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Chun-Nan Hsu

TitleAssociate Adjunct Professor
InstitutionUniversity of California San Diego
DepartmentMedicine
Address9500 Gilman Drive #0728
La Jolla CA 92093
Phone858-822-2690
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    Collapse Biography 
    Collapse Education and Training
    University of Southern California, Los Angeles, CAPhDComputer Science
    Collapse Awards and Honors
    Association for Computing Machinery2011ACM Senior Member
    The International Business Machines Corp.2012IBM Faculty Award

    Collapse Overview 

    Collapse Research 
    Collapse Research Activities and Funding
    Accelerating Curation of GWAS Catalog by Automatic Text Mining
    NIH U01HG006894Sep 24, 2012 - Jun 30, 2016
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Faculty Mentoring

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
    List All   |   Timeline
    1. Gabriel RA, Kuo TT, McAuley J, Hsu C. Identifying and Characterizing Highly Similar Notes in Big Clinical Note Datasets. J Biomed Inform. 2018 Apr 18. PMID: 29679685.
      View in: PubMed
    2. Kuo TT, Rao P, Maehara C, Doan S, Chaparro JD, Day ME, Farcas C, Ohno-Machado L, Hsu C. Ensembles of NLP Tools for Data Element Extraction from Clinical Notes. AMIA Annu Symp Proc. 2016; 2016:1880-1889. PMID: 28269947.
      View in: PubMed
    3. Doan S, Maehara CK, Chaparro JD, Lu S, Liu R, Graham A, Berry E, Hsu C, Kanegaye JT, Lloyd DD, Ohno-Machado L, Burns JC, Tremoulet AH. Building a Natural Language Processing Tool to Identify Patients With High Clinical Suspicion for Kawasaki Disease from Emergency Department Notes. Acad Emerg Med. 2016 05; 23(5):628-36. PMID: 26826020.
      View in: PubMed
    4. Jain S, Tumkur KR, Kuo TT, Bhargava S, Lin G, Hsu C. Weakly supervised learning of biomedical information extraction from curated data. BMC Bioinformatics. 2016 Jan 11; 17 Suppl 1:1. PMID: 26817711; PMCID: PMC4847485.
    5. Huang YH, Rose PW, Hsu C. Citing a Data Repository: A Case Study of the Protein Data Bank. PLoS One. 2015; 10(8):e0136631. PMID: 26317409.
      View in: PubMed
    6. Carty CL, Bhattacharjee S, Haessler J, Cheng I, Hindorff LA, Aroda V, Carlson CS, Hsu C, Wilkens L, Liu S, Selvin E, Jackson R, North KE, Peters U, Pankow JS, Chatterjee N, Kooperberg C. Analysis of metabolic syndrome components in >15 000 african americans identifies pleiotropic variants: results from the population architecture using genomics and epidemiology study. Circ Cardiovasc Genet. 2014 Aug; 7(4):505-13. PMID: 25023634.
      View in: PubMed
    7. Peng JY, Chen YJ, Green MD, Sabatinos SA, Forsburg SL, Hsu C. PombeX: robust cell segmentation for fission yeast transillumination images. PLoS One. 2013; 8(12):e81434. PMID: 24353754.
      View in: PubMed
    8. Lin KT, Shann YJ, Chau GY, Hsu C, Huang CY. Identification of latent biomarkers in hepatocellular carcinoma by ultra-deep whole-transcriptome sequencing. Oncogene. 2014 Sep 25; 33(39):4786-94. PMID: 24141781.
      View in: PubMed
    9. Liu CH, Chen TC, Chau GY, Jan YH, Chen CH, Hsu C, Lin KT, Juang YL, Lu PJ, Cheng HC, Chen MH, Chang CF, Ting YS, Kao CY, Hsiao M, Huang CY. Analysis of protein-protein interactions in cross-talk pathways reveals CRKL protein as a novel prognostic marker in hepatocellular carcinoma. Mol Cell Proteomics. 2013 May; 12(5):1335-49. PMID: 23397142.
      View in: PubMed
