TY - JOUR AU - Strydom, D. J. AU - Fett, J. W. AU - Lobb, R. R. AU - Alderman, E. M. AU - Bethune, J. L. AU - Riordan, J. F. AU - Vallee, B. L. PY - 1985 DA - 1985// TI - Amino acid sequence of human tumor derived angiogenin JO - Biochemistry VL - 24 UR - https://doi.org/10.1021/bi00341a031 DO - 10.1021/bi00341a031 ID - Strydom1985 ER - TY - CHAP AU - Beintema, J. J. AU - Breukelman, H. J. AU - Carsana, A. AU - Furia, A. PY - 1997 DA - 1997// TI - Evolution of vertebrates BT - Ribonucleases: Structure and Function PB - Academic Press New York CY - New York ID - Beintema1997 ER - TY - JOUR AU - Adams, S. A. AU - Subramanian, V. PY - 1999 DA - 1999// TI - The angiogenins: an emerging family of ribonuclease related proteins with diverse cellular functions JO - Angiogenesis VL - 3 UR - https://doi.org/10.1023/A:1009015512200 DO - 10.1023/A:1009015512200 ID - Adams1999 ER - TY - CHAP AU - Riordan, J. F. PY - 1997 DA - 1997// TI - Structure and function of angiogenin BT - Ribonucleases: Structure and Function PB - Academic Press New York CY - New York ID - Riordan1997 ER - TY - JOUR AU - Tello-Montoliu, A. AU - Patel, J. V. AU - Lip, G. Y. PY - 2006 DA - 2006// TI - Angiogenin: a review of the pathophysiology and potential clinical applications JO - J Thromb Haemost VL - 4 UR - https://doi.org/10.1111/j.1538-7836.2006.01995.x DO - 10.1111/j.1538-7836.2006.01995.x ID - Tello-Montoliu2006 ER - TY - JOUR AU - Fett, J. W. AU - Olson, K. A. AU - Rybak, S. M. PY - 1994 DA - 1994// TI - A monoclonal antibody to human angiogenin. Inhibition of ribonucleolytic and angiogenic activities and localization of the antigenic epitope JO - Biochemistry VL - 33 UR - https://doi.org/10.1021/bi00184a010 DO - 10.1021/bi00184a010 ID - Fett1994 ER - TY - JOUR AU - Olson, K. A. AU - French, T. C. AU - Vallee, B. L. AU - Fett, J. W. PY - 1994 DA - 1994// TI - A monoclonal antibody to human angiogenin suppresses tumor growth in athymic mice JO - Cancer Res VL - 54 ID - Olson1994 ER - TY - JOUR AU - Olson, K. A. AU - Fett, J. W. AU - French, T. C. AU - Key, M. E. AU - Vallee, B. L. PY - 1995 DA - 1995// TI - Angiogenin antagonists prevent tumor growth in vivo JO - Proc Natl Acad Sci USA VL - 92 UR - https://doi.org/10.1073/pnas.92.2.442 DO - 10.1073/pnas.92.2.442 ID - Olson1995 ER - TY - JOUR AU - Olson, K. A. AU - Byers, H. R. AU - Key, M. E. AU - Fett, J. W. PY - 2001 DA - 2001// TI - Prevention of human prostate tumor metastasis in athymic mice by antisense targeting of human angiogenin JO - Clin Cancer Res VL - 7 ID - Olson2001 ER - TY - JOUR AU - Piccoli, R. AU - Olson, K. A. AU - Vallee, B. L. AU - Fett, J. W. PY - 1998 DA - 1998// TI - Chimeric anti-angiogenin antibody cAb 26-2F inhibits the formation of human breast cancer xenografts in athymic mice JO - Proc Natl Acad Sci USA VL - 95 UR - https://doi.org/10.1073/pnas.95.8.4579 DO - 10.1073/pnas.95.8.4579 ID - Piccoli1998 ER - TY - JOUR AU - Kao, R. Y. AU - Jenkins, J. L. AU - Olson, K. A. AU - Key, M. E. AU - Fett, J. W. AU - Shapiro, R. PY - 2002 DA - 2002// TI - A small-molecule inhibitor of the ribonucleolytic activity of human angiogenin that possesses antitumor activity JO - Proc Natl Acad Sci USA VL - 99 UR - https://doi.org/10.1073/pnas.152342999 DO - 10.1073/pnas.152342999 ID - Kao2002 ER - TY - JOUR AU - Greenway, M. J. AU - Andersen, P. M. AU - Russ, C. AU - Ennis, S. AU - Cashman, S. AU - Donaghy, C. AU - Patterson, V. AU - Swingler, R. AU - Kieran, D. AU - Prehn, J. PY - 2006 DA - 2006// TI - ANG mutations segregate with familial and 'sporadic' amyotrophic lateral sclerosis JO - Nat Genet VL - 38 UR - https://doi.org/10.1038/ng1742 DO - 10.1038/ng1742 ID - Greenway2006 ER - TY - JOUR AU - Crabtree, B. AU - Thiyagarajan, N. AU - Prior, S. H. AU - Wilson, P. AU - Iyer, S. AU - Ferns, T. AU - Shapiro, R. AU - Brew, K. AU - Subramanian, V. AU - Acharya, K. R. PY - 2007 DA - 2007// TI - Characterization of human angiogenin variants implicated in amyotrophic lateral sclerosis JO - Biochemistry VL - 46 UR - https://doi.org/10.1021/bi701333h DO - 10.1021/bi701333h ID - Crabtree2007 ER - TY - JOUR AU - Wu, D. AU - Yu, W. AU - Kishikawa, H. AU - Folkerth, R. D. AU - Iafrate, A. J. AU - Shen, Y. AU - Xin, W. AU - Sims, K. AU - Hu, G. F. PY - 2007 DA - 2007// TI - Angiogenin loss-of-function mutations in amyotrophic lateral sclerosis JO - Ann Neurol VL - 62 UR - https://doi.org/10.1002/ana.21221 DO - 10.1002/ana.21221 ID - Wu2007 ER - TY - JOUR AU - Fett, J. W. AU - Strydom, D. J. AU - Lobb, R. R. AU - Alderman, E. M. AU - Bethune, J. L. AU - Riordan, J. F. AU - Vallee, B. L. PY - 1985 DA - 1985// TI - Isolation and characterization of angiogenin, an angiogenic protein from human carcinoma cells JO - Biochemistry VL - 24 UR - https://doi.org/10.1021/bi00341a030 DO - 10.1021/bi00341a030 ID - Fett1985 ER - TY - JOUR AU - Acharya, K. R. AU - Shapiro, R. AU - Allen, S. C. AU - Riordan, J. F. AU - Vallee, B. L. PY - 1994 DA - 1994// TI - Crystal structure of human angiogenin reveals the structural basis for its functional divergence from ribonuclease JO - Proc Natl Acad Sci USA VL - 91 UR - https://doi.org/10.1073/pnas.91.8.2915 DO - 10.1073/pnas.91.8.2915 ID - Acharya1994 ER - TY - JOUR AU - Shapiro, R. AU - Riordan, J. F. AU - Vallee, B. L. PY - 1986 DA - 1986// TI - Characteristic ribonucleolytic activity of human angiogenin JO - Biochemistry VL - 25 UR - https://doi.org/10.1021/bi00360a008 DO - 10.1021/bi00360a008 ID - Shapiro1986 ER - TY - JOUR AU - Shapiro, R. AU - Strydom, D. J. AU - Weremowicz, S. AU - Vallee, B. L. PY - 1988 DA - 1988// TI - Sites of modification of human angiogenin by bromoacetate at pH 5.5 JO - Biochem Biophys Res Commun VL - 156 UR - https://doi.org/10.1016/S0006-291X(88)80874-X DO - 10.1016/S0006-291X(88)80874-X ID - Shapiro1988 ER - TY - JOUR AU - Harper, J. W. AU - Vallee, B. L. PY - 1989 DA - 1989// TI - A covalent