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	Use of simulated data sets to evaluate the fidelity of metagenomic processing methods [My Copy] Nature Methods, Vol. 4, No. 6. (29 April 2007), pp. 495-500. by Konstantinos Mavromatis, Natalia Ivanova, Kerrie Barry, et al.Harris Shapiro, Eugene Goltsman, Alice C. McHardy, Isidore Rigoutsos, Asaf Salamov, Frank Korzeniewski, Miriam Land, Alla Lapidus, Igor Grigoriev, Paul Richardson, Philip Hugenholtz, Nikos C. Kyrpides posted by 26 people 8_01 klo CorinYeats dutilh dakelley taylor73 sriesenfeld Thaverkamp skembel druvus Yanno oamg jmeppley bluto azazello GustavoLacerda Glimcher_Lab Bioinformatics carlk alexl mjetten microbiology_nijmegen jlgreen Green Lab iSEEM djkt
	Metagenomics: Read Length Matters [My Copy] Appl. Environ. Microbiol., Vol. 74, No. 5. (1 March 2008), pp. 1453-1463. by K. Eric Wommack, Jaysheel Bhavsar, Jacques Ravel posted by 18 people n00c michaelbarton jbhiatt skembel Papers recommended by the Roscoff Plankton Group vaulot djkt iSEEM jmeppley azazello Microbial-Ecology microbiology_nijmegen Thaverkamp skato_toyaku rvgomes alexisfjdufresne alexl bluto
	Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite [My Copy] Nature, Vol. 450, No. 7169., pp. 560-565. by Falk Warnecke, Peter Luginbühl, Natalia Ivanova, et al.Majid Ghassemian, Toby H. Richardson, Justin T. Stege, Michelle Cayouette, Alice C. Mchardy, Gordana Djordjevic, Nahla Aboushadi, Rotem Sorek, Susannah G. Tringe, Mircea Podar, Hector G. Martin, Victor Kunin, Daniel Dalevi, Julita Madejska, Edward Kirton, Darren Platt, Ernest Szeto, Asaf Salamov, Kerrie Barry, Natalia Mikhailova, Nikos C. Kyrpides, Eric G. Matson, Elizabeth A. Ottesen, Xinning Zhang, Myriam Hernández, Catalina Murillo, Luis G. Acosta, Isidore Rigoutsos, Giselle Tamayo, Brian D. Green, Cathy Chang, Edward M. Rubin, Eric J. Mathur, Dan E. Robertson, Philip Hugenholtz, Jared R. Leadbetter posted by 9 people Thaverkamp anphony bluto azazello wenhan carpi jlgreen Green Lab iSEEM
	Application of tetranucleotide frequencies for the assignment of genomic fragments [My Copy] Environmental Microbiology, Vol. 6, No. 9. (September 2004), pp. 938-947. by Hanno Teeling, Anke Meyerdierks, Margarete Bauer, Rudolf Amann, Frank O. Glöckner posted by 8 people dakelley Thaverkamp azazello druvus michC bluto george_g mcox
	Metagenomic Analysis of the Human Distal Gut Microbiome [My Copy] Science, Vol. 312, No. 5778. (2 June 2006), pp. 1355-1359. by Steven R. Gill, Mihai Pop, Robert T. DeBoy, et al.Paul B. Eckburg, Peter J. Turnbaugh, Buck S. Samuel, Jeffrey I. Gordon, David A. Relman, Claire M. Fraser-Liggett, Karen E. Nelson posted by 32 people cmzmasek Thaverkamp jbhiatt windman83 Zephyrus vvoorr skembel Yanno ana dayjm jmeppley dchughes cmm neveaire hcmorton michC bluto azazello beatrizfernandez wenhan xingxu structural_bioinformatics Biostatistics Computational-Genomics Bioinformatics Neuroscience FAB-lab G4ID Microbial-Ecology Genetics-of-Gambling host-bacteria melissa_wos
	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
	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 consistency-based consensus algorithm for de novo and reference-guided sequence assembly of short reads [My Copy] Bioinformatics, Vol. 25, No. 9. (1 May 2009), pp. 1118-1124. by Tobias Rausch, Sergey Koren, Gennady Denisov, et al.David Weese, Anne-Katrin Emde, Andreas Doring, Knut Reinert posted by 24 people orzenil humburg jfr azazello hzoltan cthachuk GustavoLacerda jasontsai n00c nuin dakelley skembel Thaverkamp reyez TRHvidsten iSEEM djkt Bioinformatics hpaces APRegier pengchy natstreet druvus darian
