Skip to main content

Selected Publications ∣ cancer genomics

  • Tao Y, Rajaraman A, Cui X, Cui Z, Eaton J, Kim H, Ma J*, and Schwartz R*.
    Assessing the contribution of tumor mutational phenotypes to cancer progression risk.
    PLOS Computational Biology, 17(3):e1008777, 2021
  • Zhang Y, Xiao Y, Yang M, and Ma J.
    Cancer mutational signatures representation by large-scale context embedding.
    ISMB, 2020.
    Bioinformatics, 36(Supplement_1):i309-i316, 2020.
  • Rajaraman A and Ma J.
    Towards recovering allele-specific cancer genome graphs.
    RECOMB, 2017.
  • Li Y, Zhou S, Schwartz DC, and Ma J.
    Allele-specific quantification of structural variations in cancer genomes.
    Cell Systems, 3(1):21-34, 2016.
    RECOMB, 2016.
  • Hou JP, Emad A, Puleo GJ, Ma J*, and Milenkovic O*.
    A new correlation clustering method for cancer mutation analysis.
    Bioinformatics, 32(24):3717-28, 2016.
  • Hou JP and Ma J.
    DawnRank: Discovering personalized driver genes in cancer.
    Genome Medicine, 6:56, 2014.
  • Liu Y, Gu Q, Hou JP, Han J, and Ma J.
    A network-assisted co-clustering algorithm to discover cancer subtypes based on gene expression.
    BMC Bioinformatics, 15:37, 2014.
  • Li Y, Chien J, Smith DI, and Ma J.
    FusionHunter: identifying fusion transcripts in cancer using paired-end RNA-seq.
    Bioinformatics, 27(12):1708-10, 2011.