Ph.D., University of California, Berkeley, Physics, 2001.
M.A., University of California, Berkeley, Physics, 1997.
A.B., Harvard University, Physics, 1995.
My research is computationally based and focuses on the adaptive immune system and its response to viral infection, with HIV a particular area of interest. Taking advantage of new high-throughput sequencing technology, in collaboration with experimental groups, we are isolating and sequencing millions of t-cell receptor VDJ rearrangements from different clonotypes. With this new technology, we can attempt a comprehensive description of the t-cell repertoire and ask what how this repertoire is modified during an immune response.
2002-2006, Post-doctoral fellow, Institute for Advanced Study, Princeton, NJ
2001-2002, Post-doctoral fellow, Weizmann Institute of Science, Particle Theory Group
Shaping of Human Germline IgH Repertoires Revealed by Deep Sequencing.. Journal of immunology (Baltimore, Md. : 1950). 189(6):3221-30.. 2012.
Ultra-sensitive detection of rare T cell clones.. Journal of immunological methods. 375(1-2):14-19.. 2012.
Palindromic nucleotide analysis in human T cell receptor rearrangements.. PloS one. 7(12):e52250.. 2012.
Deep sequencing of the human TCRγ and TCRβ repertoires suggests that TCRβ rearranges after αβ and γδ T cell commitment.. Science translational medicine. 3(90):90ra61.. 2011.
Detecting and monitoring lymphoma with high-throughput sequencing.. Oncotarget. 2(4):287-8.. 2011.
Overlap and effective size of the human CD8+ T cell receptor repertoire.. Science translational medicine. 2(47):47ra64.. 2010.
Abnormalities of the alphabeta T-cell receptor repertoire in advanced myelodysplastic syndrome.. Experimental hematology. 38(3):202-12.. 2010.
Comprehensive assessment of T-cell receptor beta-chain diversity in alphabeta T cells.. Blood. 114(19):4099-107.. 2009.
The computational detection of functional nucleotide sequence motifs in the coding regions of organisms.. Experimental biology and medicine (Maywood, N.J.). 233(6):665-73.. 2008.
Suppression of immediate-early viral gene expression by herpesvirus-coded microRNAs: implications for latency.. Proceedings of the National Academy of Sciences of the United States of America. 105(14):5453-8.. 2008.
A recoding method to improve the humoral immune response to an HIV DNA vaccine.. PloS one. 3(9):e3214.. 2008.