	Gene-Boosted Assembly of a Novel Bacterial Genome from Very Short Reads [My Copy] PLoS Comput Biol In PLoS Comput Biol, Vol. 4, No. 9. (26 September 2008), e1000186. by Steven L. Salzberg, Daniel D. Sommer, Daniela Puiu, Vincent T. Lee posted by 23 people skembel n00c operon BergmanLab michaelbarton azazello Thaverkamp dakelley sconlan GustavoLacerda treangen natstreet antonkratz druvus Papers recommended by the Roscoff Plankton Group vaulot iSEEM djkt microbiology_nijmegen Katje Mycology stajich semrich
	The RAST Server: rapid annotations using subsystems technology. [My Copy] BMC genomics, Vol. 9, No. 1. (08 February 2008), 75. by Ramy K. Aziz, Daniela Bartels, Aaron A. Best, et al.Matthew DeJongh, Terrence Disz, Robert A. Edwards, Kevin Formsma, Svetlana Gerdes, Elizabeth M. Glass, Michael Kubal, Folker Meyer, Gary J. Olsen, Robert Olson, Andrei L. Osterman, Ross A. Overbeek, Leslie K. McNeil, Daniel Paarmann, Tobias Paczian, Bruce Parrello, Gordon D. Pusch, Claudia Reich, Rick Stevens, Olga Vassieva, Veronika Vonstein, Andreas Wilke, Olga Zagnitko posted by 13 people karinlag Waikato - Erebus hexaquo azazello sgoetz stefanorb coela Thaverkamp barriot druvus JeremyZucker klager MetabolicModeling
	Accuracy and quality of massively parallel DNA pyrosequencing [My Copy] Genome Biology, Vol. 8, No. 7. (20 July 2007), R143. by Susan Huse, Julie Huber, Hilary Morrison, Mitchell Sogin, David Welch posted by 22 people darian nfparrish druvus n00c iSEEM jlgreen Thaverkamp orzenil mmartin floatingpoint Huub_odc gpappas jmeppley mblwhoi grahamc azazello GustavoLacerda Bioinformatics blobbybirdman gatech-compgenomics Olaf_Ilzins bozdagd
	The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families. [My Copy] PLoS Biol, Vol. 5, No. 3. (13 March 2007) by Shibu Yooseph, Granger Sutton, Douglas B B. Rusch, et al.Aaron L L. Halpern, Shannon J J. Williamson, Karin Remington, Jonathan A A. Eisen, Karla B B. Heidelberg, Gerard Manning, Weizhong Li, Lukasz Jaroszewski, Piotr Cieplak, Christopher S S. Miller, Huiying Li, Susan T T. Mashiyama, Marcin P P. Joachimiak, Christopher van Belle, John-Marc M. Chandonia, David A A. Soergel, Yufeng Zhai, Kannan Natarajan, Shaun Lee, Benjamin J J. Raphael, Vineet Bafna, Robert Friedman, Steven E E. Brenner, Adam Godzik, David Eisenberg, Jack E E. Dixon, Susan S S. Taylor, Robert L L. Strausberg, Marvin Frazier, J Craig C. Venter posted by 14 people Thaverkamp skembel AaronDarling azazello jmeppley kaspermunch michC Bioinformatics mjetten microbiology_nijmegen vrich jlgreen Green Lab iSEEM
	Environmental Shotgun Sequencing: Its Potential and Challenges for Studying the Hidden World of Microbes [My Copy] PLoS Biol, Vol. 5, No. 3. (13 March 2007), e82. by Jonathan A. Eisen posted by 20 people druvus skembel hwright Thaverkamp AaronDarling anphony precale adgrativol silberbauer jmeppley jdelcampo azazello beatrizfernandez xingxu Microbial-Ecology jlgreen Green Lab olympos djkt iSEEM
