEE POSITIONS:
05/2006 Outside Examiner for Tao Liu's Final Examination Committee (College of Pharmacy, Univ. of Kentucky)
06/2006 - 05/2008 Thesis Committee for Brandon Adkins (Department of Molecular and
08/2006 - 08/2009 University of Kentucky Radiation Safety Committee
02/2007 Outside Examiner for Paul Kiptoo's Final Examination Committee (College of Pharmacy, Univ. of Kentucky)
03/2011 Outside Examiner for Lorenzo Federico's Final Examination Committee (College of Pharmacy, Univ. of Kentucky)
09/2015 Outside Examiner for Carlos Ramirez-Mondragon's Preliminary Written Examination (BICB, Univ. of Minnesota)

RESEARCH GRANTS/AWARDS/CONTRACTS/PROJECTS:
Active
Peer Review
Title:
Insights into EHMT1 variants in the neurodevelopmental disorder Kleefstra syndrome through structural dynamics and functional analysis
Source:
NIH/NICHD (R21HD116120)
Role & Effort:
M-PI
Dates:
07/01/2024 - 06/30/2026
Direct Funds:
$275,000
  
Prior
Peer Review
Title:
Mechanism of Transcriptional Control by Two Diabetes Gene Products (Center of Biomedical Research Excellence in the Molecular Basis of Human Diseases)
Source:
NIH/NCRR (P20-RR020171-01)
Role & Effort:
Lou B. Hersh)
Dates:
07/01/2004 - 06/30/2008
Direct Funds:
$771,606
  
Title:
Beta-cell Master Regulator
Source:
Juvenile Diabetes Research Foundation (JDRF) Regular Research Grant (1-2004-506)
Role & Effort:
Principal Investigator
Dates:
09/01/2004 - 08/31/2007
Direct Funds:
$479,026
  
Title:
Structural and functional studies of HNF1alpha and HNF4alpha
Source:
American Diabetes Association (ADA) Career Development Award (7-08-CD-03)
Role & Effort:
Principal Investigator
Dates:
07/01/2008 - 12/31/2013
Direct Funds:
$800,000
  
Title:
Identification of HNF1alpha and HNF4alpha-mediated regulators of insulin secretion in beta-cells
Source:
Kentucky Diabetes Research Board (KDRB) Pilot Project (KDR-PP09-09)
Role & Effort:
Principal Investigator
Dates:
07/01/2008 - 06/30/2010
Direct Funds:
$50,000
  
Title:
Inhibition of ATGL-mediated lipolysis by G0S2
Source:
NIH/NIDDK (1R01DK089178-01)
Role & Effort:
Co-PI
Dates:
07/01/2010 - 06/30/2012
Direct Funds:
$1,250,000 (total for all 5 years for PI, Jun Liu)
  
Title:
Molecular basis of auto-repression and its defect caused by diabetes mutations in HNF4alpha
Source:
Grant-in-Aid Bridge Fund, University of Minnesota
Role & Effort:
Principal Investigator
Dates:
09/01/2014 - 06/30/2015
Direct Funds:
$28,904
  
Title:
Determine the functional role of Dub3 in breast cancer progression and metastasis
Source:
NIH/NCI (R01CA188118)
Role & Effort:
Co-PI
Dates:
04/01/2015 - 03/31/2017
Direct Funds:
$1,250,000 (total for all 5 years for PI, Binhua Zhou)
  
Title:
Structural characterization of Dub3/ubiquitin interactions for targeted therapies against basal-like breast cancers
Source:
Paint the town pink (PTTP) research fund
Role & Effort:
Principal Investigator
Dates:
12/01/2015 - 11/30/2017
Direct Funds:
$50,000
  
Title:
Structure-guided optimization of diabetes therapeutic compounds
Source:
Brain Pool, National Research Foundation of Korea
Role & Effort:
Invited Scientist
Dates:
01/01/2018 - 12/31/2018
Direct Funds:
$68,000
  
