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
1385 2005 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
570 2006 Heat conduction process on community networks as a recommendation model YC Zhang, M Blattner, YK Yu
Physical review letters 99 (15), 154301, 2007
353 2007 Information filtering via iterative refinement P Laureti, L Moret, YC Zhang, YK Yu
EPL (Europhysics Letters) 75 (6), 1006, 2006
192 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
160 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
121 2004 The Compositional Adjustment of Amino Acid Substitution Matrices YK Yu, J Wootton, S Altschul
APS 2004, A9. 001, 2004
112 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
112 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
90 2008 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
80 2010 Magnetic signatures of ferromagnetic polarons in JA Souza, JJ Neumeier, YK Yu
Physical Review B 78 (1), 014436, 2008
66 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
65 2006 Dimensional Crossover in the Purple Bronze CAM Dos Santos, BD White, YK Yu, JJ Neumeier, JA Souza
Physical review letters 98 (26), 266405, 2007
64 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
64 2006 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
58 2005 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
58 2001 Information flow in interaction networks A Stojmirović, YK Yu
Journal of Computational Biology 14 (8), 1115-1143, 2007
50 2007 Energy of an electrorheological solid calculated with inclusion of higher multipoles R Friedberg, YK Yu
Physical Review B 46 (10), 6582, 1992
48 1992 Energy of an electrorheological solid calculated with inclusion of higher multipoles R Friedberg, YK Yu
Physical Review B 46 (10), 6582, 1992
48 1992 Accuracy evaluation of the unified P-value from combining correlated P-values G Alves, YK Yu
PloS one 9 (3), e91225, 2014
47 2014 