	The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific [My Copy] PLoS Biol, Vol. 5, No. 3. (13 March 2007), e77. by Douglas B. Rusch, Aaron L. Halpern, Granger Sutton, et al.Karla B. Heidelberg, Shannon Williamson, Shibu Yooseph, Dongying Wu, Jonathan A. Eisen, Jeff M. Hoffman, Karin Remington, Karen Beeson, Bao Tran, Hamilton Smith, Holly Baden-Tillson, Clare Stewart, Joyce Thorpe, Jason Freeman, Cynthia Andrews-Pfannkoch, Joseph E. Venter, Kelvin Li, Saul Kravitz, John F. Heidelberg, Terry Utterback, Yu-Hui Rogers, Luisa I. Falcón, Valeria Souza, Germán Bonilla-Rosso, Luis E. Eguiarte, David M. Karl, Shubha Sathyendranath, Trevor Platt, Eldredge Bermingham, Victor Gallardo, Giselle Tamayo-Castillo, Michael R. Ferrari, Robert L. Strausberg, Kenneth Nealson, Robert Friedman, Marvin Frazier, J. Craig Venter posted by 23 people antonkratz dakelley maria_hauser mlangill AaronDarling azazello skembel aramata jmeppley kaspermunch michC jdelcampo stajich skoch3 beatrizfernandez kinestetika Bioinformatics Microbial-Ecology Koch_Lab microbiology_nijmegen Thaverkamp djkt iSEEM
	Hawkeye: an interactive visual analytics tool for genome assemblies [My Copy] Genome Biology, Vol. 8, No. 3. (09 March 2007), R34. by Michael Schatz, Adam Phillippy, Ben Shneiderman, Steven Salzberg posted by 14 people darian n00c joule Thaverkamp hpaces orzenil GustavoLacerda natstreet druvus stajich azazello Mycology gatech-compgenomics Neeperando
	Minimus: a fast, lightweight genome assembler [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (26 February 2007), 64. by Daniel Sommer, Arthur Delcher, Steven Salzberg, Mihai Pop posted by 7 people michaelbarton n00c druvus azazello Neeperando Thaverkamp eckart_bindewald
	BLAT--the BLAST-like alignment tool. [My Copy] Genome research, Vol. 12, No. 4. (1 April 2002), pp. 656-664. by W. James Kent posted by 41 people azazello rshe dchughes rdowell LabDros gwallau druvus aprasad maria_hauser n00c sficklin Thaverkamp cpwardell BergmanLab daveGerrard coela daforerog pwais umit mmartin paszkows operon miguel pcahan1 Ayest indigoviolet mtagaya treangen michC djkt timflutre olympos cjeans wenhan natstreet antonkratz EisenLab yoanjacquemin talponer bozdagd gpappas
	Approaches to prokaryotic biodiversity: a population genetics perspective [My Copy] Environmental Microbiology, Vol. 4, No. 11. (2002), pp. 628-633. by Francisco R. Valera posted by 3 people jmeppley Microbial-Ecology Thaverkamp
	CAMERA: A Community Resource for Metagenomics [My Copy] PLoS Biology, Vol. 5, No. 3. (1 March 2007), e75. by Rekha Seshadri, Saul A. Kravitz, Larry Smarr, Paul Gilna, Marvin Frazier posted by 5 people hwright jmeppley Microbial-Ecology Thaverkamp mariakmejia
	Estimating the extent of horizontal gene transfer in metagenomic sequences [My Copy] BMC Genomics, Vol. 9, No. 1. (2008), 136. by Javier Tamames, Andres Moya posted by 6 people ajsferreira jmeppley Microbial-Ecology Thaverkamp neils karfunkel
	Phylogenetic Approaches for Describing and Comparing the Diversity of Microbial Communities [My Copy] Appl. Environ. Microbiol., Vol. 68, No. 8. (1 August 2002), pp. 3673-3682. by Andrew P. Martin posted by 11 people hwright sharpton skembel sriesenfeld jmeppley Microbial-Ecology Thaverkamp mcox Olaf_Ilzins djkt iSEEM
	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
	Strainer: software for analysis of population variation in community genomic datasets [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007), 398. by John Eppley, Gene Tyson, Wayne Getz, Jillian Banfield posted by 6 people maren operon sharpton guhjy jmeppley Thaverkamp
	Microbial diversity - insights from population genetics [My Copy] Environmental Microbiology, Vol. 0, No. 0. (0000), pp. ???-???. by Ted H. Mes posted by 11 people skembel adgrativol iSEEM jonathaneisen jmeppley kinestetika Microbial-Ecology microbiology_nijmegen Katje Thaverkamp Olaf_Ilzins