angiogenin/ribonuclease hybrid with a fourth disulfide bond generated by regional mutagenesis JO - Biochemistry VL - 28 UR - https://doi.org/10.1021/bi00430a067 DO - 10.1021/bi00430a067 ID - Harper1989 ER - TY - JOUR AU - Russo, N. AU - Shapiro, R. AU - Acharya, K. R. AU - Riordan, J. F. AU - Vallee, B. L. PY - 1994 DA - 1994// TI - Role of glutamine-117 in the ribonucleolytic activity of human angiogenin JO - Proc Natl Acad Sci USA VL - 91 UR - https://doi.org/10.1073/pnas.91.8.2920 DO - 10.1073/pnas.91.8.2920 ID - Russo1994 ER - TY - JOUR AU - Shapiro, R. PY - 1998 DA - 1998// TI - Structural features that determine the enzymatic potency and specificity of human angiogenin: threonine-80 and residues 58-70 and 116-123 JO - Biochemistry VL - 37 UR - https://doi.org/10.1021/bi9800146 DO - 10.1021/bi9800146 ID - Shapiro1998 ER - TY - JOUR AU - Holloway, D. E. AU - Chavali, G. B. AU - Hares, M. C. AU - Baker, M. D. AU - Subbarao, G. V. AU - Shapiro, R. AU - Acharya, K. R. PY - 2004 DA - 2004// TI - Crystallographic studies on structural features that determine the enzymatic specificity and potency of human angiogenin: Thr44, Thr80, and residues 38-41 JO - Biochemistry VL - 43 UR - https://doi.org/10.1021/bi035654+ DO - 10.1021/bi035654+ ID - Holloway2004 ER - TY - JOUR AU - Leonidas, D. D. AU - Shapiro, R. AU - Subbarao, G. V. AU - Russo, A. AU - Acharya, K. R. PY - 2002 DA - 2002// TI - Crystallographic studies on the role of the C-terminal segment of human angiogenin in defining enzymatic potency JO - Biochemistry VL - 41 UR - https://doi.org/10.1021/bi015768q DO - 10.1021/bi015768q ID - Leonidas2002 ER - TY - JOUR AU - Shapiro, R. AU - Fox, E. A. AU - Riordan, J. F. PY - 1989 DA - 1989// TI - Role of lysines in human angiogenin: chemical modification and site-directed mutagenesis JO - Biochemistry VL - 28 UR - https://doi.org/10.1021/bi00430a045 DO - 10.1021/bi00430a045 ID - Shapiro1989 ER - TY - JOUR AU - Shapiro, R. AU - Vallee, B. L. PY - 1989 DA - 1989// TI - Site-directed mutagenesis of histidine-13 and histidine-114 of human angiogenin. Alanine derivatives inhibit angiogenin-induced angiogenesis JO - Biochemistry VL - 28 UR - https://doi.org/10.1021/bi00444a038 DO - 10.1021/bi00444a038 ID - Shapiro1989 ER - TY - JOUR AU - Curran, T. P. AU - Shapiro, R. AU - Riordan, J. F. PY - 1993 DA - 1993// TI - Alteration of the enzymatic specificity of human angiogenin by site-directed mutagenesis JO - Biochemistry VL - 32 UR - https://doi.org/10.1021/bi00060a023 DO - 10.1021/bi00060a023 ID - Curran1993 ER - TY - JOUR AU - Russo, N. AU - Acharya, K. R. AU - Vallee, B. L. AU - Shapiro, R. PY - 1996 DA - 1996// TI - A combined kinetic and modeling study of the catalytic center subsites of human angiogenin JO - Proc Natl Acad Sci USA VL - 93 UR - https://doi.org/10.1073/pnas.93.2.804 DO - 10.1073/pnas.93.2.804 ID - Russo1996 ER - TY - JOUR AU - Hallahan, T. W. AU - Shapiro, R. AU - Vallee, B. L. PY - 1991 DA - 1991// TI - Dual site model for the organogenic activity of angiogenin JO - Proc Natl Acad Sci USA VL - 88 UR - https://doi.org/10.1073/pnas.88.6.2222 DO - 10.1073/pnas.88.6.2222 ID - Hallahan1991 ER - TY - JOUR AU - Hallahan, T. W. AU - Shapiro, R. AU - Strydom, D. J. AU - Vallee, B. L. PY - 1992 DA - 1992// TI - Importance of asparagine-61 and asparagine-109 to the angiogenic activity of human angiogenin JO - Biochemistry VL - 31 UR - https://doi.org/10.1021/bi00149a036 DO - 10.1021/bi00149a036 ID - Hallahan1992 ER - TY - JOUR AU - Moroianu, J. AU - Riordan, J. F. PY - 1994 DA - 1994// TI - Identification of the nucleolar targeting signal of human angiogenin JO - Biochem Biophys Res Commun VL - 203 UR - https://doi.org/10.1006/bbrc.1994.2391 DO - 10.1006/bbrc.1994.2391 ID - Moroianu1994 ER - TY - JOUR AU - Nobile, V. AU - Vallee, B. L. AU - Shapiro, R. PY - 1996 DA - 1996// TI - Characterization of mouse angiogenin-related protein: implications for functional studies on angiogenin JO - Proc Natl Acad Sci USA VL - 93 UR - https://doi.org/10.1073/pnas.93.9.4331 DO - 10.1073/pnas.93.9.4331 ID - Nobile1996 ER - TY - JOUR AU - Fu, X. AU - Roberts, W. G. AU - Nobile, V. AU - Shapiro, R. AU - Kamps, M. P. PY - 1999 DA - 1999// TI - mAngiogenin-3, a target gene of oncoprotein E2a-Pbx1, encodes a new angiogenic member of the angiogenin family JO - Growth Factors VL - 17 UR - https://doi.org/10.3109/08977199909103521 DO - 10.3109/08977199909103521 ID - Fu1999 ER - TY - JOUR AU - Crabtree, B. AU - Holloway, D. E. AU - Baker, M. D. AU - Acharya, K. R. AU - Subramanian, V. PY - 2007 DA - 2007// TI - Biological and structural features of murine angiogenin-4, an angiogenic protein JO - Biochemistry VL - 46 UR - https://doi.org/10.1021/bi062158n DO - 10.1021/bi062158n ID - Crabtree2007 ER - TY - JOUR AU - Brown, W. E. AU - Nobile, V. AU - Subramanian, V. AU - Shapiro, R. PY - 1995 DA - 1995// TI - The mouse angiogenin gene family: structures of an angiogenin-related protein gene and two pseudogenes JO - Genomics VL - 29 UR - https://doi.org/10.1006/geno.1995.1232 DO - 10.1006/geno.1995.1232 ID - Brown1995 ER - TY - JOUR AU - Strydom, D. J. PY - 1998 DA - 1998// TI - The angiogenins JO - Cell Mol Life Sci VL - 54 UR - https://doi.org/10.1007/s000180050210 DO - 10.1007/s000180050210 ID - Strydom1998 ER - TY - JOUR AU - Singhania, N. A. AU - Dyer, K. D. AU - Zhang, J. AU - Deming, M. S. AU - Bonville, C. A. AU - Domachowske, J. B. AU - Rosenberg, H. F. PY - 1999 DA - 1999// TI - Rapid evolution of the ribonuclease A superfamily: adaptive expansion of independent gene clusters in rats and mice JO - J Mol Evol VL - 49 UR - https://doi.org/10.1007/PL00006594 DO - 10.1007/PL00006594 ID - Singhania1999 ER - TY - JOUR AU - Cho, S. AU - Beintema, J. J. AU - Zhang, J. PY - 2005 DA - 2005// TI - The ribonuclease A superfamily of mammals and birds: identifying new members and tracing evolutionary histories