Title:
Molecular targeting of HNF4alpha repressive states
Source:
American Diabetes Association (ADA) Innovative Basic Science Award (1-18-IBS-291) (relinquished)
Role & Effort:
Principal Investigator
Dates:
07/01/2018 - 06/30/2021
Direct Funds:
$345,000
  
Non-Peer Review
Title:
Major Equipment Grant for the Isothermal Titration Calorimetry (VP-ITC)
Source:
University of Kentucky
Role & Effort:
Principal Investigator
Dates:
09/01/2005
Direct Funds:
$100,000
  

INVITED LECTURES/WORKSHOPS/PRESENTATIONS:
International
Department of Molecular Cell Biology Seminar, Sungkyunkwan University School of Medicine, Suwon, Korea, 07/31/2007
XXI Congress and General Assembly of the International Union of Crystallography (IUCr), Osaka, Japan, 08/30/2008
Department of Life Sciences Seminar, Sogang University, Seoul, Korea, 05/19/2011
School of Life Sciences and Biotechnology Seminar, Korea University, Seoul, Korea, 05/20/2011
Department of Molecular Cell Biology Seminar, Sungkyunkwan University School of Medicine, Suwon, Korea, 05/24/2011
Department of Molecular Biology Seminar, Pusan National University, Pusan, Korea, 09/15/2017
 
National
Dept. of Microbiology, Molecular Biology, and Biochemistry Seminar, University of Idaho, 01/14/2002
Department of Molecular and Cell Biology Seminar, University of Connecticut, 02/04/2002
Department of Cell Biology Seminar, Harvard Medical School, Boston, MA, 10/04/2002
Structural Biology Seminar, Purdue University, 01/21/2004
Structural Biology Seminar, Berkeley Structural Genomics Center, CA, USA, 10/14/2005
Graduate Center for Toxicology Seminar Series, University of Kentucky, 02/03/2006
Graduate Center for Nutritional Sciences Seminar Series, University of Kentucky, 10/31/2007
Meeting of the American Crystallographic Association (ACA), Knoxville, TN, USA, 06/01/2008
Department of Molecular Therapeutics, Scripps Florida, Jupiter, FL, 09/13/2010
Nanobiomedical Center Seminar, University of Cincinnati College of Medicine, 02/21/2011
International Conference of RNA Nanotechnology and Therapeutics, University of Kentucky, 04/13/2013
 
Regional
Epigenetic and Chromatin Dynamics Lab, Mayo Clinic, Rochester, Minnesota, 12/14/2011
Biomedical Informatics and Computational Biology (BICB) program, University of Minnesota, 09/13/2012
Hormel Institute Research Seminar, University of Minnesota, 10/22/2015
 
Local
GSPMC Faculty Seminar, Medical College of Wisconsin, 05/12/2021
GSPMC Faculty Seminar, Medical College of Wisconsin, 10/12/2022
Mellowes Center Faculty Seminar, Medical College of Wisconsin, 12/01/2023
 

EXTRAMURAL TEACHING:
Graduate Student Education
Fall, 2013 Computation and Biology (BICB 8510, Univ. of Minnesota)
Fall, 2005 - spring, 2011 Fundamentals of Biochemistry (BCH401G, Univ. of Kentucky)
Fall, 2007 - spring, 2008 Seminar in Biochemistry (BCH 618/619, Univ. of Kentucky)
Fall, 2004 - spring, 2008 Biochemistry and Cell Biology of Nucleic Acids (BCH 611, Univ. of Kentucky)
Fall, 2005 - spring, 2011 Structural Biology (BCH604, Univ. of Kentucky)
 

EXTRAMURAL STUDENTS, FACULTY, RESIDENTS, AND CLINICAL/RESEARCH FELLOWS MENTORED:
Undergraduate Students
Bartley Morris; undergraduate (January 2005 - December 2005)
Scott E. Collier; undergraduate (NSF-REU program; summer 2007)
Eric Gilland; undergraduate (Chellgren Fellow; May, 2011), 2009 - August
Tim Horn; undergraduate (SURE program; summer 2012)
 
