Tanya Phung
Contact info
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Address
Vrije Universiteit Amsterdam
Center for Neurogenomics and Cognitive Research (CNCR)
Department of Complex Trait Genetics
Research Building
De Boelelaan 1100
1081 HZ Amsterdam
The Netherlands -
E-mail
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Phone
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.