| Protein database searches using compositionally adjusted substitution matrices SF Altschul, JC Wootton, EM Gertz, R Agarwala, A Morgulis, AA Schäffer, ... The FEBS journal 272 (20), 5101-5109, 2005 | 841 | 2005 |
| Heat conduction process on community networks as a recommendation model YC Zhang, M Blattner, YK Yu Physical review letters 99 (15), 154301, 2007 | 293 | 2007 |
| Composition-based statistics and translated nucleotide searches: improving the TBLASTN module of BLAST EM Gertz, YK Yu, R Agarwala, AA Schäffer, SF Altschul BMC biology 4 (1), 41, 2006 | 216 | 2006 |
| Information filtering via iterative refinement P Laureti, L Moret, YC Zhang, YK Yu EPL (Europhysics Letters) 75 (6), 1006, 2006 | 149 | 2006 |
| PSI-BLAST pseudocounts and the minimum description length principle SF Altschul, EM Gertz, R Agarwala, AA Schäffer, YK Yu Nucleic acids research 37 (3), 815-824, 2008 | 106 | 2008 |
| The construction of amino acid substitution matrices for the comparison of proteins with non-standard compositions YK Yu, SF Altschul Bioinformatics 21 (7), 902-911, 2004 | 104 | 2004 |
| The compositional adjustment of amino acid substitution matrices YK Yu, JC Wootton, SF Altschul Proceedings of the National Academy of Sciences 100 (26), 15688-15693, 2003 | 100 | 2003 |
| Enhancing peptide identification confidence by combining search methods G Alves, WW Wu, G Wang, RF Shen, YK Yu Journal of proteome research 7 (8), 3102-3113, 2008 | 83 | 2008 |
| Retrieval accuracy, statistical significance and compositional similarity in protein sequence database searches YK Yu, EM Gertz, R Agarwala, AA Schäffer, SF Altschul Nucleic Acids Research 34 (20), 5966-5973, 2006 | 64 | 2006 |
| Magnetic signatures of ferromagnetic polarons in : Colossal magnetoresistance is not a Griffiths singularity JA Souza, JJ Neumeier, YK Yu Physical Review B 78 (1), 014436, 2008 | 56 | 2008 |
| Dimensional Crossover in the Purple Bronze CAM Dos Santos, BD White, YK Yu, JJ Neumeier, JA Souza Physical review letters 98 (26), 266405, 2007 | 55 | 2007 |
| Decoding information from noisy, redundant, and intentionally distorted sources YK Yu, YC Zhang, P Laureti, L Moret Physica A: Statistical Mechanics and its Applications 371 (2), 732-744, 2006 | 54 | 2006 |
| Statistical significance of probabilistic sequence alignment and related local hidden Markov models YK Yu, T Hwa Journal of Computational Biology 8 (3), 249-282, 2001 | 53 | 2001 |
| The construction and use of log-odds substitution scores for multiple sequence alignment SF Altschul, JC Wootton, E Zaslavsky, YK Yu PLoS computational biology 6 (7), e1000852, 2010 | 49 | 2010 |
| Method for analyzing second-order phase transitions: Application to the ferromagnetic transition of a polaronic system JA Souza, YK Yu, JJ Neumeier, H Terashita, RF Jardim Physical review letters 94 (20), 207209, 2005 | 49 | 2005 |
| Energy of an electrorheological solid calculated with inclusion of higher multipoles R Friedberg, YK Yu Physical Review B 46 (10), 6582, 1992 | 44 | 1992 |
| Energy of an electrorheological solid calculated with inclusion of higher multipoles R Friedberg, YK Yu Physical Review B 46 (10), 6582, 1992 | 44 | 1992 |
| Information flow in interaction networks A Stojmirović, YK Yu Journal of Computational Biology 14 (8), 1115-1143, 2007 | 39 | 2007 |
| Interfacial kinetic roughening with correlated noise NN Pang, YK Yu, T Halpin-Healy Physical Review E 52 (3), 3224, 1995 | 39 | 1995 |
| Exponential decay of correlations in a model for strongly disordered 2D nematic elastomers YK Yu, PL Taylor, EM Terentjev Physical review letters 81 (1), 128, 1998 | 30 | 1998 |
