Topological domain structure of the Escherichia coli chromosome L Postow, CD Hardy, J Arsuaga, NR Cozzarelli Genes & development 18 (14), 1766-1779, 2004 | 557 | 2004 |

Genomic transcriptional response to loss of chromosomal supercoiling in *Escherichia coli*BJ Peter, J Arsuaga, AM Breier, AB Khodursky, PO Brown, NR Cozzarelli Genome biology 5, 1-16, 2004 | 367 | 2004 |

Knotting probability of DNA molecules confined in restricted volumes: DNA knotting in phage capsids J Arsuaga, M Vázquez, S Trigueros, DW Sumners, J Roca Proceedings of the National Academy of Sciences 99 (8), 5373-5377, 2002 | 321 | 2002 |

DNA knots reveal a chiral organization of DNA in phage capsids J Arsuaga, M Vazquez, P McGuirk, S Trigueros, DW Sumners, J Roca Proceedings of the National Academy of Sciences 102 (26), 9165-9169, 2005 | 290 | 2005 |

Investigation of viral DNA packaging using molecular mechanics models J Arsuaga, RKZ Tan, M Vazquez, SC Harvey Biophysical chemistry 101, 475-484, 2002 | 152 | 2002 |

Chromosomes are predominantly located randomly with respect to each other in interphase human cells MN Cornforth, KM Greulich-Bode, BD Loucas, J Arsuaga, M Vázquez, ... The Journal of cell biology 159 (2), 237-244, 2002 | 128 | 2002 |

Novel display of knotted DNA molecules by two-dimensional gel electrophoresis S Trigueros, J Arsuaga, ME Vazquez, DW Sumners, J Roca Nucleic acids research 29 (13), e67-e67, 2001 | 93 | 2001 |

Bounds for the minimum step number of knots in the simple cubic lattice R Scharein, K Ishihara, J Arsuaga, Y Diao, K Shimokawa, M Vazquez Journal of Physics A: Mathematical and Theoretical 42 (47), 475006, 2009 | 57 | 2009 |

Characterization of breast cancer by array comparative genomic hybridization J Climent, JL Garcia, JH Mao, J Arsuaga, J Perez-Losada Biochemistry and Cell Biology 85 (4), 497-508, 2007 | 51 | 2007 |

Applications of computational homology to the analysis of treatment response in breast cancer patients D DeWoskin, J Climent, I Cruz-White, M Vazquez, C Park, J Arsuaga Topology and its Applications 157 (1), 157-164, 2010 | 48 | 2010 |

Random state transitions of knots: a first step towards modeling unknotting by type II topoisomerases X Hua, D Nguyen, B Raghavan, J Arsuaga, M Vazquez Topology and its Applications 154 (7), 1381-1397, 2007 | 46 | 2007 |

Linking of uniform random polygons in confined spaces J Arsuaga, T Blackstone, Y Diao, E Karadayi, M Saito Journal of Physics A: Mathematical and Theoretical 40 (9), 1925, 2007 | 46 | 2007 |

Chromosome spatial clustering inferred from radiogenic aberrations J Arsuaga, KM Greulich‐Bode, M Vazquez, M Bruckner, P Hahnfeldt, ... International journal of radiation biology 80 (7), 507-515, 2004 | 44 | 2004 |

The Rabl configuration limits topological entanglement of chromosomes in budding yeast M Pouokam, B Cruz, S Burgess, MR Segal, M Vazquez, J Arsuaga Scientific reports 9 (1), 6795, 2019 | 38 | 2019 |

The effects of density on the topological structure of the mitochondrial DNA from trypanosomes Y Diao, K Hinson, R Kaplan, M Vazquez, J Arsuaga Journal of mathematical biology 64, 1087-1108, 2012 | 33 | 2012 |

On the mean and variance of the writhe of random polygons J Portillo, Y Diao, R Scharein, J Arsuaga, M Vazquez Journal of Physics A: Mathematical and Theoretical 44 (27), 275004, 2011 | 31 | 2011 |

A fast ergodic algorithm for generating ensembles of equilateral random polygons R Varela, K Hinson, J Arsuaga, Y Diao Journal of Physics A: Mathematical and Theoretical 42 (9), 095204, 2009 | 30 | 2009 |

Reproducibility of 3D chromatin configuration reconstructions MR Segal, H Xiong, D Capurso, M Vazquez, J Arsuaga Biostatistics 15 (3), 442-456, 2014 | 28 | 2014 |

DNA knotting in spooling like conformations in bacteriophages J Arsuaga, Y Diao Computational and Mathematical Methods in Medicine 9 (3-4), 303-316, 2008 | 27 | 2008 |

Orientation of DNA minicircles balances density and topological complexity in kinetoplast DNA Y Diao, V Rodriguez, M Klingbeil, J Arsuaga Plos one 10 (6), e0130998, 2015 | 24 | 2015 |