Scott Handley's Top Recommendations

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	Genome reduction in the alpha-Proteobacteria. [My Copy] Curr Opin Microbiol (11 August 2005) by Björn Sällström, Siv Ge G. Andersson posted by 5 people johanviklund operon knaseanka bjorns radek
	Genome streamlining in a cosmopolitan oceanic bacterium. [My Copy] Science, Vol. 309, No. 5738. (19 August 2005), pp. 1242-1245. by S. J. Giovannoni, H. J. Tripp, S. Givan, et al.M. Podar, K. L. Vergin, D. Baptista, L. Bibbs, J. Eads, T. H. Richardson, M. Noordewier, M. S. Rappé, J. M. Short, J. C. Carrington, E. J. Mathur posted by 6 people sanxiyn michaelbarton johanviklund knaseanka bjorns vrich
	Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. [My Copy] Nucleic acids research, Vol. 25, No. 17. (1 September 1997), pp. 3389-3402. by S. F. Altschul, T. L. Madden, A. A. Schäffer, et al.J. Zhang, Z. Zhang, W. Miller, D. J. Lipman posted by 74 people rshe niallhaslam ucbcjbm timhubbard parnell tfuji maria_hauser jbhiatt yylin mgomes BioNica idoerg pjcite swp09 kgutwin mcbla cpwardell References for 3DSim paper johanviklund daforerog nlapalu sebk tjimenez shung pwais dakelley knaseanka setar iakes miguel kaarsinogen bjorns bicko jmeppley chad_davis balajis nuke2005 eweaver david_parsons indigoviolet dullhunk robert dgront happy_manatee caporaso treangen kengg manzanita CitoJam jdelcampo aengisch rabio massivemayhem mirzazadeh azazello sujaikumar beatrizfernandez GustavoLacerda siebertm adijr viktor21614 EisenLab biomedical-nlp Microbial-Ecology Plantandetc mijam grottenolm bandrewfox edvin newton1234 mariakmejia granujilla marti CharlesM
	Computational inference of scenarios for alpha-proteobacterial genome evolution. [My Copy] Proc Natl Acad Sci U S A, Vol. 101, No. 26. (29 June 2004), pp. 9722-9727. by B. Boussau, E. O. Karlberg, A. C. Frank, B. A. Legault, S. G. Andersson posted by 4 people johanviklund knaseanka bjorns radek
	An efficient algorithm for large-scale detection of protein families [My Copy] Nucl. Acids Res., Vol. 30, No. 7. (1 April 2002), pp. 1575-1584. by A. J. Enright, S. Van Dongen, C. A. Ouzounis posted by 25 people jperkins calderonv nedwards dakelley druvus treangen carlk cgaugain johanviklund chad_davis camster operon knaseanka indigoviolet skhadar nirfriedman dgront entropy gcalda GustavoLacerda dbk-lab EisenLab hpaces RebeccaHamer Borelli
	Kalign--an accurate and fast multiple sequence alignment algorithm. [My Copy] BMC bioinformatics, Vol. 6 (2005) by Timo Lassmann, Erik L. Sonnhammer posted by 8 people maria_hauser Thaverkamp BioNica johanviklund aalibes CharlesM knaseanka Haggan
	Signature proteins that are distinctive of alpha proteobacteria. [My Copy] BMC Genomics, Vol. 6 (2005) by P. Kainth, R. S. Gupta posted by 2 people johanviklund knaseanka
	Genetic diversity in Sargasso Sea bacterioplankton. [My Copy] Nature, Vol. 345, No. 6270. (3 May 1990), pp. 60-63. by S. J. Giovannoni, T. B. Britschgi, C. L. Moyer, K. G. Field posted by 5 people johanviklund knaseanka Stenuite African_Lakes_Limnology mcox
	The genome sequence of Rickettsia prowazekii and the origin of mitochondria. [My Copy] Nature, Vol. 396, No. 6707. (12 November 1998), pp. 133-140. by S. G. Andersson, A. Zomorodipour, J. O. Andersson, et al.T. Sicheritz-Pontén, U. C. Alsmark, R. M. Podowski, A. K. Näslund, A. S. Eriksson, H. H. Winkler, C. G. Kurland posted by 4 people johanviklund raiyar knaseanka treangen
	Characterization of large-insert DNA libraries from soil for environmental genomic studies of Archaea. [My Copy] Environ Microbiol, Vol. 6, No. 9. (September 2004), pp. 970-980. by A. H. Treusch, A. Kletzin, G. Raddatz, et al.T. Ochsenreiter, A. Quaiser, G. Meurer, S. C. Schuster, C. Schleper posted by 3 people knaseanka johanviklund vrich
