{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,8,19]],"date-time":"2024-08-19T17:07:18Z","timestamp":1724087238907},"reference-count":40,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2009,1,7]],"date-time":"2009-01-07T00:00:00Z","timestamp":1231286400000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Algorithms Mol Biol"],"published-print":{"date-parts":[[2009,12]]},"DOI":"10.1186\/1748-7188-4-1","type":"journal-article","created":{"date-parts":[[2009,1,7]],"date-time":"2009-01-07T19:14:21Z","timestamp":1231355661000},"source":"Crossref","is-referenced-by-count":8,"title":["Auto-validating von Neumann rejection sampling from small phylogenetic tree spaces"],"prefix":"10.1186","volume":"4","author":[{"given":"Raazesh","family":"Sainudiin","sequence":"first","affiliation":[]},{"given":"Thomas","family":"York","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2009,1,7]]},"reference":[{"issue":"4","key":"58_CR1","doi-asserted-by":"publisher","first-page":"312","DOI":"10.1214\/ss\/1015346317","volume":"16","author":"G Jones","year":"2001","unstructured":"Jones G, Hobert J: Honest exploration of intractable probability distributions via Markov chain Monte Carlo. Statistical Science. 2001, 16 (4): 312-334. 10.1214\/ss\/1015346317.","journal-title":"Statistical Science"},{"key":"58_CR2","doi-asserted-by":"publisher","first-page":"2207","DOI":"10.1126\/science.1115493","volume":"309","author":"E Mossel","year":"2005","unstructured":"Mossel E, Vigoda E: Phylogenetic MCMC algorithms are misleading on mixtures of trees. Science. 2005, 309: 2207-2209.","journal-title":"Science"},{"key":"58_CR3","volume-title":"John Von Neumann, Collected Works","author":"J von Neumann","year":"1963","unstructured":"von Neumann J: Various techniques used in connection with random digits. John Von Neumann, Collected Works. 1963, V: Oxford University Press"},{"key":"58_CR4","doi-asserted-by":"publisher","first-page":"253","DOI":"10.1145\/355744.355749","volume":"3","author":"A Walker","year":"1977","unstructured":"Walker A: An efficient method for generating discrete random variables with general distributions. ACM Trans on Mathematical Software. 1977, 3: 253-256. 10.1145\/355744.355749.","journal-title":"ACM Trans on Mathematical Software"},{"key":"58_CR5","volume-title":"pHd dissertation","author":"R Sainudiin","year":"2005","unstructured":"Sainudiin R: Machine interval experiments. pHd dissertation. 2005, Cornell University, Ithaca, New York"},{"key":"58_CR6","volume-title":"Interval analysis","author":"R Moore","year":"1967","unstructured":"Moore R: Interval analysis. 1967, Prentice-Hall"},{"key":"58_CR7","doi-asserted-by":"crossref","DOI":"10.1093\/oso\/9780198509424.001.0001","volume-title":"Phylogenetics","author":"C Semple","year":"2003","unstructured":"Semple C, Steel M: Phylogenetics. 2003, Oxford University Press"},{"key":"58_CR8","volume-title":"Inferring phylogenies","author":"J Felsenstein","year":"2003","unstructured":"Felsenstein J: Inferring phylogenies. 2003, Sunderland, MA: Sinauer Associates"},{"key":"58_CR9","doi-asserted-by":"publisher","DOI":"10.1093\/acprof:oso\/9780198567028.001.0001","volume-title":"Computational molecular evolution","author":"Z Yang","year":"2006","unstructured":"Yang Z: Computational molecular evolution. 2006, UK: Oxford University Press"},{"key":"58_CR10","doi-asserted-by":"publisher","DOI":"10.1137\/1.9781611970906","volume-title":"Methods and applications of interval analysis","author":"R Moore","year":"1979","unstructured":"Moore R: Methods and applications of interval analysis. 