Multi-Knockout Genetic Network Analysis: The Rad6 Example. - Alon Kaufman; Martin Kupiec; Eytan Ruppin (CSB, 2004)

Quantitative Analysis of Genetic and Neuronal Multi-Perturbation Experiments. - Alon Kaufman; Alon Keinan; Isaac Meilijson; Martin Kupiec; Eytan Ruppin (PLoS Comput. Biol., 2005)

Determinants of Protein Abundance and Translation Efficiency in S. cerevisiae. - Tamir Tuller; Martin Kupiec; Eytan Ruppin (PLoS Comput. Biol., 2007)

Co-evolutionary Models for Reconstructing Ancestral Genomic Sequences: Computational Issues and Biological Examples. - Tamir Tuller; Hadas Birin; Martin Kupiec; Eytan Ruppin (RECOMB-CG, 2009)

Higher-Order Genomic Organization of Cellular Functions in Yeast. - Tamir Tuller; Udi Rubinstein; Dani Bar; Michael Gurevich; Eytan Ruppin; Martin Kupiec (J. Comput. Biol., 2009)

Discovering local patterns of co - evolution: computational aspects and biological examples. - Tamir Tuller; Yifat Felder; Martin Kupiec (BMC Bioinform., 2010)

Reconstructing Ancestral Genomic Sequences by Co-Evolution: Formal Definitions, Computational Issues, and Biological Examples. - Tamir Tuller; Hadas Birin; Martin Kupiec; Eytan Ruppin (J. Comput. Biol., 2010)

Understanding Gene Sequence Variation in the Context of Transcription Regulation in Yeast. - Irit Gat-Viks; Renana Meller; Martin Kupiec; Ron Shamir (RECOMB, 2011)

A Ribosome Flow Model for Analyzing Translation Elongation - (Extended Abstract). - Shlomi Reuveni; Isaac Meilijson; Martin Kupiec; Eytan Ruppin; Tamir Tuller (RECOMB, 2011)

Genome-Scale Analysis of Translation Elongation with a Ribosome Flow Model. - Shlomi Reuveni; Isaac Meilijson; Martin Kupiec; Eytan Ruppin; Tamir Tuller (PLoS Comput. Biol., 2011)

Large-Scale Elucidation of Drug Response Pathways in Humans. - Yael Silberberg; Assaf Gottlieb; Martin Kupiec; Eytan Ruppin; Roded Sharan (J. Comput. Biol., 2012)

The extent of ribosome queuing in budding yeast. - Alon Diament; Anna Feldman; Elisheva Schochet; Martin Kupiec; Yoav Arava; Tamir Tuller (PLoS Comput. Biol., 2018)