	Environmental Genome Shotgun Sequencing of the Sargasso Sea [My Copy] Science, Vol. 304, No. 5667. (2 April 2004), pp. 66-74. by J. Craig Venter, Karin Remington, John F. Heidelberg, et al.Aaron L. Halpern, Doug Rusch, Jonathan A. Eisen, Dongying Wu, Ian Paulsen, Karen E. Nelson, William Nelson, Derrick E. Fouts, Samuel Levy, Anthony H. Knap, Michael W. Lomas, Ken Nealson, Owen White, Jeremy Peterson, Jeff Hoffman, Rachel Parsons, Holly Baden-Tillson, Cynthia Pfannkoch, Yu-Hui Rogers, Hamilton O. Smith posted by 23 people skembel esyoun Thaverkamp jbhiatt microbiology_nijmegen kinestetika knaseanka eoghanharr johanviklund bpb jmeppley balajis eweaver AaronDarling bluto jdelcampo azazello beatrizfernandez wenhan Microbial-Ecology pradiptaray mcox vrich
	Visualization of pseudogenes in intracellular bacteria reveals the different tracks to gene destruction [My Copy] Genome Biology, Vol. 9 (26 February 2008), R42. by Hans-Henrik Fuxelius, Alistair C. Darby, Nam-Huyk Cho, Siv G. E. Andersson posted by 5 people johanviklund treangen druvus bjorns operon
	Genome Phylogenies Indicate a Meaningful alpha-Proteobacterial Phylogeny and Support A Grouping of the Mitochondria With the Rickettsiales. [My Copy] Mol Biol Evol (8 September 2005) by David A A. Fitzpatrick, Christopher J J. Creevey, James O O. McInerney posted by 3 people johanviklund bjorns Schmidtc
	Complete genome sequence of the acetic acid bacterium Gluconobacter oxydans [My Copy] Nature Biotechnology, Vol. 23, No. 2. (23 January 2005), pp. 195-200. by Christina Prust, Marc Hoffmeister, Heiko Liesegang, et al.Arnim Wiezer, Wolfgang F. Fricke, Armin Ehrenreich, Gerhard Gottschalk, Uwe Deppenmeier posted by 2 people johanviklund bjorns
	Type III protein secretion systems in bacterial pathogens of animals and plants. [My Copy] Microbiology and molecular biology reviews : MMBR, Vol. 62, No. 2. (June 1998), pp. 379-433. by C. J. Hueck posted by 5 people katholt knaseanka bjorns robert manzanita
	Complete genome sequencing of Anaplasma marginale reveals that the surface is skewed to two superfamilies of outer membrane proteins. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 3. (18 January 2005), pp. 844-849. by K. A. Brayton, L. S. Kappmeyer, D. R. Herndon, et al.M. J. Dark, D. L. Tibbals, G. H. Palmer, T. C. McGuire, D. P. Knowles posted by 2 people knaseanka bjorns
	Cultivation of the ubiquitous SAR11 marine bacterioplankton clade. [My Copy] Nature, Vol. 418, No. 6898. (8 August 2002), pp. 630-633. by M. S. Rappé, S. A. Connon, K. L. Vergin, S. J. Giovannoni posted by 6 people knaseanka bjorns madhadron jdelcampo Microbial-Ecology vrich
	Reconstruction of the proto-mitochondrial metabolism. [My Copy] Science, Vol. 301, No. 5633. (1 August 2003) by T. Gabaldón, M. A. Huynen posted by 2 people knaseanka bjorns
	The Genome Sequence of Rickettsia felis Identifies the First Putative Conjugative Plasmid in an Obligate Intracellular Parasite. [My Copy] PLoS Biol, Vol. 3, No. 8. (August 2005) by H. Ogata, P. Renesto, S. Audic, et al.C. Robert, G. Blanc, P. E. Fournier, H. Parinello, J. M. Claverie, D. Raoult posted by 2 people knaseanka bjorns
	Intracellular pathogens go extreme: genome evolution in the Rickettsiales. [My Copy] Trends Genet, Vol. 23, No. 10. (October 2007), pp. 511-520. by A. C. Darby, N. H. Cho, H. H. Fuxelius, J. Westberg, S. G. Andersson posted by 4 people druvus johanviklund treangen operon
	A robust species tree for the alphaproteobacteria. [My Copy] J Bacteriol, Vol. 189, No. 13. (July 2007), pp. 4578-4586. by K. P. Williams, B. W. Sobral, A. W. Dickerman posted by 3 people johanviklund operon cjeans