Graduate Students
PhD Students Advised
2006 - 2008 Brandon C. Adkins; graduate student, University of Kentucky
2013 - 2014 Josh Lim; BICB graduate student, University of Minnesota
PhD Committees
2006 - 2008 Brandon C. Adkins; PhD candidate, University of Kentucky
 
Postdoctoral Researchers
Yun Li, Ph.D.; postdoc (June 2004 - December 2005)
Jianguo Liu, Ph.D.; postdoc (August 2004 - February 2006)
Peng Lu, Ph.D.; postdoc (January 2005 - February 2008)
Guangteng Wu, Ph.D.; postdoc/research associate (January 2006 - December 2011)
Gabriel J. Popa, Ph.D; postdoc (July 2008 - June 2009)
Eun Hee Han, Ph.D.; postdoc (September 2011 - August 2013)
Puja Singh, Ph.D.; postdoc (May 2012 - June 2017)
 
Clinical/Research Fellows
Eunkyung Yoo, MS; research assistant (July 2017 - December 2018)
Jinhak Jeong, BS; lab technician (July 2017 – December 2018)
James Endrizzi, PhD; research associate (March 2012 - August 2012)
Geun Bae Rha, MS; research associate (July 2007 - March 2010)
Seungmi Lee, BS; lab technician (July 2017 – December 2018)
Amy Gorman, MS; research associate (February 2004 - January 2007)
 
Faculty
Shu-Ping Tung, MD/PhD; visiting Scholar (January 2014 - December 2014)
 

PROGRAMMATIC DEVELOPMENTS:
 
Research Programs
3D Genomics
Mellowes Center Molecular Modeling Group
 
 
 

COMMUNITY SERVICE ACTIVITIES:
04/01/2008 - 03/31/2016 Grant review: American Association Peer Review Committees (the Region 1 Basic Cell Biol. 1 review group)
 