JO - Genomics VL - 85 UR - https://doi.org/10.1016/j.ygeno.2004.10.008 DO - 10.1016/j.ygeno.2004.10.008 ID - Cho2005 ER - TY - JOUR AU - Osorio, D. S. AU - Antunes, A. AU - Ramos, M. J. PY - 2007 DA - 2007// TI - Structural and functional implications of positive selection at the primate angiogenin gene JO - BMC Evol Biol VL - 7 UR - https://doi.org/10.1186/1471-2148-7-167 DO - 10.1186/1471-2148-7-167 ID - Osorio2007 ER - TY - JOUR AU - Zhang, J. AU - Rosenberg, H. F. PY - 2002 DA - 2002// TI - Diversifying selection of the tumor-growth promoter angiogenin in primate evolution JO - Mol Biol Evol VL - 19 UR - https://doi.org/10.1093/oxfordjournals.molbev.a004099 DO - 10.1093/oxfordjournals.molbev.a004099 ID - Zhang2002 ER - TY - JOUR AU - Wildman, D. E. AU - Uddin, M. AU - Liu, G. AU - Grossman, L. I. AU - Goodman, M. PY - 2003 DA - 2003// TI - Implications of natural selection in shaping 99.4% nonsynonymous DNA identity between humans and chimpanzees: enlarging genus Homo JO - Proc Natl Acad Sci USA VL - 100 UR - https://doi.org/10.1073/pnas.1232172100 DO - 10.1073/pnas.1232172100 ID - Wildman2003 ER - TY - JOUR AU - Shimodaira, H. AU - Hasegawa, M. PY - 1999 DA - 1999// TI - Multiple comparisons of log-likelihoods with applications to phylogenetic inference JO - Mol Biol Evol VL - 16 UR - https://doi.org/10.1093/oxfordjournals.molbev.a026201 DO - 10.1093/oxfordjournals.molbev.a026201 ID - Shimodaira1999 ER - TY - JOUR AU - Lynch, M. AU - O'Hely, M. AU - Walsh, B. AU - Force, A. PY - 2001 DA - 2001// TI - The probability of preservation of a newly arisen gene duplicate JO - Genetics VL - 159 ID - Lynch2001 ER - TY - JOUR AU - Moroianu, J. AU - Riordan, J. F. PY - 1994 DA - 1994// TI - Nuclear translocation of angiogenin in proliferating endothelial cells is essential to its angiogenic activity JO - Proc Natl Acad Sci USA VL - 91 UR - https://doi.org/10.1073/pnas.91.5.1677 DO - 10.1073/pnas.91.5.1677 ID - Moroianu1994 ER - TY - JOUR AU - Gu, X. PY - 2001 DA - 2001// TI - Maximum-likelihood approach for gene family evolution under functional divergence JO - Mol Biol Evol VL - 18 UR - https://doi.org/10.1093/oxfordjournals.molbev.a003824 DO - 10.1093/oxfordjournals.molbev.a003824 ID - Gu2001 ER - TY - JOUR AU - Gu, X. PY - 1999 DA - 1999// TI - Statistical methods for testing functional divergence after gene duplication JO - Mol Biol Evol VL - 16 UR - https://doi.org/10.1093/oxfordjournals.molbev.a026080 DO - 10.1093/oxfordjournals.molbev.a026080 ID - Gu1999 ER - TY - CHAP AU - Ohno, S. PY - 1970 DA - 1970// BT - Evolution by Gene duplication PB - Springer-Verlag CY - Berlin UR - https://doi.org/10.1007/978-3-642-86659-3 DO - 10.1007/978-3-642-86659-3 ID - Ohno1970 ER - TY - JOUR AU - Nowak, M. A. AU - Boerlijst, M. C. AU - Cooke, J. AU - Smith, J. M. PY - 1997 DA - 1997// TI - Evolution of genetic redundancy JO - Nature VL - 388 UR - https://doi.org/10.1038/40618 DO - 10.1038/40618 ID - Nowak1997 ER - TY - JOUR AU - Lynch, M. AU - Conery, J. S. PY - 2000 DA - 2000// TI - The evolutionary fate and consequences of duplicate genes JO - Science VL - 290 UR - https://doi.org/10.1126/science.290.5494.1151 DO - 10.1126/science.290.5494.1151 ID - Lynch2000 ER - TY - JOUR AU - Innan, H. AU - Kondrashov, F. PY - 2010 DA - 2010// TI - The evolution of gene duplication: classifying and distinguishing between models JO - Nat Rev Genet VL - 11 UR - https://doi.org/10.1038/nrg2689 DO - 10.1038/nrg2689 ID - Innan2010 ER - TY - JOUR AU - Tully, D. C. AU - Fares, M. A. PY - 2009 DA - 2009// TI - Shifts in the selection-drift balance drive the evolution and epidemiology of foot-and-mouth disease virus JO - J Virol VL - 83 UR - https://doi.org/10.1128/JVI.01500-08 DO - 10.1128/JVI.01500-08 ID - Tully2009 ER - TY - JOUR AU - Bates, P. A. AU - Sternberg, M. J. PY - 1999 DA - 1999// TI - Model building by comparison at CASP3: using expert knowledge and computer automation JO - Proteins VL - 3 UR - https://doi.org/3.0.CO;2-F DO - 3.0.CO;2-F ID - Bates1999 ER - TY - JOUR AU - Contreras-Moreira, B. AU - Bates, P. A. PY - 2002 DA - 2002// TI - Domain fishing: a first step in protein comparative modelling JO - Bioinformatics VL - 18 UR - https://doi.org/10.1093/bioinformatics/18.8.1141 DO - 10.1093/bioinformatics/18.8.1141 ID - Contreras-Moreira2002 ER - TY - JOUR AU - Sicinska, W. AU - Rotkiewicz, P. PY - 2007 DA - 2007// TI - Computational analysis of the active sites in binary and ternary complexes of the vitamin D receptor JO - J Steroid Biochem Mol Biol VL - 103 UR - https://doi.org/10.1016/j.jsbmb.2006.12.077 DO - 10.1016/j.jsbmb.2006.12.077 ID - Sicinska2007 ER - TY - JOUR AU - Edgar, R. C. PY - 2004 DA - 2004// TI - MUSCLE: a multiple sequence alignment method with reduced time and space complexity JO - BMC Bioinformatics VL - 5 UR - https://doi.org/10.1186/1471-2105-5-113 DO - 10.1186/1471-2105-5-113 ID - Edgar2004 ER - TY - JOUR AU - Edgar, R. C. PY - 2004 DA - 2004// TI - MUSCLE: multiple sequence alignment with high accuracy and high throughput JO - Nucleic Acids Res VL - 32 UR - https://doi.org/10.1093/nar/gkh340 DO - 10.1093/nar/gkh340 ID - Edgar2004 ER - TY - JOUR AU - Abascal, F. AU - Zardoya, R. AU - Posada, D. PY - 2005 DA - 2005// TI - ProtTest: selection of best-fit models of protein evolution JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti263 DO - 10.1093/bioinformatics/bti263 ID - Abascal2005 ER - TY - JOUR AU - Guindon, S. AU - Gascuel, O. PY - 2003 DA - 2003// TI - A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood JO - Syst Biol VL - 52 UR - https://doi.org/10.1080/10635150390235520 DO - 10.1080/10635150390235520 ID - Guindon2003 ER - TY - JOUR AU - Akashi, H. PY - 1999 DA - 1999// TI - Inferring the fitness effects of DNA mutations from polymorphism and divergence data: statistical power to detect directional selection under stationarity and free recombination