E. Michael Gertz

Publication Activity (10 Years)

Years Active: 2001-2021
Publications (10 Years): 6

Top Topics

Linear Programming Relaxation

Branch And Bound

Top Venues

J. Comput. Biol.

Publications

Haoyun Lei, E. Michael Gertz, Alejandro A. Schäffer, Xuecong Fu, Yifeng Tao, Kerstin Heselmeyer-Haddad, Irianna Torres, Guibo Li, Liqin Xu, Yong Hou, Kui Wu, Xulian Shi, Michael Dean, Thomas Ried, Russell Schwartz
Tumor heterogeneity assessed by sequencing and fluorescence in situ hybridization (FISH) data. Bioinform. 37 (24) (2021)
Erfan Sadeqi Azer, Farid Rashidi Mehrabadi, Salem Malikic, Xuan Cindy Li, Osnat Bartok, Kevin Litchfield, Ronen Levy, Yardena Samuels, Alejandro A. Schäffer, E. Michael Gertz, Chi-Ping Day, Eva Pérez-Guijarro, Kerrie Marie, Maxwell P. Lee, Glenn Merlino, Funda Ergün, Süleyman Cenk Sahinalp
PhISCS-BnB: a fast branch and bound algorithm for the perfect tumor phylogeny reconstruction problem. Bioinform. 36 (Supplement-1) (2020)
Haoyun Lei, Bochuan Lyu, E. Michael Gertz, Alejandro A. Schäffer, Xulian Shi, Kui Wu, Guibo Li, Liqin Xu, Yong Hou, Michael Dean, Russell Schwartz
Tumor Copy Number Deconvolution Integrating Bulk and Single-Cell Sequencing Data. J. Comput. Biol. 27 (4) (2020)
Haoyun Lei, Bochuan Lyu, E. Michael Gertz, Alejandro A. Schäffer, Xulian Shi, Kui Wu, Guibo Li, Liqin Xu, Yong Hou, Michael Dean, Russell Schwartz
Tumor Copy Number Deconvolution Integrating Bulk and Single-Cell Sequencing Data. RECOMB (2019)
Haoyun Lei, Bochuan Lyu, E. Michael Gertz, Alejandro A. Schäffer, Russell Schwartz
Tumor Copy Number Data Deconvolution Integrating Bulk and Single-cell Sequencing Data. ICCABS (2018)
Salim Akhter Chowdhury, E. Michael Gertz, Darawalee Wangsa, Kerstin Heselmeyer-Haddad, Thomas Ried, Alejandro A. Schäffer, Russell Schwartz
Inferring models of multiscale copy number evolution for single-tumor phylogenetics. Bioinform. 31 (12) (2015)
E. Michael Gertz, Joshua D. Griffin
Using an iterative linear solver in an interior-point method for generating support vector machines. Comput. Optim. Appl. 47 (3) (2010)
Aleksandar Stojmirovic, E. Michael Gertz, Stephen F. Altschul, Yi-Kuo Yu
The effectiveness of position- and composition-specific gap costs for protein similarity searches. ISMB (2008)
Aleksandr Morgulis, E. Michael Gertz, Alejandro A. Schäffer, Richa Agarwala
A Fast and Symmetric DUST Implementation to Mask Low-Complexity DNA Sequences. J. Comput. Biol. 13 (5) (2006)
Aleksandr Morgulis, E. Michael Gertz, Alejandro A. Schäffer, Richa Agarwala
WindowMasker: window-based masker for sequenced genomes. Bioinform. 22 (2) (2006)
E. Michael Gertz, Philip E. Gill
A primal-dual trust region algorithm for nonlinear optimization. Math. Program. 100 (1) (2004)
E. Michael Gertz
A quasi-Newton trust-region method. Math. Program. 100 (3) (2004)
E. Michael Gertz, Jorge Nocedal, Annick Sartenaer
A starting point strategy for nonlinear interior methods. Appl. Math. Lett. 17 (8) (2004)
E. Michael Gertz, Stephen J. Wright
Object-oriented software for quadratic programming. ACM Trans. Math. Softw. 29 (1) (2003)
E. Michael Gertz, Philip E. Gill, Julia Muetherig
Users Guide for SnadiOpt: A Package Adding Automatic Differentiation to Snopt CoRR (2001)