Publications

Papers

• Gerstung, M., Beisel, C., Rechsteiner, M., Wild, P., Schraml, P., Moch, H., and Beerenwinkel, N. (2012). Reliable detection of subclonal single-nucleotide variants in tumor cell populations. Nat Commun, in the press.
  
• Gerstung M, Eriksson N, Lin J, Vogelstein B, and Beerenwinkel N (2011). The temporal order of genetic and pathway alterations in tumorigenesis. PLoS ONE 6(11): e27136. doi:10.1371/journal.pone.0027136.
  
• {Ambatipudi S, Gerstung M}, Pandey MK, Samant T, Patil A, Kane S, Desai RS, Schäffer AA, Beerenwinkel N, and Mahimkar MB (2012). Genome-wide expression and copy-number analysis identifies driver genes in gingivobuccal cancers. Genes Chromosomes and Cancer 51(2):161-73. doi.org/10.1002/gcc.20940
  
• Gerstung M, Nakhoul H, Beerenwinkel N (in the press). Evolutionary games with affine fitness functions: Applications to cancer. Dynamic Games and Applications, 1(3):370–385. doi:10.1007/s13235-011-0029-0
  
• Ambatipudi S, Gerstung M, Gowda R, Pai P, Borges A, Schäffer AA, Beerenwinkel N, Mahimkar MB (2011). Genomic profiling of advanced-stage oral cancers reveals chromosome 11q alterations as markers of poor clinical outcome. PLoS ONE 6(2): e17250. doi:10.1371/journal.pone.0017250
• Enderle D, Beisel C, Stadler MB, Gerstung M, Athri P, Paro R (2011). Polycomb preferentially targets stalled promoters of coding and non-coding transcripts. Genome Res, 21(2):216-26.
• Pathare S, Gerstung M, Beerenwinkel N, Schäffer AA, Kannan S, Pai P, Pathak A, Borges A, Mahimkar MB (2011). Clinicopathological and prognostic implications of genetic alterations in oral cancers. Oncology Letters, 2(3):445-451.
• Gerstung M and Beerenwinkel N (2010). Waiting time models of cancer progression. Math Pop Stud 17:115-135.
• Gerstung M, Baudis M, Moch H, Beerenwinkel N (2009). Quantifying cancer progression with conjunctive Bayesian networks. Bioinformatics 25:2809-2815.
  
• Gerstung M, Timmer J, Fleck C (2009). Noisy signaling through promoter logic gates. Physical Review E, 79:011923.
  
• Geier F, Lohmann J U, Gerstung M et al. (2008). A quantitative and dynamic model for plant stem cell regulation. PLoS ONE 3(10):e3553. doi:10.1371/journal.pone.0003553
• Anastasiou E, Kenz S, Gerstung M et al. (2007). Control of plant organ size by KLUH/CYP78A5-dependent intercellular signaling. Dev Cell 13:843-56.

Talks

• Reliable detection of subclonal single-nucleotide variants in tumors with deepSNV. EMBL, Mar 14, 2012.
  
• Reliable detection of subclonal single-nucleotide variants in tumor cell populations. SIB days, Biel, Jan 30, 2012.
  
• Detecting intra-tumor heterogeneity with ultra-deep sequencing, 1st International SystemsX.ch Conference, Basel, Oct 24, 2011.
  
• Revealing Intra-Tumor Heterogeneity with Ultra-Deep Sequencing, Keystone Symposium: Changing Landscape of the Cancer Genome, Boston, MA, Jun 20-24, 2011.
• Revealing Intra-Tumor Heterogeneity with Ultra-Deep Sequencing, CCCB Seminar, Dana-Farber Cancer Center, Boston, MA, Jun 22, 2011.
• A test for low-frequency mutations in ultra-deep sequencing data of heterogeneous tumors. Statistical Challenges and Biomedical Applications of Deep Sequencing Data, Monte Verita, Ascona, Switzerland, Jun 5–10, 2011
  
• Identification of rare clonal variants in an evolving carcinoma. All-SystemsX-day, Geneva, Nov 01, 2010.
• Ultra-deep sequencing of a tumor cell population. Zurich Interaction Seminar, Apr 26, 2010.
  
• Estimating Pathways of Carcinogenesis. VICBC Workshop: Current Challenges in Oncology through the Mathematical Looking Glass, Toronto, Aug 2-6, 2008.

Posters

• Revealing Intra-Tumor Heterogeneity with Ultra-Deep Sequencing, Keystone Symposium: Changing Landscape of the Cancer Genome, Boston, MA, Jun 20-24, 2011.
• Genetic diversity in an evolving carcinoma revealed by ultra-deep sequencing. RECOMB Computational Cancer Biology Satellite Meeting, Oslo, Jun 24-25 2010.
  
• Estimating Pathways of Carcinogenesis, Society of Mathematical Biology Conference, Jul 30 - Aug 2, 2008.

Theses

• Gerstung, Moritz (2012). Studies in computational cancer genomics. PhD thesis, ETH Zurich, doi:10.3929/ethz-a-007128590
• On the effect of external fluctuations in transcription factor - DNA interaction. Master thesis (Diplomarbeit), University of Freiburg, 2007.