	The bacterial species definition in the genomic era. [My Copy] Philos Trans R Soc Lond B Biol Sci, Vol. 361, No. 1475. (29 November 2006), pp. 1929-1940. by K. T. Konstantinidis, A. Ramette, J. M. Tiedje posted by 11 people dutilh druvus AaronDarling skembel treangen iSEEM jmeppley kinestetika Microbial-Ecology microbiology_nijmegen Thaverkamp
	Interpreting the unculturable majority [My Copy] Nat Meth, Vol. 4, No. 6. (June 2007), pp. 479-480. by Lior Pachter posted by 4 people jonilaserson jmeppley Thaverkamp carlk
	Using pyrosequencing to shed light on deep mine microbial ecology. [My Copy] BMC Genomics, Vol. 7 (2006) by R. A. Edwards, B. Rodriguez-Brito, L. Wegley, et al.M. Haynes, M. Breitbart, D. M. Peterson, M. O. Saar, S. Alexander, E. C. Alexander, F. Rohwer posted by 10 people Thaverkamp iSEEM skembel jmeppley balicea rabu xingxu mcox darioacha werwiesel
	An obesity-associated gut microbiome with increased capacity for energy harvest. [My Copy] Nature, Vol. 444, No. 7122. (21 December 2006), pp. 1027-1031. by Peter J. Turnbaugh, Ruth E. Ley, Michael A. Mahowald, Vincent Magrini, Elaine R. Mardis, Jeffrey I. Gordon posted by 12 people Orengo Group Journal Picks robertrentzsch Thaverkamp Zephyrus ana jmeppley michC srfairclough wenhan structural_bioinformatics Bioinformatics GX
	MetaGene: prokaryotic gene finding from environmental genome shotgun sequences [My Copy] Nucl. Acids Res., Vol. 34, No. 19. (14 November 2006), pp. 5623-5630. by Hideki Noguchi, Jungho Park, Toshihisa Takagi posted by 7 people dakelley Thaverkamp iSEEM jlgreen jmeppley alexl mcox
	An analysis of the Sargasso Sea resource and the consequences for database composition. [My Copy] BMC Bioinformatics, Vol. 7 (2006) by M. L. Tress, D. Cozzetto, A. Tramontano, A. Valencia posted by 8 people operon ana eoghanharr jmeppley structural_bioinformatics Bioinformatics Microbial-Ecology Thaverkamp
	Genomic insights that advance the species definition for prokaryotes. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 7. (15 February 2005), pp. 2567-2572. by K. T. Konstantinidis, J. M. Tiedje posted by 5 people iSEEM jmeppley Microbial-Ecology Thaverkamp rvgomes
	The Bioperl Toolkit: Perl Modules for the Life Sciences [My Copy] Genome Res., Vol. 12, No. 10. (1 October 2002), pp. 1611-1618. by Jason E. Stajich, David Block, Kris Boulez, et al.Steven E. Brenner, Stephen A. Chervitz, Chris Dagdigian, Georg Fuellen, James G. Gilbert, Ian Korf, Hilmar Lapp, Heikki Lehvaslaiho, Chad Matsalla, Chris J. Mungall, Brian I. Osborne, Matthew R. Pocock, Peter Schattner, Martin Senger, Lincoln D. Stein, Elia Stupka, Mark D. Wilkinson, Ewan Birney posted by 30 people akou ludaesch jsatkosk kiekyon Thaverkamp Cortel brdwilde daforerog GustavoLacerda krapnik jmeppley chad_davis rvosa indigoviolet skhadar dullhunk dgront stajich noby incovoma glycine tyrosine threonine valine nklee EisenLab FAB-lab hpaces sekmi ninch
	Ecological consequences of phenotypic plasticity [My Copy] Trends in Ecology & Evolution, Vol. 20, No. 12. (December 2005), pp. 685-692. by B. Miner, S. Sultan, S. Morgan, D. Padilla, R. Relyea posted by 8 people hardje jlin jmeppley cmm FAB-lab Microbial-Ecology Thaverkamp rvgomes
	Metagenomics: genomic analysis of microbial communities. [My Copy] Annu Rev Genet, Vol. 38 (2004), pp. 525-552. by C. S. Riesenfeld, P. D. Schloss, J. Handelsman posted by 10 people Thaverkamp ericvonwettberg skembel knaseanka jmeppley wenhan mcox djkt Green Lab iSEEM
	Virus population dynamics and acquired virus resistance in natural microbial communities. [My Copy] Science (New York, N.Y.), Vol. 320, No. 5879. (23 May 2008), pp. 1047-1050. by Anders F. Andersson, Jillian F. Banfield posted by 6 people bmezmer azazello bluto treangen djkt iSEEM