	Accelerated evolution associated with genome reduction in a free-living prokaryote. [My Copy] Genome biology, Vol. 6, No. 2. (2005) by Alexis Dufresne, Laurence Garczarek, Frédéric Partensky posted by 8 people michaelbarton johanviklund wasmith75 operon beatrizfernandez kinestetika Microbial-Ecology microbiology_nijmegen
	RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models [My Copy] Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2688-2690. by Alexandros Stamatakis posted by 8 people hryk operon jpsullivan anisbet aprasad druvus johanviklund dmp
	Horizontal gene transfer: A critical view [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 17. (19 August 2003), pp. 9658-9662. by C. G. Kurland, B. Canback, Otto G. Berg posted by 6 people aprasad Scis0000002 yonatanf johanviklund operon jmeppley
	Insights into the evolutionary process of genome degradation. [My Copy] Curr Opin Genet Dev, Vol. 9, No. 6. (December 1999), pp. 664-671. by J. O. Andersson, S. G. Andersson posted by 3 people johanviklund greger_halltorp operon
	The evolution of chronic infection strategies in the [alpha]-proteobacteria [My Copy] Nature Reviews Microbiology, Vol. 2, No. 12. (01 December 2004), pp. 933-945. by Jacques Batut, Siv G. E. Andersson, David O'Callaghan posted by 2 people johanviklund operon
	On the mechanism of the development of multiple-drug-resistant clones of Shigella. [My Copy] Japanese journal of microbiology, Vol. 4 (April 1960), pp. 219-227. by T. AKIBA, K. KOYAMA, Y. ISHIKI, S. KIMURA, T. FUKUSHIMA posted by 1 person johanviklund
	Lateral genomics. [My Copy] Trends in cell biology, Vol. 9, No. 12. (December 1999) by W. F. Doolittle posted by 1 person johanviklund
	Function of the universally conserved bacterial GTPases. [My Copy] Current opinion in microbiology, Vol. 6, No. 2. (April 2003), pp. 135-139. by C. E. Caldon, P. E. March posted by 1 person johanviklund
	SURVEY AND SUMMARY: Holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories [My Copy] Nucl. Acids Res., Vol. 28, No. 18. (15 September 2000), pp. 3417-3432. by L. Aravind, Kira S. Makarova, Eugene V. Koonin posted by 2 people robfsouza johanviklund
	Structural and functional features of the Escherichia coli hydroperoxide resistance protein OsmC. [My Copy] Protein science : a publication of the Protein Society, Vol. 12, No. 12. (December 2003), pp. 2838-2843. by J. Lesniak, W. A. Barton, D. B. Nikolov posted by 1 person johanviklund
	Bacillus subtilis RecU protein cleaves Holliday junctions and anneals single-stranded DNA. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 2. (13 January 2004), pp. 452-457. by S. Ayora, B. Carrasco, E. Doncel, R. Lurz, J. C. Alonso posted by 1 person johanviklund
	The cyanobacterial genome core and the origin of photosynthesis [My Copy] Proceedings of the National Academy of Sciences, Vol. 103, No. 35. (2006), pp. 13126-13131. by Armen Y. Mulkidjanian, Eugene V. Koonin, Kira S. Makarova, et al.Sergey L. Mekhedov, Alexander Sorokin, Yuri I. Wolf, Alexis Dufresne, Frédéric Partensky, Henry Burd, Denis Kaznadzey, Robert Haselkorn, Michael Y. Galperin posted by 2 people vpaces johanviklund
	Comparative genomics of the lactic acid bacteria [My Copy] Proceedings of the National Academy of Sciences, Vol. 103, No. 42. (17 October 2006), pp. 15611-15616. by K. Makarova, A. Slesarev, Y. Wolf, et al.A. Sorokin, B. Mirkin, E. Koonin, A. Pavlov, N. Pavlova, V. Karamychev, N. Polouchine, V. Shakhova, I. Grigoriev, Y. Lou, D. Rohksar, S. Lucas, K. Huang, D. M. Goodstein, T. Hawkins, V. Plengvidhya, D. Welker, J. Hughes, Y. Goh, A. Benson, K. Baldwin, J. H. Lee, I. Díaz-Muñiz, B. Dosti, V. Smeianov, W. Wechter, R. Barabote, G. Lorca, E. Altermann, R. Barrangou, B. Ganesan, Y. Xie, H. Rawsthorne, D. Tamir, C. Parker, F. Breidt, J. Broadbent, R. Hutkins, D. O'Sullivan, J. Steele, G. Unlu, M. Saier, T. Klaenhammer, P. Richardson, S. Kozyavkin, B. Weimer, D. Mills posted by 2 people druvus johanviklund
