Simone Zaccaria

16 papers B 4C 2Journal 9
YearRankTypeTitle / Venue / Authors
2025 B conf
Characterizing the Solution Space of Migration Histories of Metastatic Cancers with MACH2.
RECOMB
Mrinmoy Saha Roddur, Vikram Ramavarapu, Abigail Bunkum, Ariana Huebner, Roman Mineyev, Nicholas McGranahan, Simone Zaccaria, Mohammed El-Kebir
2022 J jnl
CNAViz: An interactive webtool for user-guided segmentation of tumor DNA sequencing data.
PLoS Comput. Biol.
Zubair Lalani, Gillian Chu, Silas Hsu, Shaw Kagawa, Michael Xiang, Simone Zaccaria, Mohammed El-Kebir
2022 J jnl
Parsimonious Clone Tree Integration in cancer.
Algorithms Mol. Biol.
Palash Sashittal, Simone Zaccaria, Mohammed El-Kebir
2021 C conf
Parsimonious Clone Tree Reconciliation in Cancer.
WABI
Palash Sashittal, Simone Zaccaria, Mohammed El-Kebir
2020 J jnl
Identifying tumor clones in sparse single-cell mutation data.
Bioinform.
Matthew A. Myers, Simone Zaccaria, Benjamin J. Raphael
2020 B conf
Single-Cell Tumor Phylogeny Inference with Copy-Number Constrained Mutation Losses.
RECOMB
Gryte Satas, Simone Zaccaria, Geoffrey Mon, Benjamin J. Raphael
2018 J jnl
HapCHAT: adaptive haplotype assembly for efficiently leveraging high coverage in long reads.
BMC Bioinform.
Stefano Beretta, Murray Patterson, Simone Zaccaria, Gianluca Della Vedova, Paola Bonizzoni
2018 J jnl
Phylogenetic Copy-Number Factorization of Multiple Tumor Samples.
J. Comput. Biol.
Simone Zaccaria, Mohammed El-Kebir, Gunnar W. Klau, Benjamin J. Raphael
2017 J jnl
Complexity and algorithms for copy-number evolution problems.
Algorithms Mol. Biol.
Mohammed El-Kebir, Benjamin J. Raphael, Ron Shamir, Roded Sharan, Simone Zaccaria, Meirav Zehavi, Ron Zeira
2017 — —
Inferring Genomic Variants and their Evolution: Combinatorial Optimization for Haplotype Assembly and Quantification of Intra-Tumor Heterogeneity.
Simone Zaccaria
2017 B conf
The Copy-Number Tree Mixture Deconvolution Problem and Applications to Multi-sample Bulk Sequencing Tumor Data.
RECOMB
Simone Zaccaria, Mohammed El-Kebir, Gunnar W. Klau, Benjamin J. Raphael
2016 C conf
Copy-Number Evolution Problems: Complexity and Algorithms.
WABI
Mohammed El-Kebir, Benjamin J. Raphael, Ron Shamir, Roded Sharan, Simone Zaccaria, Meirav Zehavi, Ron Zeira
2016 J jnl
HapCol: accurate and memory-efficient haplotype assembly from long reads.
Bioinform.
Yuri Pirola, Simone Zaccaria, Riccardo Dondi, Gunnar W. Klau, Nadia Pisanti, Paola Bonizzoni
2016 J jnl
On the Minimum Error Correction Problem for Haplotype Assembly in Diploid and Polyploid Genomes.
J. Comput. Biol.
Paola Bonizzoni, Riccardo Dondi, Gunnar W. Klau, Yuri Pirola, Nadia Pisanti, Simone Zaccaria
2015 B conf
On the Fixed Parameter Tractability and Approximability of the Minimum Error Correction Problem.
CPM
Paola Bonizzoni, Riccardo Dondi, Gunnar W. Klau, Yuri Pirola, Nadia Pisanti, Simone Zaccaria
2013 J jnl
On the inversion-indel distance.
BMC Bioinform.
Eyla Willing, Simone Zaccaria, Marília D. V. Braga, Jens Stoye