1979, Philadelphia, Pennsylvania: SIAM"},{"key":"58_CR11","volume-title":"An introduction to interval computations","author":"G Alefeld","year":"1983","unstructured":"Alefeld G, Herzberger J: An introduction to interval computations. 1983, Academic press"},{"key":"58_CR12","volume-title":"C++ toolbox for verified computing: basic numerical problems","author":"R Hammer","year":"1995","unstructured":"Hammer R, Hocks M, Kulisch U, Ratz D: C++ toolbox for verified computing: basic numerical problems. 1995, Springer-Verlag"},{"key":"58_CR13","volume-title":"Perspectives on encolsure methods","year":"2001","unstructured":"Kulisch U, Lohner R, Facius A, : Perspectives on encolsure methods. 2001, Springer-Verlag"},{"key":"58_CR14","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1145\/272991.272995","volume":"8","author":"M Matsumoto","year":"1998","unstructured":"Matsumoto M, Nishimura T: Mersenne Twister: A 623-dimensionally equidistributed uniform pseudo-random number generator. ACM Trans Model Comput Simul. 1998, 8: 3-30. 10.1145\/272991.272995.","journal-title":"ACM Trans Model Comput Simul"},{"key":"58_CR15","doi-asserted-by":"publisher","DOI":"10.1017\/CBO9781139164795","volume-title":"Weighing the Odds: A Course in Probability and Statistics","author":"D Williams","year":"2001","unstructured":"Williams D: Weighing the Odds: A Course in Probability and Statistics. 2001, Cambridge University Press"},{"key":"58_CR16","doi-asserted-by":"publisher","first-page":"368","DOI":"10.1007\/BF01734359","volume":"17","author":"J Felsenstein","year":"1981","unstructured":"Felsenstein J: Evolutionary trees from DNA sequences: a maximum likelihood approach. Jnl Mol Evol. 1981, 17: 368-376. 10.1007\/BF01734359.","journal-title":"Jnl Mol Evol"},{"key":"58_CR17","doi-asserted-by":"publisher","first-page":"109","DOI":"10.1098\/rspb.2000.0974","volume":"267","author":"Z Yang","year":"2000","unstructured":"Yang Z: Complexity of the simplest phylogenetic estimation problem. Proceedings Royal Soc London B Biol Sci. 2000, 267: 109-119. 10.1098\/rspb.2000.0974.","journal-title":"Proceedings Royal Soc London B Biol Sci"},{"key":"58_CR18","doi-asserted-by":"publisher","first-page":"410","DOI":"10.1214\/aoap\/1019487349","volume":"10","author":"W Evans","year":"2000","unstructured":"Evans W, Kenyon C, Peres Y, Schulman L: Broadcasting on trees and the Ising model. Advances in Applied Probability. 2000, 10: 410-433. 10.1214\/aoap\/1019487349.","journal-title":"Advances in Applied Probability"},{"key":"58_CR19","first-page":"1","volume-title":"Statistical decision theory and related topics","author":"J Neyman","year":"1971","unstructured":"Neyman J: Molecular studies of evolution: a source of novel statistical problems. Statistical decision theory and related topics. Edited by: Gupta S, Yackel J. 1971, 1-27. New York Academy Press"},{"key":"58_CR20","doi-asserted-by":"publisher","first-page":"21","DOI":"10.1016\/B978-1-4832-3211-9.50009-7","volume-title":"Mammalian Protein Metabolism","author":"T Jukes","year":"1969","unstructured":"Jukes T, Cantor C: Evolution of protein molecules. Mammalian Protein Metabolism. Edited by: Munro H. 1969, 21-32. New York Academic Press"},{"key":"58_CR21","doi-asserted-by":"publisher","first-page":"261","DOI":"10.1007\/BF02100082","volume":"27","author":"N Saitou","year":"1988","unstructured":"Saitou N: Property and efficiency of the maximum likelihood method for molecular phylogeny. Jnl Mol Evol. 1988, 27: 261-273. 10.1007\/BF02100082.","journal-title":"Jnl Mol Evol"},{"key":"58_CR22","doi-asserted-by":"publisher","first-page":"329","DOI":"10.1093\/sysbio\/43.3.329","volume":"43","author":"Z Yang","year":"1994","unstructured":"Yang Z: Statistical properties of the maximum likelihood method of phylogenetic estimation and comparison with distance matrix methods. Syst Biol. 1994, 43: 329-342. 