JO - Genetics VL - 151 ID - Akashi1999 ER - TY - JOUR AU - Crandall, K. A. AU - Kelsey, C. R. AU - Imamichi, H. AU - Lane, H. C. AU - Salzman, N. P. PY - 1999 DA - 1999// TI - Parallel evolution of drug resistance in HIV: failure of nonsynonymous/synonymous substitution rate ratio to detect selection JO - Mol Biol Evol VL - 16 UR - https://doi.org/10.1093/oxfordjournals.molbev.a026118 DO - 10.1093/oxfordjournals.molbev.a026118 ID - Crandall1999 ER - TY - JOUR AU - Sharp, P. M. PY - 1997 DA - 1997// TI - In search of molecular darwinism JO - Nature VL - 385 UR - https://doi.org/10.1038/385111a0 DO - 10.1038/385111a0 ID - Sharp1997 ER - TY - JOUR AU - Chamary, J. V. AU - Parmley, J. L. AU - Hurst, L. D. PY - 2006 DA - 2006// TI - Hearing silence: non-neutral evolution at synonymous sites in mammals JO - Nat Rev Genet VL - 7 UR - https://doi.org/10.1038/nrg1770 DO - 10.1038/nrg1770 ID - Chamary2006 ER - TY - JOUR AU - Mayrose, I. AU - Doron-Faigenboim, A. AU - Bacharach, E. AU - Pupko, T. PY - 2007 DA - 2007// TI - Towards realistic codon models: among site variability and dependency of synonymous and non-synonymous rates JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btm176 DO - 10.1093/bioinformatics/btm176 ID - Mayrose2007 ER - TY - JOUR AU - Parmley, J. L. AU - Chamary, J. V. AU - Hurst, L. D. PY - 2006 DA - 2006// TI - Evidence for purifying selection against synonymous mutations in mammalian exonic splicing enhancers JO - Mol Biol Evol VL - 23 UR - https://doi.org/10.1093/molbev/msj035 DO - 10.1093/molbev/msj035 ID - Parmley2006 ER - TY - JOUR AU - Resch, A. M. AU - Carmel, L. AU - Marino-Ramirez, L. AU - Ogurtsov, A. Y. AU - Shabalina, S. A. AU - Rogozin, I. B. AU - Koonin, E. V. PY - 2007 DA - 2007// TI - Widespread positive selection in synonymous sites of mammalian genes JO - Mol Biol Evol VL - 24 UR - https://doi.org/10.1093/molbev/msm100 DO - 10.1093/molbev/msm100 ID - Resch2007 ER - TY - JOUR AU - Yang, Z. PY - 2007 DA - 2007// TI - PAML 4: phylogenetic analysis by maximum likelihood JO - Mol Biol Evol VL - 24 UR - https://doi.org/10.1093/molbev/msm088 DO - 10.1093/molbev/msm088 ID - Yang2007 ER - TY - JOUR AU - Goldman, N. PY - 1994 DA - 1994// TI - Variance to mean ratio, R(t), for poisson processes on phylogenetic trees JO - Mol Phylogenet Evol VL - 3 UR - https://doi.org/10.1006/mpev.1994.1025 DO - 10.1006/mpev.1994.1025 ID - Goldman1994 ER - TY - JOUR AU - Yang, Z. PY - 1996 DA - 1996// TI - Statistical properties of a DNA sample under the finite-sites model JO - Genetics VL - 144 ID - Yang1996 ER - TY - JOUR AU - Fares, M. A. AU - Elena, S. F. AU - Ortiz, J. AU - Moya, A. AU - Barrio, E. PY - 2002 DA - 2002// TI - A sliding window-based method to detect selective constraints in protein-coding genes and its application to RNA viruses JO - J Mol Evol VL - 55 UR - https://doi.org/10.1007/s00239-002-2346-9 DO - 10.1007/s00239-002-2346-9 ID - Fares2002 ER - TY - JOUR