BIBLIOGRAPHY
Refereed Journal Publications/Original Papers
1. Bohach, G.A., Chi, Y.-I. and Stauffacher, C.V. (1992) Crystallization and preliminary X-ray analysis of staphylococcal enterotoxin type C. Proteins 13:152-7.
2. Hovde, C.J., Marr, J.C., Hoffmann, M.L., Hackett, S.P., Chi, Y.-I., Crum, K.K., Stevens, D.L., Stauffacher, C.V. and Bohach, G.A. (1994) Investigation of the role of the disulfide bond in activity and structure of staphylococcal enterotoxin C1. Mol. Micro. 13:897-909.
3. Hoffmann, M.L., Jablonski, L.M., Crum, K.K., Chi, Y.-I., Stauffacher, C.V., Hackett, S.P., Stevens, D.L. and Bohach, G.A. (1994) Predictions of T-cell receptor and major histocompatibility complex binding sites on staphylococcal enterotoxin C1. Infect. Immun. 62:3396-407.
4. Jardetzky, T.S., Brown, J. H., Gorga, J.C., Stern, L.J., Urban, R.G., Chi, Y.-I., Stauffacher, C.V., Strominger, J.L. and Wiley, D.C. (1994) Three-dimensional structure of a human class II histocompatibility molecule complexed with superantigen. Nature 368:711-8.
5. Schlievert, P. M., Bohach, G. A., Olendorf, D. H., Stauffacher, C. V., Leung, D. Y. M., Murray, D. L., Prasad, S. P., Earhart, C. A., Jablonski, L. M., Hoffmann, M. L. and Chi, Y.-I. (1995) Molecular structure of staphylococcus and stteptococcus superantigens. J. Clinical Immun. 15:S4-10.
6. Lawrence, C.M., Chi, Y.-I., Rodwell, V.W. and Stauffacher, C.V. (1995) Crystallization of 3-hydroxy-3-methylglutaryl coenzyme A reductase from Pseudomonas mevalonii. Acta Crystallographica D51:386-9.
7. Bohach, G. A., Stauffacher, C. V., Ohlendorf, D. H., Chi, Y.-I., Vath, G. M. and Schlievert, P. M. (1996) The staphylococcal and streptococcal pyrogenic toxin family. Adv. Exp. Med. Biol. 391:131-54.
8. Chi, Y.-I., Yokota, H. and Kim, S.-H. (1997) Apo structure of the Asp receptor ligand-binding domain from Escherichia coli and its structural comparison with ligand or pseudoligand-bound forms. FEBS Letters 414:327-32.
9. Zhang, Z., Huang, L.-S., Schulmeister, V. M., Chi, Y.-I., Kim, K.-K., Hung, L.-W., Crofts, A. R., Berry, E. A. and Kim, S.-H. (1998) Electron transfer by domain movement in cytochrome bc1. Nature 392:677-84.
10. Jang, S.-B., Hung, L. W., Chi, Y.-I., Holbrook, E. L., Carter, R. J. and Holbrook, S. R. (1998) Structure of an RNA internal loop consisting of tandem C-A base pairs. Biochemistry 37:11726-31.
11. Chi, Y.-I., Martinez-Cruz, L. A., Jancarik, J., Swanson, R. V., Robertson, D. E. and Kim, S.-H. (1999) Crystal structure of the beta-glycosidase from the hyperthermophilic archeon Thermosphaera aggregans: insights into its activity and thermostability. FEBS Letters 445:375-83.
12. Chi, Y.-I., Huang, L.-S., Zhang, Z., Fernandez-Velasco, J. G., Markin, R. and Berry, E. A. (2000) High resolution structure of a soluble domain of cytochrome f from Chlamydononas reinhardtii. Biochemistry 39:7689-701.
13. Dhe-Paganon, S., Shigeta, R., Chi, Y.-I., Ristow, M. and Shoelson, S. E. (2000) Crystal structure of human frataxin. J. Biol. Chem. 275:30753-6.
14. Dhe-Paganon, S., Werner, E. D., Chi, Y.-I. and Shoelson, S. E. (2002) Structure of the globular tail of nuclear lamin. J. Biol. Chem. 277:17381-4.
15. Chi, Y.-I., Sadler, I., Jablonski, L. M., Callatine, S. D., Deobald, C. F., Stauffacher, C. V. and Bohach, G.A. (2002) Zinc-mediated dimerization and its effect on activity and stability of staphylococcal enterotoxin type C. J. Biol. Chem. 277:22839-46.
