Tanya Phung

Postdoctoral Researcher

Contact info

  • Address

    Vrije Universiteit Amsterdam
    Center for Neurogenomics and Cognitive Research (CNCR)
    Department of Complex Trait Genetics
    W&N building, Room B-644
    De Boelelaan 1085
    1081 HV Amsterdam
    The Netherlands

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Short CV

2022 – present Postdoctoral researcher Vrije Universiteit Amsterdam
2021 – 2022 Bioinformatics Scientist Xbiome Inc.
2020 – 2021 Bioinformatics Scientist Ambry Genetics
2018 – 2020 Postdoctoral researcher Arizona State University
2014 – 2018 PhD in Bioinformatics University of California, Los Angeles
2010 – 2014 Bachelor in Biology Massachusetts Institute of Technology

Research

Currently at the VU, I am working on extending an existing web-based tool (FUMA) that was developed in the group. The goal is to integrate GWAS data with multiple omics datasets such as methylation data, single-cell RNA-seq data or proteomic data. The tools developed will be applied to brain-related traits and diseases to better understand the genetics of these traits.

Highlighted publications

Phung T.N. et al. (2022) X chromosome inactivation in the human placenta is patchy and distinct from adult tissues. HGG Adv, Volume 3, Issue 3.

Borden E.S., Phung T.N. et al (2021) Penalized regression analysis identifies features of the peptide: MHC class I interaction and mRNA expression as key to prioritizing neoantigen immunogenicity. The Journal of Immunology. Volume 206, Issue 1.

Phung T.N. et al. (2021) Unique evolutionary trajectories of breast cancers with distinct genomic and spatial heterogeneity. Scientific reports, Volume 11, Issue 1.

Phung T.N. et al. (2020) Unique genomic and neoepitope landscapes across tumors: a study across time, tissues, and space within a single lynch syndrome patient. Scientific reports, Volume 10, Issue 1.

Grujic O., Phung T.N. , Kwon S.B., Arneson A., Lee Y., Lohmueller K.E., and Ernst J. (2020) Identification and characterization of constrained non-exonic bases lacking predictive epigenomic and transcription factor binding annotations. Nature Communications, Volume 11, Issue 1

Phung, T.N., Wayne, R.K., Wilson, M.A., and Lohmueller, K.E. (2019). Complex patterns of sex-biased demography in canines. Proceedings of the Royal Society B, Volume 286, Issue 1903.

Webster, T.H., Couse, M., Grande, B.M., Karlins, E., Phung, T.N., Richmond, P.A., Whitford, W., and Wilson, M.A. (2019). Identifying, understanding, and correcting technical artifacts on the sex chromosomes in next-generation sequencing data. Giga Science, Volume 8, Issue 7.

Phung, T.N., Huber, C.D., and Lohmueller, K.E. (2016). Determining the Effect of Natural Selection on Linked Neutral Divergence across Species. PLoS Genetics, Volume 12, Issue 8.

Aakre, C.D., Herrou, J., Phung, T.N., Perchuk, B.S., Crosson, S., and Laub, M.T. (2015). Evolving New Protein-Protein Interaction Specificity through Promiscuous Intermediates. Cell, Volume 163, Issue 3, 594-606.