10.2307\/2413672.","journal-title":"Syst Biol"},{"issue":"4","key":"58_CR23","doi-asserted-by":"publisher","first-page":"389","DOI":"10.1007\/s10208-004-0156-8","volume":"5","author":"S Hosten","year":"2005","unstructured":"Hosten S, Khetan A, Sturmfels B: Solving the likelihood equations. Found Comput Math. 2005, 5 (4): 389-407. 10.1007\/s10208-004-0156-8.","journal-title":"Found Comput Math"},{"key":"58_CR24","doi-asserted-by":"publisher","first-page":"291","DOI":"10.1017\/CBO9780511610684.019","volume-title":"Algebraic statistics for computational biology","author":"M Casanellas","year":"2005","unstructured":"Casanellas M, Garcia L, Sullivant S: Catalog of small trees. Algebraic statistics for computational biology. Edited by: Pachter L, Sturmfels B. 2005, 291-304. Cambridge University Press"},{"key":"58_CR25","doi-asserted-by":"publisher","first-page":"160","DOI":"10.1007\/BF02101694","volume":"22","author":"M Hasegawa","year":"1985","unstructured":"Hasegawa M, Kishino H, Yano T: Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Jnl Mol Evol. 1985, 22: 160-174. 10.1007\/BF02101694.","journal-title":"Jnl Mol Evol"},{"key":"58_CR26","doi-asserted-by":"publisher","first-page":"359","DOI":"10.1017\/CBO9780511610684.024","volume-title":"Algebraic statistics for computational biology","author":"R Sainudiin","year":"2005","unstructured":"Sainudiin R, Yoshida R: Applications of interval methods to phylogenetic trees. Algebraic statistics for computational biology. Edited by: Pachter L, Sturmfels B. 2005, 359-374. Cambridge University Press"},{"key":"58_CR27","doi-asserted-by":"publisher","first-page":"225","DOI":"10.1007\/BF01734101","volume":"18","author":"W Brown","year":"1982","unstructured":"Brown W, Prager E, Wang A, Wilson A: Mitochondrial DNA sequences of primates, tempo and mode of evolution. Jnl Mol Evol. 1982, 18: 225-239. 10.1007\/BF01734101.","journal-title":"Jnl Mol Evol"},{"key":"58_CR28","doi-asserted-by":"publisher","first-page":"37","DOI":"10.1145\/366193.366228","volume":"6","author":"G Marsaglia","year":"1963","unstructured":"Marsaglia G: Generating discrete random numbers in a computer. Comm ACM. 1963, 6: 37-38. 10.1145\/366193.366228.","journal-title":"Comm ACM"},{"key":"58_CR29","volume-title":"GNU Scientific Library Reference Manual","author":"M Galassi","year":"2003","unstructured":"Galassi M, Davies J, Theiler J, Gough B, Jungman G, Booth M, Rossi F: GNU Scientific Library Reference Manual. 2003, Network Theory Ltd, 2, http:\/\/www.gnu.org\/software\/gsl\/","edition":"2"},{"key":"58_CR30","doi-asserted-by":"publisher","first-page":"15","DOI":"10.1007\/978-3-540-24738-8_2","volume-title":"Numerical software with result verification, of Lecture notes in computer science","author":"Hofschuster","year":"2004","unstructured":"Hofschuster , Kr\u00e4mer : C-XSC 2.0: A C++ library for extended scientific computing. Numerical software with result verification, of Lecture notes in computer science. Edited by: Alt R, Frommer A, Kearfott R, Luther W. 2004, 2991: 15-35. Springer-Verlag"},{"key":"58_CR31","doi-asserted-by":"publisher","first-page":"304","DOI":"10.1007\/BF02338839","volume":"43","author":"B Rannala","year":"1996","unstructured":"Rannala B, Yang Z: Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference. Jnl Mol Evol. 1996, 43: 304-311. 