16. Dhe-Paganon, S., Duda, K., Iwamoto, M., Chi, Y.-I. and Shoelson, S. E. (2002) Crystal structure of HNF4alpha ligand binding domain in complex with endogenous fatty acid ligand. J. Biol. Chem. 277:37973-6.
17. Chi, Y.-I., Frantz, J. D., Oh, B.-C., Hansen, L. and Shoelson, S. E. (2002) Diabetes mutations delineate an atypical POU domain in HNF1alpha. Molecular Cell 10: 1129-37.
18. Kim, K.-A., Kang, K., Chi, Y.-I., Chang, I., Lee, B.-W., Min, Y.-K., Lee, M.-K., Kim, K.-W., Shoelson, S. E. and Lee, M.-.S. (2003) Identification and functional characterization of a novel mutation of hepatocyte nuclear factor-1alpha gene in a Korean family with MODY3. Diabetologia. 46:721-7.
19. Duda, K., Chi, Y.-I., and Shoelson, S. E. (2004) Structural basis for HNF-4alpha activation by ligand and coactivator binding. J. Biol. Chem. 279:23311-6.
20. Dhe-Paganon, S., Werner, E. D., Masahiro, N., Hansen, L., Chi, Y.-I. and Shoelson, S. E. (2004) A phenylalanine zipper mediates APS dimerization. Nature Struct. Mol. Biol. 11:968-74.
21. Lu, P., Li, Y., Gorman, A. and Chi, Y.-I. (2006) Crystallization of hepatocyte nuclear factor 1β in complex with DNA. Acta Crystallogr. F62:525-9.
22. Lu, P., Rha, G. B. and Chi, Y.-I. (2007) Structural basis of disease-causing mutations in hepatocyte nuclear factor 1beta. Biochemistry 46:12071-80.
23. Lu, P., Liu, J., Melikishvili, M., Fried, M. G. and Chi, Y.-I. (2008) Crystallization of hepatocyte nuclear factor 4α (HNF4α) in complex with the HNF1α promoter element. Acta Crystallogr. F64:313-7.
24. Chi Y.-I., Martick, M., Lares, M., Kim, R., Scott, W. G. and Kim, S.-H. (2008) Capturing hammerhead ribozyme structures in action by modulating general base catalysis. PLoS Biology 6:e234.
25. Lu, P., Rha, G., Melikishvili, M., Wu, G., Adkins, B. C., Fried, M. G. and Chi, Y.-I. (2008) Structural basis of natural promoter recognition by a unique nuclear receptor HNF4alpha: Diabetes gene product. J. Biol. Chem. 283:33685-97.
26. Rha, G., Wu, G., Shoelson, S. E. and Chi, Y.-I. (2009) Multiple binding modes between HNF4alpha and the LXXLL motifs of PGC-1alpha lead to full activation. J. Biol. Chem. 284:35165-76.
27. Yang, X., Lu, X., Lombes, M., Guerin, T. M., Rha, G., Chi, Y. -I., Smart, E. J. and Liu, J. (2010) The G0/G1 switch gene 2 regulates adipose lipolysis through association with adipose triglyceride lipase. Cell Metab. 11:194-205.
28. Lin, Y., Wu, Y., Li, J., Dong, C., Ye, X., Chi, Y.-I., Evers, B. M. and Zhou, B. P. (2010) The SNAG domain of Snail1 functions as a molecular hook for recruiting lysine-specific demethylase 1. EMBO J. 29:1803-16.
29. Robertson, M. P., Chi, Y.-I. and Scott, W. G. (2010) Solving novel RNA structures using only secondary structural fragments. Methods 52:168-72.
30. Rha, G., Wu, G. and Chi, Y.-I. (2011) Probing the effect of MODY mutations near the coactivator binding pocket of HNF4alpha. Biosci. Rep. 31:411-9.
31. Han, E. H., Rha, G. B. and Chi, Y.-I. (2012) MED25 is a Mediator component of HNF4alpha-driven transcription leading to insulin secretion in pancreatic beta-cells. PLoS One 7:e44007.
32. Dong, C., Wu, Y., Wang Y., Wang C., Kang, T., Rychahou, P. G., Chi, Y.-I., Evers, B. M. and Zhou, B. P. (2013) Interaction with Suv39H1 is critical for snail-mediated E-cadherin repression in breast cancer. Oncogene 32:1351-62.