	Scaling laws in the functional content of genomes. [My Copy] Trends in genetics : TIG, Vol. 19, No. 9. (September 2003), pp. 479-484. by E. van Nimwegen posted by 1 person johanviklund
	Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world [My Copy] Nucl. Acids Res., Vol. 36, No. 21. (1 December 2008), pp. 6688-6719. by Eugene V. Koonin, Yuri I. Wolf posted by 13 people pkm skembel Huub_odc druvus johanviklund Centre de Recherches Interdisciplinaires sbottani microbiology_nijmegen Katje nklee barriot neils aramata
	Proteomic Analysis of Stationary Phase in the Marine Bacterium Candidatus Pelagibacter ubique. [My Copy] Applied and environmental microbiology (9 May 2008) by Sarah M M. Sowell, Angela D D. Norbeck, Mary S S. Lipton, et al.Carrie D D. Nicora, Stephen J J. Callister, Richard D D. Smith, Douglas F F. Barofsky, Stephen J J. Giovannoni posted by 2 people johanviklund alexisfjdufresne
	Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110. [My Copy] DNA research : an international journal for rapid publication of reports on genes and genomes, Vol. 9, No. 6. (31 December 2002), pp. 189-197. by T. Kaneko, Y. Nakamura, S. Sato, et al.K. Minamisawa, T. Uchiumi, S. Sasamoto, A. Watanabe, K. Idesawa, M. Iriguchi, K. Kawashima, M. Kohara, M. Matsumoto, S. Shimpo, H. Tsuruoka, T. Wada, M. Yamada, S. Tabata posted by 1 person johanviklund
	Mitochondrial Evolution [My Copy] Science, Vol. 283, No. 5407. (5 March 1999), pp. 1476-1481. by Michael W. Gray, Gertraud Burger, Franz B. Lang posted by 2 people johanviklund raiyar
	TREEFINDER: a powerful graphical analysis environment for molecular phylogenetics. [My Copy] BMC Evol Biol, Vol. 4 (28 June 2004) by G. Jobb, A. von Haeseler, K. Strimmer posted by 1 person johanviklund
	Cooperative and critical roles for both G domains in the GTPase activity and cellular function of ribosome-associated Escherichia coli EngA. [My Copy] J Bacteriol, Vol. 188, No. 22. (November 2006), pp. 7992-7996. by A. Bharat, M. Jiang, S. M. Sullivan, J. R. Maddock, E. D. Brown posted by 1 person johanviklund
	Phylogenomics and signature proteins for the alpha Proteobacteria and its main groups [My Copy] BMC Microbiology, Vol. 7 (28 November 2007), 106. by Radhey S. Gupta, Amy Mok posted by 3 people johanviklund microbiology_nijmegen Huub_odc
	Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea [My Copy] Biology Direct, Vol. 2 (27 November 2007), 33. by Kira S. Makarova, Alexander V. Sorokin, Pavel S. Novichkov, Yuri I. Wolf, Eugene V. Koonin posted by 1 person johanviklund
	eggNOG: automated construction and annotation of orthologous groups of genes. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (16 January 2008), gkm796. by Lars Juhl J. Jensen, Philippe Julien, Michael Kuhn, et al.Christian von Mering, Jean Muller, Tobias Doerks, Peer Bork posted by 9 people sjcockell yas johanviklund guhjy jmeppley maximilianh Thaverkamp hplatero larsjuhljensen
	High intraspecific recombination rate in a native population of Candidatus Pelagibacter ubique (SAR11) [My Copy] Environmental Microbiology, Vol. 9, No. 10. (October 2007), pp. 2430-2440. by Vergin, L. Kevin, Tripp, et al.H. James, Wilhelm, J. Larry, Denver, R. Dee, Rappe, S. Michael, Giovannoni, J. Stephen posted by 1 person johanviklund
	Ancient Invasions: From Endosymbionts to Organelles [My Copy] Science, Vol. 304, No. 5668. (9 April 2004), pp. 253-257. by Sabrina D. Dyall, Mark T. Brown, Patricia J. Johnson posted by 3 people maren johanviklund ricmelo