	Genes from Nine Genomes Are Separated into Their Organisms in the Dinucleotide Composition Space [My Copy] DNA Res, Vol. 5, No. 5. (1 January 1998), pp. 251-259. by Hiroshi Nakashima, Motonori Ota, Ken Nishikawa, Tatsuo Ooi posted by 4 people antariksh azazello bluto karfunkel
	Community structure and metabolism through reconstruction of microbial genomes from the environment. [My Copy] Nature, Vol. 428, No. 6978. (4 March 2004), pp. 37-43. by G. W. Tyson, J. Chapman, P. Hugenholtz, et al.E. E. Allen, R. J. Ram, P. M. Richardson, V. V. Solovyev, E. M. Rubin, D. S. Rokhsar, J. F. Banfield posted by 8 people azazello microbiology_nijmegen kinestetika bpb bluto wenhan niallhaslam mcox
	The Marine Viromes of Four Oceanic Regions [My Copy] PLoS Biol, Vol. 4, No. 11. (7 November 2006), e368. by Florent E. Angly, Ben Felts, Mya Breitbart, et al.Peter Salamon, Robert A. Edwards, Craig Carlson, Amy M. Chan, Matthew Haynes, Scott Kelley, Hong Liu, Joseph M. Mahaffy, Jennifer E. Mueller, Jim Nulton, Robert Olson, Rachel Parsons, Steve Rayhawk, Curtis A. Suttle, Forest Rohwer posted by 10 people michaelbarton hwright anphony azazello balicea bluto xingxu djkt iSEEM jlgreen
	A whole-genome assembly of Drosophila. [My Copy] Science (New York, N.Y.), Vol. 287, No. 5461. (24 March 2000), pp. 2196-2204. by E. W. Myers, G. G. Sutton, A. L. Delcher, et al.I. M. Dew, D. P. Fasulo, M. J. Flanigan, S. A. Kravitz, C. M. Mobarry, K. H. Reinert, K. A. Remington, E. L. Anson, R. A. Bolanos, H. H. Chou, C. M. Jordan, A. L. Halpern, S. Lonardi, E. M. Beasley, R. C. Brandon, L. Chen, P. J. Dunn, Z. Lai, Y. Liang, D. R. Nusskern, M. Zhan, Q. Zhang, X. Zheng, G. M. Rubin, M. D. Adams, J. C. Venter posted by 12 people dakelley taroleo Neeperando bluto azazello wenhan MBLAB gatech-compgenomics tpreeprem yoanjacquemin cisevol Drosophila-Genetics-Genomics-2008
	Metaproteomics approach to study the functionality of the microbiota in the human infant gastrointestinal tract. [My Copy] Appl Environ Microbiol, Vol. 73, No. 4. (February 2007), pp. 1388-1392. by E. S. Klaassens, W. M. de Vos, E. E. Vaughan posted by 11 people bluto dchughes michC azazello wenhan nitiniitk barberan G4ID Genetics-of-Gambling MBLAB mcox
	Proteorhodopsin phototrophy in the ocean. [My Copy] Nature, Vol. 411, No. 6839. (14 June 2001), pp. 786-789. by O. Béjà, E. N. Spudich, J. L. Spudich, M. Leclerc, E. F. DeLong posted by 8 people hwright microbiology_nijmegen kinestetika azazello bluto jdelcampo beatrizfernandez Microbial-Ecology
	Duplicated genes evolve slower than singletons despite the initial rate increase [My Copy] BMC Evolutionary Biology, Vol. 4, No. 1. (6 July 2004), 22. by I. King Jordan, Yuri Wolf, Eugene Koonin posted by 4 people RamuAnandakrishnan azazello treangen bluto
	The early stages of duplicate gene evolution [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 26. (23 December 2003), pp. 15682-15687. by Richard C. Moore, Michael D. Purugganan posted by 2 people azazello bluto
	Rapid subfunctionalization accompanied by prolonged and substantial neofunctionalization in duplicate gene evolution. [My Copy] Genetics, Vol. 169, No. 2. (February 2005), pp. 1157-1164. by X. He, J. Zhang posted by 6 people clearbluespring azazello pansapiens ushishir nirfriedman bluto