33. Lancman, J. J., Zvenigorodsky, N., Gate, K. P., Zhang, D., Solomon, K., Humphrey, R. K., Kuo, T., Setiawan, L., Verkade, H., Chi, Y.-I., Jhala, U. S., Wright, C. V., Stainier, D. Y. and Dong, P. D. (2013) Specification of hepatopancreas progenitors in zebrafish by hnf1b and wnt2bb. Development 140:2669-79.
34. Zhang, H., Endrizzi, J. A., Shu, Y., Haque, F., Sauter, C., Shlyakhtenko, L. S., Lyubchenko, Y., Guo, P. and Chi, Y.-I. (2013) Crystal structure of 3WJ core revealing divalent ion promoted thermostability and assembly of the phi29 hexameric motor pRNA. RNA 19:1226-37.
35. Jung, S. K., Lee, M. H., Lim, D. Y., Kim, J. E., Singh, P., Lee, S. Y., Jeong, C. H., Lim, T. G., Chen, H., Chi, Y.-I., Kunda, J. K., Lee, N. H., Lee, C. C., Cho, Y. Y., Bode, A. M., Lee, K. W. and Dong, Z. (2014) Isoliquiritigenin induces apoptosis and inhibits xenograft tumor growth of human lung cancer cells by targeting both wildtype and L858R/T790M mutant EGFR. J. Biol. Chem. 289:35839-48.
36. Rao, E., Singh, P., Zhai, X., Li, Y., Zhu, G., Zhang, Y., Hao, J., Chi, Y.-I., Brown, R., Cleary, M. P. and Li, B. (2015) Inhibition of tumor growth by a newly-identified activator for epidermal fatty acid binding protein. Oncotarget 6:7815-27.
37. Rao, E., Singh, P., Li. Y., Zhang, Y., Chi, Y.-I., Suttles, J. and Li, B. (2015) Targeting epidermal fatty acid binding protein for treatment of experimental autoimmune encephalomyelitis. BMC Immunol. 16:28.
38. Han, E., Gorman, A., Singh, P. and Chi, Y.-I. (2015) Repression of HNF1alpha-mediated transcription by amino-terminal enhancer of split (AES). Biochem. Biophys. Res. Commun. 468:14-20.
39. Wu, Y., Wang, Y., Lin, Y., Liu, Y., Wang, Y., Jia, J., Singh, P., Chi, Y.-I., Wang, C., Dong, D., Li, W., Tao, M., Napier, D., Shi, Q., Deng, J., Evers, B. M. and Zhou, B. P. (2017) Dub3 inhibition suppresses breast cancer invasion and metastasis by promoting snail1 degradation. Nature Commun. 8:14228.
40. Singh, P., Han, E., Endrizzi, J. A., O’Brien, R. M. and Chi, Y.-I. (2017) Crystal structures reveal a new and novel FoxO1 binding site within the human glucose-6-phosphatase catalytic subunit 1 gene promoter. J. Struct. Biol. 198:54-64.
41. Jardetzky, T. S., Brown, J. H., Gorga, J. C., Stern, L. J., Urban, R.G., Chi, Y.-I., Stauffacher, C. V., Strominger, J. L. and Wiley, D. C. (2018) Pillars article: Three-dimensional structure of a human class II histocompatibility molecule complexed with superantigen. Nature 368: 711-718. J. Immunol. 201:1819-26.
42. Singh, P., Tung, S.-P., Han, E. H., Lee, I.-K. and Chi, Y.-I. (2019) Dimerization defective MODY mutations of hepatocyte nuclear factor 4alpha. Mutat. Res. 814:1-6.
43. Lee, D., Pagire, S., Pagire, H., Bae, E. J., Dighe, M., Kim, M., Lee, K. M., Jang, Y. K., Jaladi, A., Jung, K.-Y., Yoo, E. K., Gim, H. E., Lee, S. M., Choi, W.-I., Chi, Y.-I., Song, J.-S., Bae, M. A., Jeon, Y. H., Lee, G.-H., Liu, K.-H., Lee, T., Park, S., Jeon, J.-H., Lee, I. K. and Ahn, J. H. (2019) Discovery of novel pyruvate dehydrogenase kinase 4 inhibitors for potential oral treatment of metabolic diseases. J. Med. Chem. 62:575-88.
44. Han, E., Singh, P., Lee, I.-K., Urrutia, R. and Chi, Y.-I. (2019) ErbB3-binding protein 1 (EBP1) represses HNF4alpha-mediated transcription and insulin secretion in pancreatic beta-cells. J. Biol. Chem. 294:13983-94.
