A Park Lab member is the ^(co-)first or *(co-)corresponding author.

Preprint

  1. Fan Zhenjiang^, Soyeon Kim, Yulong Bai, Brenda Diergaarde, Hyun Jung Park*. 3ʹ-UTR shortening disrupts ceRNA crosstalk of housekeeping genes resulting in subtype-specific breast cancer development, Biorxiv. Apr, 2019

    [e-print]

  2. Soyeon Kim, Yulong Bai, Brenda Diergaarde, George C. Tseng, Hyun Jung Park*. Alternative Polyadenylation Regulates Patient-specific Tumor Growth by Individualizing MicroRNA Target Site Landscape, Biorxiv. Apr, 2019

    [e-print]

  3. Soyeon Kim, Hyun Jung Park, Xiangqin Cui, Degui Zhi, Leveraging collective regulatory effects of long-range DNA methylations to predict gene expressions and estimate their effects on phenotypes in cancer. Biorxiv. Dec, 2018

    [e-print]

Journal Articles

  1. H-J. Park, P. Ji^, S. Kim, Z. Xia, B. Rodriguez, C-P. Masamha, A-B, Shyu, J. Neilson, E.J. Wagner*, W. Li*, “3′UTR shortening Down-regulates Tumor Suppressors in trans by Disrupting the CeRNA Crosstalk", Nature Genetics, 50, 783-789 (2018).

    [e-print]

  2. M. Jeong^, H-J. Park^, M. Celik, E. L. Ostrander, J. M. Reyes, A. Guzman, B. Rodriguez, Y. Lee, L. Ding, W. Li, G. A. Challen*, M. A. Goodell*, “Loss of Dnmt3a Immortalizes Hematopoietic Stem Cell In Vivo", Cell Reports, 23, 1-10 (2018)

    [e-print]

  3. H-J. Park*, S. Kim, B. Rodriguez, W. Li*, “Model-based analysis of competing-endogenous pathways (MACPath) in human cancers.", PLoS Computational Biology, 14(3): e1006074

    [e-print]

  4. Y-h. Lee^, N. Martin-Orozco, P. Zheng, J. Li, P. Zheng, H. Tan, H-J. Park, M. Jeong, S. H. Chang, B. Kim, W. Xiong, W. Zang, L. Guo, Y. Liu, Z-j. Dong. W. Overwijk, P. Hwu, Q. Yi, L. Kwak, Z. Yang, T. W. Mak, W. Li, L. Radvanyi, L. Ni, D. Liu, C. Dong*, “Inhibition of B7-H3 checkpoint limits tumor growth by enhancing cytotoxic lymphocyte function.", Cell Research, 27(8), 1034-1045, 2017

    [e-print]

  5. L. Yang^, B. Rodriguez^, A Mayle^, H-J. Park, X. Lin, M. Luo, M. Jeong, C. V. Curry, S. Kim, D. Ruau, X. Zhang, T. Zhou, M. Zhou, V. I. Rebel, G. A. Challen, B. Gottgens, J. Lee, R. Rau, W. Li* and M. A. Goodell*, “DNMT3A loss drives enhancer hypomethylation in FLT3-ITD-associated leukemias..", Cancer Cell, 29(6), 922-934, 2016

    [e-print]

  6. X. Zhangˆ, J. Su, M. Jeong, M. G. Ko, Y. Huang, H. J. Park, A. Guzman, Y. Lei, Y-H, Huang, A. Rao, W. Li and M. A. Goodell, “DNMT3A and TET2 compete and cooperate to represss differentialation lineage- specific factors in hematopoietic stem cells", Nature Genetics, 48(9), 1014-1023, 2016

    [e-print]

  7. L. Minˆ, M. Jeongˆ, D. Sunˆ, H. J. Parkˆ, B. Rodriguez, Z. Xia, L. Yang, X. Zhang, GJ. Darlington, W. Li, M.A. Goodell, “Long Non-coding RNAs Control Hematopoietic Stem Cell (HSC) Function", Cell Stem Cell16(4):426-38, 2015

    [e-print]

  8. D. Sunˆ, Y. Xi, B. Rodriguez, H. J. Park, T. Pan, M. Jeong, MA Goodell, W. Li, “MOABS: model based analysis of bisulfite sequencing data", Genome Biology, 15: R38, 2014

    [e-print] [online guide]

  9. L. Wangˆ, H. J. Parkˆ, S. Wang, J-P Kocher, W. Li, “CPAT: Coding-Potential Assessment Tool Using an Alignment-Free Logistic Regression Model" Nucleic Acid Research 41(6), Apr. 1, 2013

    [e-print] [web-server] [online guide]

  10. H. J. Parkˆ, and L. Nakhleh, “Inference of Reticulate Evolutionary Histories by Maximum Likelihood: The Performance of Information Criteria", BMC Bioinformatics 13:S12, 2012

    [e-print]

  11. H. J. Parkˆ, G. Jinˆ, and L. Nakhleh, "Bootstrap-based Support of HGT Inferred by Maximum Parsimony", BMC Evolutionary Biology, 10: 131, 2010

    [e-print]

Peer-reviewed Conference Articles

  1. H. J. Parkˆ, and L. Nakhleh, “MURPAR: A Fast Heuristic for Inferring Parsimonious Phylogenetic Networks from Multiple Gene Trees", The 8th International Symposium on Bioinformatics Research and Applications (ISBRA). LNBI 7292:213-224, 2012

    [e-print]

  2. H. J. Parkˆ, G. Jinˆ, and L. Nakhleh, "Algorithmic strategies for estimating the amount of reticulation from a collection of gene trees", Proceedings of the 9th Annual International Conference on Computational Systems Biology. 114-123, 2010

    ParkEtAl-CSB2010.pdf

  3. H. J. Parkˆ and T. L. Williams, “A Fitness Distance Correlation Measure for Evolutionary Trees" 1st Intl. Conference on Bioinformatics and Computational Biology (BiCoB ), ser. Lecture Notes in Computer Science, vol. 5462, pages 331342, 2009

    [e-print]

Book Chapters

  1. H. J. Parkˆ, S-J. Sul, and T. L. Williams, “Large-Scale Analysis of Phylogenetic Search Behavior" Advances in Computational Biology, H.R. Arabnia, ed., Springer, vol. 680, pages 35-42, 2010

    [e-print]