| Randomization of presence–absence matrices: comments and new algorithms I Miklós, J Podani Ecology 85 (1), 86-92, 2004 | 322 | 2004 |
| Dynamics of genome rearrangement in bacterial populations AE Darling, I Miklós, MA Ragan PLoS genetics 4 (7), e1000128, 2008 | 277 | 2008 |
| Bayesian coestimation of phylogeny and sequence alignment G Lunter, I Miklós, A Drummond, JL Jensen, J Hein Bmc Bioinformatics 6, 1-10, 2005 | 211 | 2005 |
| Epigenetic inheritance, genetic assimilation and speciation C Pál, I Miklós Journal of theoretical biology 200 (1), 19-37, 1999 | 182 | 1999 |
| A “long indel” model for evolutionary sequence alignment I Miklós, GA Lunter, I Holmes Molecular Biology and Evolution 21 (3), 529-540, 2004 | 174 | 2004 |
| Resemblance coefficients and the horseshoe effect in principal coordinates analysis J Podani, I Miklós Ecology 83 (12), 3331-3343, 2002 | 165 | 2002 |
| Streamlining and large ancestral genomes in Archaea inferred with a phylogenetic birth-and-death model M Csűrös, I Miklós Molecular biology and evolution 26 (9), 2087-2095, 2009 | 142 | 2009 |
| StatAlign: an extendable software package for joint Bayesian estimation of alignments and evolutionary trees Á Novák, I Miklós, R Lyngsø, J Hein Bioinformatics 24 (20), 2403-2404, 2008 | 120 | 2008 |
| Statistical evidence for conserved, local secondary structure in the coding regions of eukaryotic mRNAs and pre-mRNAs IM Meyer, I Miklos Nucleic acids research 33 (19), 6338-6348, 2005 | 111 | 2005 |
| Co-transcriptional folding is encoded within RNA genes IM Meyer, I Miklos BMC molecular biology 5, 1-10, 2004 | 100 | 2004 |
| Degree-based graph construction H Kim, Z Toroczkai, PL Erdős, I Miklós, LA Székely Journal of Physics A: Mathematical and Theoretical 42 (39), 392001, 2009 | 99 | 2009 |
| SimulFold: simultaneously inferring RNA structures including pseudoknots, alignments, and trees using a Bayesian MCMC framework IM Meyer, I Miklós PLoS computational biology 3 (8), e149, 2007 | 99 | 2007 |
| A simple Havel-Hakimi type algorithm to realize graphical degree sequences of directed graphs PL Erdős, I Miklós, Z Toroczkai arXiv preprint arXiv:0905.4913, 2009 | 83 | 2009 |
| A probabilistic model for gene content evolution with duplication, loss, and horizontal transfer M Csűrös, I Miklós Research in Computational Molecular Biology: 10th Annual International …, 2006 | 73 | 2006 |
| Towards random uniform sampling of bipartite graphs with given degree sequence PL Erdös, I Miklós, L Soukup arXiv preprint arXiv:1004.2612, 2010 | 70 | 2010 |
| An efficient algorithm for statistical multiple alignment on arbitrary phylogenetic trees GA Lunter, I Miklós, YS Song, J Hein Journal of Computational Biology 10 (6), 869-889, 2003 | 70 | 2003 |
| Statistical alignment: recent progress, new applications, and challenges R Nielsen, G Lunter, AJ Drummond, I Miklós, J Hein Statistical methods in molecular evolution, 375-405, 2005 | 60 | 2005 |
| A linear memory algorithm for Baum-Welch training I Miklós, IM Meyer BMC bioinformatics 6, 1-8, 2005 | 55 | 2005 |
| Exact sampling of graphs with prescribed degree correlations KE Bassler, CI Del Genio, PL Erdős, I Miklós, Z Toroczkai New Journal of Physics 17 (8), 083052, 2015 | 54 | 2015 |
| The mixing time of switch Markov chains: a unified approach PL Erdős, C Greenhill, TR Mezei, I Miklós, D Soltész, L Soukup European Journal of Combinatorics 99, 103421, 2022 | 42* | 2022 |