45. Dou, L., Yan, F., Pang, J., Zheng, D., Li, D., Gao, L., Wang, L., Xu, Y., Shi, J., Wang, Q., Zhou, L., Shen, N., Singh, P., Wang, L., Li, Y., Gao, Y., Liu, T., Chen, C., Al-Kali, A., Litzow, M. R., Chi, Y.-I., Bode, A. M., Liu, C., Huang, H., Liu, D., Marcucci, G., Liu, S. and Yu, L. (2019) Protein lysine 43 methylation by EZH1 promotes AML1-ETO transcriptional repression in leukemia. Nature Commun. 10:5051.
46. Chi, Y.-I., Stodola, T. J., De Assuncao, T. M., Leverence, E. N., Tripathi, S., Dsouza, N. R., Mathison, A. J., Basel, D. G., Volkman, B. F., Smith, B. C., Lomberk, G., Zimmermann, M. T., Urrutia, R. (2021) Molecular mechanics and dynamic simulations of well-known Kabuki syndrome-associated KDM6A variants reveal putative mechanisms of dysfunction. Orphanet. J. Rare Dis. 16:66.
47. Stodola, T. J., Chi, Y.-I., De Assuncao, T. M., Leverence, E. N., Tripathi, S., Dsouza, N. R., Mathison, A. J., Volkman, B. F., Smith, B. C., Lomberk, G., Zimmermann, M. T., Urrutia, R. (2022) Computational modeling reveals key molecular properties and dynamic behavior of Dot1L and partnering complexes involved in leukemogenesis. Proteins 90:282-298.
48. Chi, Y.-I., Stodola, T. J., De Assuncao, T. M., Leverence, E. N., Smith, B. C., Volkman, B. F., Mathison, A. J., Lomberk, G., Zimmermann, M. T., Urrutia, R. (2022) Structural bioinformatics enhances the interpretation of somatic mutations in KDM6A found in human cancers. Comput. Struct. Biotechnol. J. 20:2200-2211.
49. Pollin, G., De Assuncao, T. M., Jorge, S. D., Chi, Y.-I., Charlesworth, N. C., Madden, B., Iovanna, J. L., Zimmermann, M. T., Urrutia, R. and Lomberk, G. (2023) Writers and readers of H3K9me2 form distinct protein networks during the cell cycle, which include candidates for H3K9 mimicry. Biosci. Rep. 43:BSR20231093.
50. Chi, Y.-I., Jorge, S. D., Jensen, D. R., Smith, B. C., Volkman, B. F., Mathison, A. J., Lomberk, G., Zimmermann, M. T. and Urrutia, R. (2023) A multi-layered computational structural geneomics approach enhances domain-specific interpretation of Kleefstra syndrome variants in EHMT1. Comput. Struct. Biotechnol. J. 21:5249-58.
51. Jorge, S. D., Chi, Y.-I., Mazaba, J. L., Haque, N., Wegenknecht, J., Smith, B. C., Volkman, B. F., Mathison, A. J., Lomberk, G., Zimmermann, M. T. and Urrutia, R. (2023) Deep computational phenotyping of genomic variants impacting the SET domain of KMT2C reveal molecular mechanisms for their dysfunction. Front. Genet. 14:1291307.
52. Singh, E., Chi, Y.-I., Kopesky, J., Zimmermann, M. T., Basel, D. G., Urrutia, R. and Schowerer, J. S. (2024) Computational structural genomics and biochemical evidence support the gain of function of a novel variant in Branched Chain Ketoacid Dehydrogenase (BCKDK) detected on newborn screening for Maple Syrup Urine Disease (MSUD). JIMD Rep. 65:144-155.
 
Books, Chapters, and Reviews
1. Bohach, G. A., Jablonski, L. M., Deobald, C. F., Chi, Y.-I. and Stauffacher, C. V. (1995) Functional domains of staphylococcal enterotoxins. In Molecular Approaches to Food Safety: Issues involving Toxic Microorganisms. Alakan, Inc., Fort Collins, CO. PP. 339-56.
2. Chi, Y.-I. (2005) Homeodomain revisited: A lesson from disease-causing mutations. Human Genetics 116:433-44.
3. Scott, W. G., Martick, M. and Chi, Y.-I. (2009) Structure and function of regulatory RNA elements: Ribozymes that regulate gene expression. Biochim. Biophys. Act (BBA) – Gene Regulatory Mechanism 1789:634-41.