Carnegie Mellon University ———
Mellon College of Science  ›  Computational Cancer Research  ›  Faculty  ›  Russell Schwartz

Russell Schwartz

Professor, Biological Sciences

Address:
654B Mellon Institute
Biological Sciences, MCS
Carnegie Mellon University
4400 Fifth Avenue
Pittsburgh, PA 15213

Email

Russell Schwartz
The Schwartz lab works on computational cancer genomics with particular focus on tumor evolution and heterogeneity. Much of our work is focused on developing computational models and algorithms to construct more realistic models of clonal evolution in cancers from various combinations of data sources and mutational mechanisms. A particular interest there has been understanding mechanisms of evolution by copy number alterations (CNAs). We are also developing machine learning methods for better predicting cancer progression risk from genomic and other data sources and in applying such methods to understand how variation in mutational processes patient-to-patient contribute to cancer risk.

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.

GOOGLE SCHOLAR

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)