Publications

Patents, Publications, Software

You can also browse my ORCID profile

• Uncontrolled Ammonia is Associated with Increased Healthcare Resource Utilization in Hepatic Encephalopathy
  Journal of Hepatology 84(S1):S195, EASL Congress 2026 poster WED-441 (May 2026)
  Jonathan Fischer, Christian Roy, Elliot Tapper
  Abstract PDF

  In real-world health records, patients with hepatic encephalopathy whose ammonia stayed uncontrolled used more healthcare resources.

  AbstractReal-world evidence

• Regional Distribution of HLA Frequencies in the USA: Implications for TCR-Based Therapies Journal for ImmunoTherapy of Cancer (April 2025)
  Christian K. Roy, Tomasz Sewastianik, Ileana Saenz, Gregory J. Opiteck, Sean Stagg, Martin Maiers, Dirk Nagorsen

  Mapped how HLA types vary across US regions, and what that means for how many patients HLA-restricted TCR therapies can reach.

  PaperImmunology & oncology

• CensusHLA: R Package in support of Roy 2025 JITC
  Available from: Zenodo and GitHub

  The open-source R package behind the regional HLA estimates, so others can reproduce and extend them.

  SoftwareImmunology & oncology

• Allele-specific HLA LOH in solid tumors: distinct patterns by tumor type and potential prognostic relevance Journal for ImmunoTherapy of Cancer (September 2025) Tomasz Sewastianik, Christian Roy, Michael V. Gormally, Meagan Montesion, Patrick Halvey, Aastha Jindal, Hubert Lam, Adam Schoenfeld, Christopher A. Klebanoff, Gregory J. Opiteck, Dirk Nagorsen

  Measured how often tumors lose one specific HLA allele, how that differs by tumor type, and whether it tracks with outcome.

  PaperImmunology & oncology

• Human NLRC4 Expression Promotes Cancer Survival and Associates with Type I Interferon Signaling and Immune Infiltration
  Journal of Clinical Investigation (2024)
  Charlotte Domblides, Steven Crampton, Hong Liu, Juliet M. Bartleson, Annie Nguyen, Claudia Champagne, Emily E. Landy, et al. 

  Linked NLRC4 expression in human cancers to survival, type I interferon signaling, and immune cell infiltration.

  PaperImmunology & oncology

• Widespread Haploid-Biased Gene Expression Enables Sperm-Level Natural Selection
  Science (March 2021)
  Kunal Bhutani, Katherine Stansifer, Simina Ticau, Lazar Bojic, Chloe Villani, Joanna Slisz, Claudia Cremers, Christian Roy, Jerry Donovan, Brian Fiske, Robin Friedman

  Showed that many genes are expressed unevenly between individual sperm, giving natural selection something to act on before fertilization.

  PaperRNA & genomics

• Subsets of Mononuclear Phagocytes Are Enriched in the Inflamed Colons of Patients with IBD
  BMC Immunology (November 2019)
  Hong Liu, Suryasarathi Dasgupta, Yu Fu, Brandi Bailey, Christian Roy, Eric Lightcap, Benjamin Faustin

  Profiled the subsets of mononuclear phagocytes that accumulate in inflamed colon tissue from patients with IBD.

  PaperImmunology & oncology

• Assessing Long-Distance RNA Sequence Connectivity via RNA-Templated DNA-DNA Ligation
  eLife (April 2015)
  Christian K. Roy, Sarah Olson, Brenton R. Graveley, Phillip D. Zamore, Melissa J. Moore

  A sequencing method that reads which exons sit together on the same RNA molecule, even when they are far apart.

  PaperRNA & genomics

• Deducing Exon Connectivity by RNA-Templated DNA Ligation/Sequencing
  Patent US8975019 B2 (March 2015)
  Phillip D. Zamore, Melissa J. Moore, Christian K. Roy

  The patent covering that exon-connectivity method: RNA-templated DNA ligation followed by sequencing.

  PatentRNA & genomics

• Putting the Pieces Together: Exons and piRNAs
  UMMS Dissertation (May 2014)
  Christian K. Roy
  Available on Github

  PhD thesis joining two threads: reading exon connectivity, and where piRNAs come from.

  ThesisRNA & genomics

• An Ancient Transcription Factor Initiates the Burst of piRNA Production during Early Meiosis in Mouse Testes
  Molecular Cell (April 2013)
  X.Z. Li*, Christian K. Roy*, X. Dong, E. Bolcun-Filas, J. Wang, B.W. Han, J. Xu, Melissa J. Moore, J.C. Schimenti, Z. Weng, Phillip D. Zamore (*Equal contribution)

  Found that the transcription factor A-MYB switches on the burst of piRNA production during early meiosis in mouse testes.

  PaperRNA & genomics

• Defining piRNA Primary Transcripts
  Cell Cycle (May 2013)
  X.Z. Li, Christian K. Roy, Melissa J. Moore, Phillip D. Zamore

  Defined the long primary transcripts that mouse piRNAs are cut from.

  PaperRNA & genomics

• UPF1 Is Crucial for the Infectivity of Human Immunodeficiency Virus Type 1 Progeny Virions
  Journal of Virology (August 2013)
  A.K.P. Serquiña, R.D. Suman, E. Popova, O.A. Ojelabi, Christian K. Roy, H.G. Göttlinger

  Showed that the RNA helicase UPF1 is needed for newly made HIV-1 particles to be infectious.

  PaperRNA & genomics