AU - Fares, M. A. PY - 2004 DA - 2004// TI - SWAPSC: sliding window analysis procedure to detect selective constraints JO - Bioinformatics VL - 20 UR - https://doi.org/10.1093/bioinformatics/bth303 DO - 10.1093/bioinformatics/bth303 ID - Fares2004 ER - TY - JOUR AU - Li, W. H. PY - 1993 DA - 1993// TI - Unbiased estimation of the rates of synonymous and nonsynonymous substitution JO - J Mol Evol VL - 36 UR - https://doi.org/10.1007/BF02407308 DO - 10.1007/BF02407308 ID - Li1993 ER - TY - JOUR AU - Fares, M. A. AU - Travers, S. A. PY - 2006 DA - 2006// TI - A novel method for detecting intramolecular coevolution: adding a further dimension to selective constraints analyses JO - Genetics VL - 173 UR - https://doi.org/10.1534/genetics.105.053249 DO - 10.1534/genetics.105.053249 ID - Fares2006 ER - TY - JOUR AU - Fares, M. A. AU - McNally, D. PY - 2006 DA - 2006// TI - CAPS: coevolution analysis using protein sequences JO - Bioinformatics VL - 22 UR - https://doi.org/10.1093/bioinformatics/btl493 DO - 10.1093/bioinformatics/btl493 ID - Fares2006 ER - TY - JOUR AU - Travers, S. A. AU - Fares, M. A. PY - 2007 DA - 2007// TI - Functional coevolutionary networks of the Hsp70-Hop-Hsp90 system revealed through computational analyses JO - Mol Biol Evol VL - 24 UR - https://doi.org/10.1093/molbev/msm022 DO - 10.1093/molbev/msm022 ID - Travers2007 ER - TY - JOUR AU - Travers, S. A. AU - Tully, D. C. AU - McCormack, G. P. AU - Fares, M. A. PY - 2007 DA - 2007// TI - A study of the coevolutionary patterns operating within the env gene of the HIV-1 group M subtypes JO - Mol Biol Evol VL - 24 UR - https://doi.org/10.1093/molbev/msm213 DO - 10.1093/molbev/msm213 ID - Travers2007 ER - TY - JOUR AU - Henikoff, S. AU - Henikoff, J. G. PY - 1992 DA - 1992// TI - Amino acid substitution matrices from protein blocks JO - Proc Natl Acad Sci USA VL - 89 UR - https://doi.org/10.1073/pnas.89.22.10915 DO - 10.1073/pnas.89.22.10915 ID - Henikoff1992 ER - TY - CHAP AU - Westfall, P. AU - Young, S. PY - 1993 DA - 1993// BT - Resampling-based multiple testing PB - Sons CY - New York ID - Westfall1993 ER - TY - JOUR AU - Atchley, W. R. AU - Wollenberg, K. R. AU - Fitch, W. M. AU - Terhalle, W. AU - Dress, A. W. PY - 2000 DA - 2000// TI - Correlations among amino acid sites in bHLH protein domains: an information theoretic analysis JO - Mol Biol Evol VL - 17 UR - https://doi.org/10.1093/oxfordjournals.molbev.a026229 DO - 10.1093/oxfordjournals.molbev.a026229 ID - Atchley2000 ER - TY - JOUR AU - Shoemaker, B. A. AU - Zhang, D. AU - Thangudu, R. R. AU - Tyagi, M. AU - Fong, J. H. AU - Marchler-Bauer, A. AU - Bryant, S. H. AU - Madej, T. AU - Panchenko, A. R. PY - 2010 DA - 2010// TI - Inferred Biomolecular Interaction Server--a web server to analyze and predict protein interacting partners and binding sites JO - Nucleic Acids Res VL - 38 UR - https://doi.org/10.1093/nar/gkp842 DO - 10.1093/nar/gkp842 ID - Shoemaker2010 ER -