	From Gene to Organismal Phylogeny: Reconciled Trees and the Gene Tree/Species Tree Problem [My Copy] Molecular Phylogenetics and Evolution, Vol. 7, No. 2. (April 1997), pp. 231-240. by Roderic D. Page, Michael A. Charleston posted by 2 people johanviklund stajich
	A Bayesian Mixture Model for Across-Site Heterogeneities in the Amino-Acid Replacement Process [My Copy] Mol Biol Evol, Vol. 21, No. 6. (1 June 2004), pp. 1095-1109. by Nicolas Lartillot, Herve Philippe posted by 3 people johanviklund dmp redelings
	On the origin of microbial ORFans: quantifying the strength of the evidence for viral lateral transfer [My Copy] BMC Evolutionary Biology, Vol. 6 (16 August 2006), 63. by Yanbin Yin, Daniel Fischer posted by 3 people johanviklund vwchan beta
	Prokaryotic evolution in light of gene transfer. [My Copy] Mol Biol Evol, Vol. 19, No. 12. (December 2002), pp. 2226-2238. by J. P. Gogarten, W. F. Doolittle, J. G. Lawrence posted by 5 people ramiro2k johanviklund jmeppley AaronDarling Tingting
	Origin and evolution of the mitochondrial proteome. [My Copy] Microbiol Mol Biol Rev, Vol. 64, No. 4. (December 2000), pp. 786-820. by C. G. Kurland, S. G. Andersson posted by 1 person johanviklund
	A New Method of Inference of Ancestral Nucleotide and Amino Acid Sequences [My Copy] Genetics, Vol. 141, No. 4. (1 December 1995), pp. 1641-1650. by Z. Yang, S. Kumar, M. Nei posted by 6 people cmzmasek stharward pauldobson johanviklund bpb cjeans
	Mobile genetic elements: the agents of open source evolution [My Copy] Nature Reviews Microbiology, Vol. 3, No. 9. (01 September 2005), pp. 722-732. by Laura S. Frost, Raphael Leplae, Anne O. Summers, Ariane Toussaint posted by 2 people johanviklund dayjm
	The 1.2-Megabase Genome Sequence of Mimivirus [My Copy] Science, Vol. 306, No. 5700. (19 November 2004), pp. 1344-1350. by Didier Raoult, Stephane Audic, Catherine Robert, et al.Chantal Abergel, Patricia Renesto, Hiroyuki Ogata, Bernard La Scola, Marie Suzan, Jean-Michel Claverie posted by 3 people seb1 johanviklund dayjm
	Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. [My Copy] Science (New York, N.Y.), Vol. 269, No. 5223. (28 July 1995), pp. 496-512. by R. D. Fleischmann, M. D. Adams, O. White, et al.R. A. Clayton, E. F. Kirkness, A. R. Kerlavage, C. J. Bult, J. F. Tomb, B. A. Dougherty, J. M. Merrick posted by 8 people rshe azazello katholt johanviklund Cortel dgront treangen hsekiguc
	Lateral gene transfer and the nature of bacterial innovation [My Copy] Nature, Vol. 405, No. 6784. (18 May 2000), pp. 299-304. by Howard Ochman, Jeffrey G. Lawrence, Eduardo A. Groisman posted by 15 people kmachemer cambray pkm mikheyev balicea johanviklund cmzmasek ana gregdingle jmeppley Ayest treangen manzanita structural_bioinformatics Bioinformatics
	Microbial community genomics in the ocean [My Copy] Nature Reviews Microbiology, Vol. 3, No. 6. (01 June 2005), pp. 459-469. by Edward F. Delong posted by 6 people johanviklund jmeppley beatrizfernandez Microbial-Ecology rvgomes mcox
	The metagenomics of soil [My Copy] Nature Reviews Microbiology, Vol. 3, No. 6. (01 June 2005), pp. 470-478. by Rolf Daniel posted by 4 people johanviklund calamar mcox vrich
	A phylogenetic analysis of the cytochrome b and cytochrome c oxidase I genes supports an origin of mitochondria from within the Rickettsiaceae. [My Copy] Biochim Biophys Acta, Vol. 1365, No. 3. (20 July 1998), pp. 545-551. by T. Sicheritz-Pontén, C. G. Kurland, S. G. Andersson posted by 1 person johanviklund
	Common evolutionary origin of mitochondrial and rickettsial respiratory chains. [My Copy] Arch Biochem Biophys, Vol. 420, No. 1. (1 December 2003), pp. 130-141. by V. V. Emelyanov posted by 1 person johanviklund