	A Metagenomic Survey of Microbes in Honey Bee Colony Collapse Disorder. [My Copy] Science (6 September 2007) by Diana L L. Cox-Foster, Sean Conlan, Edward C C. Holmes, et al.Gustavo Palacios, Jay D D. Evans, Nancy A A. Moran, Phenix-Lan L. Quan, Thomas Briese, Mady Hornig, David M M. Geiser, Vince Martinson, Dennis Vanengelsdorp, Abby L L. Kalkstein, Andrew Drysdale, Jeffrey Hui, Junhui Zhai, Liwang Cui, Stephen K K. Hutchison, Jan Fredrik F. Simons, Michael Egholm, Jeffery S S. Pettis, W Ian I. Lipkin posted by 13 people pauldobson GustavoLacerda azazello jmeppley bluto carpi Bioinformatics mellabee jlgreen Green Lab iSEEM sconlan hpaces
	Capturing whole-genome characteristics in short sequences using a naïve Bayesian classifier. [My Copy] Genome Res, Vol. 11, No. 8. (August 2001), pp. 1404-1409. by R. Sandberg, G. Winberg, C. I. Bränden, A. Kaske, I. Ernberg, J. Cöster posted by 5 people esyoun azazello jmeppley bluto karfunkel
	Finding the Needles in the Metagenome Haystack [My Copy] Microbial Ecology by George A. Kowalchuk, Arjen G. C. L. Speksnijder, Kun Zhang, Robert M. Goodman, Johannes A. van Veen posted by 7 people azazello Yanno jmeppley bluto wenhan niallhaslam dayjm
	Population genomics in natural microbial communities [My Copy] Trends in Ecology & Evolution, Vol. 21, No. 9. (September 2006), pp. 508-516. by Rachel J. Whitaker, Jillian F. Banfield posted by 5 people skato_toyaku azazello sharpton jmeppley bluto
	PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information. [My Copy] BMC Bioinformatics, Vol. 6, No. 1. (2 March 2005) by F. Angly, B. Rodriguez-Brito, D. Bangor, et al.P. McNairnie, M. Breitbart, P. Salamon, B. Felts, J. Nulton, J. Mahaffy, F. Rohwer posted by 4 people azazello knaseanka jmeppley bluto
	Bioinformatics for Whole-Genome Shotgun Sequencing of Microbial Communities [My Copy] PLoS Comput Biol, Vol. 1, No. 2. (12 July 2005), e24. by Kevin Chen, Lior Pachter posted by 16 people Julien_Fayolle ajsferreira hwright dakelley azazello knaseanka ana jmeppley dullhunk bluto wenhan structural_bioinformatics Bioinformatics djkt iSEEM druvus
	Informatics for unveiling hidden genome signatures. [My Copy] Genome research, Vol. 13, No. 4. (April 2003), pp. 693-702. by T. Abe, S. Kanaya, M. Kinouchi, Y. Ichiba, T. Kozuki, T. Ikemura posted by 2 people azazello jmeppley
	De novo bacterial genome sequencing: Millions of very short reads assembled on a desktop computer [My Copy] Genome Research, Vol. 18, No. 5. (10 May 2008), pp. 802-809. by David Hernandez, Patrice FranÃ§ois, Laurent Farinelli, Magne Ãsterã¥s, Jacques Schrenzel posted by 20 people n00c GeeSharpMinor pachorip operon druvus dakelley DeNovoAssembly-SIMR acn nmohelli GustavoLacerda jmeppley stajich azazello microbiology_nijmegen Katje Mycology gatech-compgenomics iris42 balicea Neeperando
	Pyrobayes: an improved base caller for SNP discovery in pyrosequences [My Copy] Nat Meth, Vol. 5, No. 2. (13 February 2008), pp. 179-181. by Aaron R. Quinlan, Donald A. Stewart, Michael P. Stromberg, Gabor T. Marth posted by 11 people n00c jonilaserson natstreet druvus hpaces orzenil jmeppley azazello gatech-compgenomics guhjy mariakmejia
	Dinucleotide relative abundance extremes: a genomic signature [My Copy] Trends in Genetics, Vol. 11, No. 7. (July 1995), pp. 283-290. by Samuel Kariin, Chris Burge posted by 3 people azazello jmeppley karfunkel
	Genetic exchange across a species boundary in the archaeal genus ferroplasma. [My Copy] Genetics, Vol. 177, No. 1. (September 2007), pp. 407-416. by J. M. Eppley, G. W. Tyson, W. M. Getz, J. F. Banfield posted by 4 people AaronDarling azazello sharpton jmeppley