    10. Pendergrass SA, Brown-Gentry K, Dudek S, Frase A, Torstenson ES, Goodloe R, Ambite JL, Avery CL, Buyske S, Bužková P, Deelman E, Fesinmeyer MD, Haiman CA, Heiss G, Hindorff LA, Hsu C, Jackson RD, Kooperberg C, Le Marchand L, Lin Y, Matise TC, Monroe KR, Moreland L, Park SL, Reiner A, Wallace R, Wilkens LR, Crawford DC, Ritchie MD. Phenome-wide association study (PheWAS) for detection of pleiotropy within the Population Architecture using Genomics and Epidemiology (PAGE) Network. PLoS Genet. 2013; 9(1):e1003087. PMID: 23382687; PMCID: PMC3561060.
    11. Huang YH, Rice JP, Saccone SF, Ambite JL, Arens Y, Tischfield JA, Hsu C. A ν-support vector regression based approach for predicting imputation quality. BMC Proc. 2012 Nov 13; 6 Suppl 7:S3. PMID: 23173775.
      View in: PubMed
    12. Chan WC, Ho MR, Li SC, Tsai KW, Lai CH, Hsu C, Lin WC. MetaMirClust: discovery of miRNA cluster patterns using a data-mining approach. Genomics. 2012 Sep; 100(3):141-8. PMID: 22735742.
      View in: PubMed
    13. Hochbaum DS, Hsu C, Yang YT. Ranking of multidimensional drug profiling data by fractional-adjusted bi-partitional scores. Bioinformatics. 2012 Jun 15; 28(12):i106-14. PMID: 22689749.
      View in: PubMed
    14. Lu Z, Kao HY, Wei CH, Huang M, Liu J, Kuo CJ, Hsu C, Tsai RT, Dai HJ, Okazaki N, Cho HC, Gerner M, Solt I, Agarwal S, Liu F, Vishnyakova D, Ruch P, Romacker M, Rinaldi F, Bhattacharya S, Srinivasan P, Liu H, Torii M, Matos S, Campos D, Verspoor K, Livingston KM, Wilbur WJ. The gene normalization task in BioCreative III. BMC Bioinformatics. 2011 Oct 03; 12 Suppl 8:S2. PMID: 22151901.
      View in: PubMed
    15. Kuo CJ, Ling MH, Hsu C. Soft tagging of overlapping high confidence gene mention variants for cross-species full-text gene normalization. BMC Bioinformatics. 2011 Oct 03; 12 Suppl 8:S6. PMID: 22152021.
      View in: PubMed
    16. Li SC, Chan WC, Lai CH, Tsai KW, Hsu C, Jou YS, Chen HC, Chen CH, Lin WC. UMARS: Un-MAppable Reads Solution. BMC Bioinformatics. 2011 Feb 15; 12 Suppl 1:S9. PMID: 21342592.
      View in: PubMed
    17. Li SC, Chan WC, Ho MR, Tsai KW, Hu LY, Lai CH, Hsu C, Hwang PP, Lin WC. Discovery and characterization of medaka miRNA genes by next generation sequencing platform. BMC Genomics. 2010 Dec 02; 11 Suppl 4:S8. PMID: 21143817.
      View in: PubMed
    18. Lan MY, Chen CL, Lin KT, Lee SA, Yang WL, Hsu C, Wu JC, Ho CY, Lin JC, Huang CY. From NPC therapeutic target identification to potential treatment strategy. Mol Cancer Ther. 2010 Sep; 9(9):2511-23. PMID: 20716640.
      View in: PubMed
    19. Lin YS, Lin CC, Tsai YS, Ku TC, Huang YH, Hsu C. A spectral graph theoretic approach to quantification and calibration of collective morphological differences in cell images. Bioinformatics. 2010 Jun 15; 26(12):i29-37. PMID: 20529919.
      View in: PubMed
    20. Tsai KW, Chan WC, Hsu C, Lin WC. Sequence features involved in the mechanism of 3' splice junction wobbling. BMC Mol Biol. 2010 May 07; 11:34. PMID: 20459675.
      View in: PubMed
    21. Li SC, Chan WC, Hu LY, Lai CH, Hsu C, Lin WC. Identification of homologous microRNAs in 56 animal genomes. Genomics. 2010 Jul; 96(1):1-9. PMID: 20347954.
      View in: PubMed
    22. Hsu C, Chang YM, Huang HS, Lee YJ.NIPS 2009. Periodic Step Size Adaptation for Single Pass On-line Learning. 2009; 22:763-771.
    23. Yuan HY, Chiou JJ, Tseng WH, Liu CH, Liu CK, Lin YJ, Wang HH, Yao A, Chen YT, Hsu C. FASTSNP: an always up-to-date and extendable service for SNP function analysis and prioritization. Nucleic Acids Res. 2006 Jul 01; 34(Web Server issue):W635-41. PMID: 16845089.
      View in: PubMed