	The fate of laterally transferred genes: life in the fast lane to adaptation or death. [My Copy] Genome Res, Vol. 16, No. 5. (May 2006), pp. 636-643. by W. Hao, G. B. Golding posted by 3 people operon knaseanka treangen
	The Wolbachia genome of Brugia malayi: endosymbiont evolution within a human pathogenic nematode. [My Copy] PLoS Biol, Vol. 3, No. 4. (April 2005) by J. Foster, M. Ganatra, I. Kamal, et al.J. Ware, K. Makarova, N. Ivanova, A. Bhattacharyya, V. Kapatral, S. Kumar, J. Posfai, T. Vincze, J. Ingram, L. Moran, A. Lapidus, M. Omelchenko, N. Kyrpides, E. Ghedin, S. Wang, E. Goltsman, V. Joukov, O. Ostrovskaya, K. Tsukerman, M. Mazur, D. Comb, E. Koonin, B. Slatko posted by 2 people operon knaseanka
	Folding DNA to create nanoscale shapes and patterns [My Copy] Nature, Vol. 440, No. 7082. (16 March 2006), pp. 297-302. by Paul W. K. Rothemund posted by 25 people DNA nanotechnology BjoernAlbrecht Buntworthy Pedersen operon trm005 kevinchannon jsyi metemadi rodney alexknight karlberggren knaseanka okarsligil eckart_bindewald dullhunk madhadron cmm stsaft Kiarostami dna justforscraps Bioinformatics FAB-lab bethbromley
	Phylogenomics of the reproductive parasite Wolbachia pipientis wMel: a streamlined genome overrun by mobile genetic elements. [My Copy] PLoS Biol, Vol. 2, No. 3. (March 2004) by M. Wu, L. V. Sun, J. Vamathevan, et al.M. Riegler, R. Deboy, J. C. Brownlie, E. A. McGraw, W. Martin, C. Esser, N. Ahmadinejad, C. Wiegand, R. Madupu, M. J. Beanan, L. M. Brinkac, S. C. Daugherty, A. S. Durkin, J. F. Kolonay, W. C. Nelson, Y. Mohamoud, P. Lee, K. Berry, M. B. Young, T. Utterback, J. Weidman, W. C. Nierman, I. T. Paulsen, K. E. Nelson, H. Tettelin, S. L. O'Neill, J. A. Eisen posted by 5 people operon knaseanka radek wrowell Cline_lab
	The evolutionary fate and consequences of duplicate genes. [My Copy] Science (New York, N.Y.), Vol. 290, No. 5494. (10 November 2000), pp. 1151-1155. by M. Lynch, J. S. Conery posted by 14 people codonusage operon thegoose2 azazello C. elegans / WormBase tharris knaseanka arve nirfriedman echinotrix treangen timflutre BioNica clearbluespring
	Analyzing Large Data Sets in Reasonable Times: Solutions for Composite Optima [My Copy] Cladistics, Vol. 15, No. 4. (1999), pp. 415-428. by Pablo A. Goloboff posted by 2 people lizbiogen knaseanka
	Data exploration in phylogenetic inference: scientific, heuristic, or neither [My Copy] Cladistics, Vol. 19, No. 5. (2003), pp. 379-418. by Taran Grant, Arnold G. Kluge posted by 2 people knaseanka Thaverkamp
	Changing the landscape: a new strategy for estimating large phylogenies. [My Copy] Syst Biol, Vol. 50, No. 1. (February 2001), pp. 60-66. by D. L. Quicke, J. Taylor, A. Purvis posted by 1 person knaseanka
	Origin and Evolution of the Mitochondrial Aminoacyl-tRNA Synthetases. [My Copy] Mol Biol Evol (20 December 2006) by Björn Brindefalk, Johan Viklund, Daniel Larsson, Mikael Thollesson, Siv G E G. Andersson posted by 1 person knaseanka
	A basic result on the integral for birth-death Markov processes. [My Copy] Math Biosci, Vol. 161, No. 1-2. (October 1999), pp. 95-104. by C. M. Hernández-Suárez, C. Castillo-Chavez posted by 1 person knaseanka
	Extinction times for a birth-death process with two phases. [My Copy] Math Biosci, Vol. 202, No. 2. (August 2006), pp. 310-322. by J. V. Ross, P. K. Pollett posted by 1 person knaseanka
	Modeling genome evolution with a diffusion approximation of a birth-and-death process. [My Copy] Bioinformatics, Vol. 21 Suppl 3 (1 November 2005) by G. P. Karev, F. S. Berezovskaya, E. V. Koonin posted by 2 people iSEEM knaseanka