10.1007\/BF02338839.","journal-title":"Jnl Mol Evol"},{"key":"58_CR32","doi-asserted-by":"publisher","first-page":"455","DOI":"10.1080\/10635150590945313","volume":"54","author":"Z Yang","year":"2005","unstructured":"Yang Z, Rannala B: Branch-length prior in uences Bayesian posterior probability of phylogeny. Syst Biol. 2005, 54: 455-470.","journal-title":"Syst Biol"},{"key":"58_CR33","doi-asserted-by":"publisher","first-page":"330","DOI":"10.1038\/nature05336","volume":"444","author":"R Green","year":"2006","unstructured":"Green R, Krause J, Ptak S, Briggs A, Ronan M, Simons J, Du L, Egholm M, Rothberg J, Paunovic M, P\u00e4\u00e4bo S: Analysis of one million base pairs of Neandertal DNA. Nature. 2006, 444: 330-336.","journal-title":"Nature"},{"key":"58_CR34","doi-asserted-by":"publisher","first-page":"13429","DOI":"10.1073\/pnas.93.23.13429","volume":"93","author":"B Efron","year":"1996","unstructured":"Efron B, Halloran E, Holmes S: Bootstrap confidence levels for phylogenetic trees. Proc Natl Acad Sci. 1996, 93: 13429-13429.","journal-title":"Proc Natl Acad Sci"},{"key":"58_CR35","doi-asserted-by":"publisher","first-page":"337","DOI":"10.2307\/2347565","volume":"41","author":"W Gilks","year":"1992","unstructured":"Gilks W, Wild P: Adaptive rejection sampling for Gibbs sampling. Applied Statistics. 1992, 41: 337-348. 10.2307\/2347565.","journal-title":"Applied Statistics"},{"key":"58_CR36","doi-asserted-by":"publisher","first-page":"50","DOI":"10.1007\/978-3-7091-6282-8","volume-title":"Perspectives on encolsure methods","author":"U Kulisch","year":"2001","unstructured":"Kulisch U: Advanced arithmetic for the digital computer, interval arithmetic revisited. Perspectives on encolsure methods. Edited by: Kulisch U, Lohner R, Facius A. 2001, 50-70. Springer-Verlag"},{"key":"58_CR37","volume-title":"Auto-validating numerical methods","author":"W Tucker","year":"2004","unstructured":"Tucker W: Auto-validating numerical methods. 2004, Lecture notes, Uppsala University"},{"key":"58_CR38","volume-title":"Applied interval analysis: with examples in parameter and state estimation, robust control and robotics","author":"L Jaulin","year":"2004","unstructured":"Jaulin L, Kieffer M, Didrit O, Walter E: Applied interval analysis: with examples in parameter and state estimation, robust control and robotics. 2004, Springer-Verlag"},{"key":"58_CR39","doi-asserted-by":"publisher","first-page":"964","DOI":"10.1093\/oxfordjournals.molbev.a025664","volume":"13","author":"K Strimmer","year":"1996","unstructured":"Strimmer K, von Haeseler A: Quartet puzzling: A quartet maximum likelihood method for reconstructing tree topologies. Mol Biol Evol. 1996, 13: 964-969.","journal-title":"Mol Biol Evol"},{"key":"58_CR40","doi-asserted-by":"publisher","first-page":"491","DOI":"10.1093\/molbev\/msj059","volume":"23","author":"D Levy","year":"2006","unstructured":"Levy D, Yoshida R, Pachter L: Beyond pairwise distances: neighbor joining with phylogenetic diversity estimates. Mol Biol Evol. 2006, 23: 491-498.","journal-title":"Mol Biol Evol"}],"container-title":["Algorithms for Molecular Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1748-7188-4-1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1748-7188-4-1\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1748-7188-4-1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,3,8]],"date-time":"2024-03-08T20:41:34Z","timestamp":1709930494000},"score":1,"resource":{"primary":{"URL":"https:\/\/almob.biomedcentral.com\/articles\/10.1186\/1748-7188-4-1"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2009,1,7]]},"references-count":40,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2009,12]]}},"alternative-id":["58"],"URL":"https:\/\/doi.org\/10.1186\/1748-7188-4-1","relation":{},"ISSN":["1748-7188"],"issn-type":[{"value":"1748-7188","type":"electronic"}],"subject":[],"published":{"date-parts":[[2009,1,7]]},"article-number":"1"}}