	CRISPR Provides Acquired Resistance Against Viruses in Prokaryotes [My Copy] Science, Vol. 315, No. 5819. (23 March 2007), pp. 1709-1712. by Rodolphe Barrangou, Christophe Fremaux, Helene Deveau, et al.Melissa Richards, Patrick Boyaval, Sylvain Moineau, Dennis A. Romero, Philippe Horvath posted by 5 people azazello treangen operon jmeppley saru
	Strain-resolved community proteomics reveals recombining genomes of acidophilic bacteria [My Copy] Nature (07 March 2007) by Ian Lo, Vincent J. Denef, Nathan C. Verberkmoes, et al.Manesh B. Shah, Daniela Goltsman, Genevieve Dibartolo, Gene W. Tyson, Eric E. Allen, Rachna J. Ram, Chris J. Detter, Paul Richardson, Michael P. Thelen, Robert L. Hettich, Jillian F. Banfield posted by 10 people azazello sharpton kinestetika jmeppley rabu BoranKartal microbiology_nijmegen iSEEM jlgreen Green Lab
	Genome dynamics in a natural archaeal population [My Copy] PNAS, Vol. 104, No. 6. (6 February 2007), pp. 1883-1888. by Eric E. Allen, Gene W. Tyson, Rachel J. Whitaker, John C. Detter, Paul M. Richardson, Jillian F. Banfield posted by 6 people AaronDarling azazello sharpton jmeppley kinestetika microbiology_nijmegen
	Whole-genome re-sequencing. [My Copy] Current opinion in genetics & development In Genomes and evolution, Vol. 16, No. 6. (December 2006), pp. 545-552. by David R. Bentley posted by 18 people pristanna rshe druvus n00c anuskap mmartin jameswasmuth usagi-kirin jmeppley frohike indigoviolet dchughes azazello EisenLab G4ID Genetics-of-Gambling jo_davies kmdaily
	454 sequencing put to the test using the complex genome of barley [My Copy] BMC Genomics, Vol. 7, No. 1. (26 October 2006), 275. by Thomas Wicker, Edith Schlagenhauf, Andreas Graner, Timothy Close, Beat Keller, Nils Stein posted by 12 people n00c orzenil GustavoLacerda jmeppley balicea ghattem azazello MBLAB cisevol BergmanLab gatech-compgenomics tpreeprem
	Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. [My Copy] Mol Biol Evol, Vol. 3, No. 5. (September 1986), pp. 418-426. by M. Nei, T. Gojobori posted by 8 people azazello jmeppley hdopazo usagi-kirin ankur_iitg BioinfoCIPF friendpine CharlesM
	Orphelia: predicting genes in metagenomic sequencing reads. [My Copy] Nucleic acids research, Vol. 37, No. Web Server issue. (1 July 2009), pp. W101-105. by Katharina J. Hoff, Thomas Lingner, Peter Meinicke, Maike Tech posted by 7 people Orengo Group Journal Picks CorinYeats mlangill sharpton Thaverkamp jmeppley neils
	Assembling the Marine Metagenome, One Cell at a Time [My Copy] PLoS ONE, Vol. 4, No. 4. (23 April 2009), e5299. by Tanja Woyke, Gary Xie, Alex Copeland, et al.José M. González, Cliff Han, Hajnalka Kiss, Jimmy H. Saw, Pavel Senin, Chi Yang, Sourav Chatterji, Jan-Fang Cheng, Jonathan A. Eisen, Michael E. Sieracki, Ramunas Stepanauskas posted by 16 people jonathaneisen CorinYeats inquil dakelley hwright jonilaserson iSEEM jlgreen chocolate2009 jmeppley Papers recommended by the Roscoff Plankton Group Microbial-Ecology vaulot Thaverkamp neils skoch3
	A novel ecological role of the Firmicutes identified in thermophilic microbial fuel cells [My Copy] ISME J, Vol. 2, No. 11. (4 September 2008), pp. 1146-1156. by Kelly C. Wrighton, Peter Agbo, Falk Warnecke, et al.Karrie A. Weber, Eoin L. Brodie, Todd Z. Desantis, Philip Hugenholtz, Gary L. Andersen, John D. Coates posted by 2 people Thaverkamp bluto