	Simple stochastic birth and death models of genome evolution: was there enough time for us to evolve? [My Copy] Bioinformatics, Vol. 19, No. 15. (12 October 2003), pp. 1889-1900. by G. P. Karev, Y. I. Wolf, E. V. Koonin posted by 1 person knaseanka
	Birth and death of protein domains: A simple model of evolution explains power law behavior [My Copy] BMC Evolutionary Biology, Vol. 2, No. 1. (2002), 18. by Georgy Karev, Yuri Wolf, Andrey Rzhetsky, Faina Berezovskaya, Eugene Koonin posted by 3 people jameswasmuth knaseanka martainn
	Gene family evolution: an in-depth theoretical and simulation analysis of non-linear birth-death-innovation models. [My Copy] BMC Evol Biol, Vol. 4 (9 September 2004) by G. P. Karev, Y. I. Wolf, F. S. Berezovskaya, E. V. Koonin posted by 2 people knaseanka ruvido
	Clann: investigating phylogenetic information through supertree analyses. [My Copy] Bioinformatics, Vol. 21, No. 3. (1 February 2005), pp. 390-392. by C. J. Creevey, J. O. McInerney posted by 1 person knaseanka
	DPRml: distributed phylogeny reconstruction by maximum likelihood. [My Copy] Bioinformatics, Vol. 21, No. 7. (1 April 2005), pp. 969-974. by T. M. Keane, T. J. Naughton, S. A. Travers, J. O. McInerney, G. P. McCormack posted by 2 people knaseanka rdiaz
	Large Punctuational Contribution of Speciation to Evolutionary Divergence at the Molecular Level [My Copy] Science, Vol. 314, No. 5796. (6 October 2006), pp. 119-121. by Mark Pagel, Chris Venditti, Andrew Meade posted by 8 people vtraag knaseanka brant bpcusack EisenLab shikin rvosa FAB-lab
	Epigenetic Gene Regulation in the Bacterial World [My Copy] Microbiol. Mol. Biol. Rev., Vol. 70, No. 3. (1 September 2006), pp. 830-856. by Josep Casadesus, David Low posted by 4 people Winzer knaseanka cambray jasonflannick
	The genome of the heartwater agent Ehrlichia ruminantium contains multiple tandem repeats of actively variable copy number. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 3. (18 January 2005), pp. 838-843. by N. E. Collins, J. Liebenberg, E. P. de Villiers, et al.K. A. Brayton, E. Louw, A. Pretorius, F. E. Faber, H. van Heerden, A. Josemans, M. van Kleef, H. C. Steyn, M. F. van Strijp, E. Zweygarth, F. Jongejan, J. C. Maillard, D. Berthier, M. Botha, F. Joubert, C. H. Corton, N. R. Thomson, M. T. Allsopp, B. A. Allsopp posted by 1 person knaseanka
	From Gene Trees to Organismal Phylogeny in Prokaryotes:The Case of the γ-Proteobacteria [My Copy] PLoS Biol, Vol. 1, No. 1. (15 September 2003), e19. by Emmanuelle Lerat, Vincent Daubin, Nancy A. Moran posted by 6 people danatcaret Thaverkamp knaseanka AaronDarling treangen fhsantanna
	Spectral clustering of protein sequences. [My Copy] Nucleic Acids Res, Vol. 34, No. 5. (2006), pp. 1571-1580. by A. Paccanaro, J. A. Casbon, M. A. Saqi posted by 2 people knaseanka bobychan
	Degenerative evolution and functional diversification of type-III secretion systems in the insect endosymbiont Sodalis glossinidius. [My Copy] Mol Biol Evol, Vol. 22, No. 3. (March 2005), pp. 758-766. by C. Dale, T. Jones, M. Pontes posted by 1 person knaseanka
	Type III secretion systems and the evolution of mutualistic endosymbiosis. [My Copy] Proc Natl Acad Sci U S A, Vol. 99, No. 19. (17 September 2002), pp. 12397-12402. by C. Dale, G. R. Plague, B. Wang, H. Ochman, N. A. Moran posted by 3 people knaseanka gelack manzanita
	Bacterial flagella and type III secretion systems. [My Copy] FEMS Microbiol Lett, Vol. 202, No. 2. (21 August 2001), pp. 157-164. by S. I. Aizawa posted by 2 people knaseanka cam-flagella
	Acquisition and Evolution of the exoU Locus in Pseudomonas aeruginosa. [My Copy] J Bacteriol, Vol. 188, No. 11. (June 2006), pp. 4037-4050. by B. R. Kulasekara, H. D. Kulasekara, M. C. Wolfgang, L. Stevens, D. W. Frank, S. Lory posted by 1 person knaseanka
