Russell Schwartz
Professor and Head, Ray and Stephanie Lane Computational Biology Department
Computational Cancer Research Website
Lab Members
Nishat Bristy
Ph.D. Student
Lanting Li
Ph.D. Student (co-advised by Oana Carja)
Thomas Rachman
Ph.D. Student (co-advised by Oana Carja)
Arjun Srivatsa
Ph.D. Student
Highlighted Publications
H. Lei, B. Lyu, E. M. Gertz, A. A. Schaeffer, X. Shi, K. Wu, G. Li, L. Xu, Y. Hu, M. Dean, R. Schwartz. “Tumor copy number deconvolution integrating bulk and single-cell sequencing data.” Proc. International Conference on Research in Computational Molecular Biology (RECOMB), pp. 174-189, 2019.
J. Eaton, J. Wang, and R. Schwartz. “Deconvolution and phylogeny inference of structural variations in tumor genomic samples.” Bioinformatics (ISMB special proceedings issue), 34(13):i357-i365, 2018.
R. Schwartz and A. A. Schaffer. “The evolution of tumor phylogenetics: principles and practice.” Nature Reviews Genetics, 18(4):213-229, 2017.
SA Chowdhury, E Gertz, D Wangsa, K Heselmeyer-Haddad, T Ried, A Schaffer and R Schwartz. "Inferring models of multiscale copy number evolution for single-tumor phylogenetics." Bioinformatics, 31(12):i258-i267, 2015.
S. A. Chowdhury, S. E. Shackney, K. Heselmeyer-Haddad, T. Ried, A. A. Schäffer, R. Schwartz. “Phylogenetic analysis of multiprobe fluorescence in situ hybridization data from tumor cell populations.” Bioinformatics, 29(13):i189-i198, 2013.
Highlighted Software
FISHtrees - (FISH-based tumor phylogenetics)
TUSV - (tumor phylogenetics incorporating CNA and SV markers)
SCS_deconvolution - (joint bulk and single-cell CNA deconvolution)
BrMPhylo - (phylogenetics from bulk RNA-seq data)