	Secretory compartments as instances of dynamic self-evolving structures. [My Copy] Acta Biotheor, Vol. 50, No. 4. (2002), pp. 209-221. by F. Képès posted by 1 person knaseanka
	A directed evolution strategy for optimized export of recombinant proteins reveals critical determinants for preprotein discharge. [My Copy] Protein Sci, Vol. 13, No. 9. (September 2004), pp. 2458-2469. by M. A. Kaderbhai, H. M. Davey, N. N. Kaderbhai posted by 1 person knaseanka
	Bacterial type III secretion systems are ancient and evolved by multiple horizontal-transfer events. [My Copy] Gene, Vol. 312 (17 July 2003), pp. 151-163. by U. Gophna, E. Z. Ron, D. Graur posted by 1 person knaseanka
	Characterization of the ysa pathogenicity locus in the chromosome of Yersinia enterocolitica and phylogeny analysis of type III secretion systems. [My Copy] J Mol Evol, Vol. 55, No. 1. (July 2002), pp. 37-51. by B. Foultier, P. Troisfontaines, S. Müller, F. R. Opperdoes, G. R. Cornelis posted by 1 person knaseanka
	Quality assessment of multiple alignment programs. [My Copy] FEBS Lett, Vol. 529, No. 1. (2 October 2002), pp. 126-130. by T. Lassmann, E. L. Sonnhammer posted by 3 people BioNica knaseanka major724
	An application of statistics to comparative metagenomics. [My Copy] BMC bioinformatics, Vol. 7, No. 1. (20 March 2006) by Beltran Rodriguez-Brito, Forest Rohwer, Robert A. Edwards posted by 9 people taylor73 Thaverkamp jmeppley druvus knaseanka bluto carpi djkt iSEEM
	A molecular revolution in the study of intestinal microflora. [My Copy] Gut, Vol. 55, No. 2. (February 2006), pp. 141-143. by E. Furrie posted by 1 person knaseanka
	Comparative analysis of environmental sequences: potential and challenges. [My Copy] Philos Trans R Soc Lond B Biol Sci, Vol. 361, No. 1467. (29 March 2006), pp. 519-523. by K. U. Foerstner, C. von Mering, P. Bork posted by 1 person knaseanka
	Interplay between replication and recombination in Escherichia coli: Impact of the alternative DNA polymerases. [My Copy] Proc Natl Acad Sci U S A, Vol. 103, No. 12. (21 March 2006), pp. 4564-4569. by S. Delmas, I. Matic posted by 2 people knaseanka dbikard
	New directions and interactions in metagenomics research. [My Copy] FEMS Microbiol Ecol, Vol. 55, No. 3. (March 2006), pp. 331-338. by N. Ward posted by 3 people AaronDarling knaseanka jmeppley
	Enrichment for microbes living in association with plant tissues [My Copy] Journal of Applied Microbiology, Vol. 100, No. 4. (April 2006), pp. 830-837. by J. Y. Jiao, H. X. Wang, Y. Zeng, Y. M. Shen posted by 1 person knaseanka
	Metaproteomics: studying functional gene expression in microbial ecosystems. [My Copy] Trends Microbiol, Vol. 14, No. 2. (February 2006), pp. 92-97. by P. Wilmes, P. L. Bond posted by 9 people idoerg alonexiu Yanno knaseanka jmeppley bluto nitiniitk barberan mcox
	Toward Automatic Reconstruction of a Highly Resolved Tree of Life [My Copy] Science, Vol. 311, No. 5765. (3 March 2006), pp. 1283-1287. by Francesca D. Ciccarelli, Tobias Doerks, Christian von Mering, Christopher J. Creevey, Berend Snel, Peer Bork posted by 27 people pablocarb cmura adampah druvus fhsantanna microbiology_nijmegen kinestetika dparks Retchless knaseanka dpollard tny dchughes nirfriedman cmm azazello wenhan EisenLab FAB-lab G4ID Genetics-of-Gambling MBLAB maximilianh cmzmasek lonshy diamantis Ema
	On the total number of genes and their length distribution in complete microbial genomes. [My Copy] Trends Genet, Vol. 17, No. 8. (August 2001), pp. 425-428. by M. Skovgaard, L. J. Jensen, S. Brunak, D. Ussery, A. Krogh posted by 2 people knaseanka larsjuhljensen