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	Genome evolution in cyanobacteria: The stable core and the variable shell [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 7. (19 February 2008), pp. 2510-2515. by Tuo Shi, Paul G. Falkowski posted by 9 people Scis0000002 mhiromi Thaverkamp operon bluto vaulot Microbial-Ecology Papers recommended by the Roscoff Plankton Group tuoshi
	The Native Bacterioplankton Community in the Central Baltic Sea Is Influenced by Freshwater Bacterial Species [My Copy] Appl. Environ. Microbiol., Vol. 74, No. 2. (15 January 2008), pp. 503-515. by L. Riemann, C. Leitet, T. Pommier, et al.K. Simu, K. Holmfeldt, U. Larsson, A. Hagstrom posted by 2 people bluto Thaverkamp
	Cyanophages infecting the oceanic cyanobacterium Prochlorococcus. [My Copy] Nature, Vol. 424, No. 6952. (28 August 2003), pp. 1047-1051. by M. B. Sullivan, J. B. Waterbury, S. W. Chisholm posted by 3 people bluto Microbial-Ecology Thaverkamp
	Colourful coexistence of red and green picocyanobacteria in lakes and seas [My Copy] Ecology Letters, Vol. 10, No. 4. (April 2007), pp. 290-298. by Stomp, Maayke, Huisman, et al. Jef, Voros, Lajos, Pick, R. Frances, Laamanen, Maria, Haverkamp, Thomas, Stal, J. Lucas posted by 4 people Thaverkamp Stenuite bluto African_Lakes_Limnology
	Prevalence and Evolution of Core Photosystem II Genes in Marine Cyanobacterial Viruses and Their Hosts. [My Copy] PLoS Biol, Vol. 4, No. 8. (4 July 2006) by Matthew B B. Sullivan, Debbie Lindell, Jessica A A. Lee, Luke R R. Thompson, Joseph P P. Bielawski, Sallie W W. Chisholm posted by 4 people AaronDarling bluto Microbial-Ecology Thaverkamp
	Three Prochlorococcus cyanophage genomes: signature features and ecological interpretations. [My Copy] PLoS Biol, Vol. 3, No. 5. (May 2005) by M. B. Sullivan, M. L. Coleman, P. Weigele, F. Rohwer, S. W. Chisholm posted by 3 people bluto Microbial-Ecology Thaverkamp
	Potential photosynthesis gene recombination between Prochlorococcus and Synechococcus via viral intermediates [My Copy] Environmental Microbiology, Vol. 7, No. 10. (October 2005), pp. 1505-1513. by Gil Zeidner, Joseph P. Bielawski, Michael Shmoish, David J. Scanlan, Gazalah Sabehi, Oded Beja posted by 4 people bluto beatrizfernandez Microbial-Ecology Thaverkamp
	Inference of population genetic parameters in metagenomics: A clean look at messy data [My Copy] Genome Res., Vol. 16, No. 10. (1 October 2006), pp. 1320-1327. by Philip L. Johnson, Montgomery Slatkin posted by 5 people Thaverkamp jmeppley bluto djkt iSEEM
	Reverse Methanogenesis: Testing the Hypothesis with Environmental Genomics [My Copy] Science, Vol. 305, No. 5689. (3 September 2004), pp. 1457-1462. by Steven J. Hallam, Nik Putnam, Christina M. Preston, et al.John C. Detter, Daniel Rokhsar, Paul M. Richardson, Edward F. Delong posted by 9 people Microbial-Ecology Thaverkamp bluto calamar cursonivel1 cursonivel1 jmeppley kinestetika microbiology_nijmegen
	Fine-scale phylogenetic architecture of a complex bacterial community. [My Copy] Nature, Vol. 430, No. 6999. (29 July 2004), pp. 551-554. by S. G. Acinas, V. Klepac-Ceraj, D. E. Hunt, et al.C. Pharino, I. Ceraj, D. L. Distel, M. F. Polz posted by 5 people jmeppley bluto Thaverkamp kerekesj mcox
	Community Genomics Among Stratified Microbial Assemblages in the Ocean's Interior [My Copy] Science, Vol. 311, No. 5760. (27 January 2006), pp. 496-503. by Edward F. Delong, Christina M. Preston, Tracy Mincer, et al.Virginia Rich, Steven J. Hallam, Niels-Ulrik Frigaard, Asuncion Martinez, Matthew B. Sullivan, Robert Edwards, Beltran R. Brito, Sallie W. Chisholm, David M. Karl posted by 21 people hwright Savage Lab, UCLA anphony Thaverkamp skembel eoghanharr dayjm jmeppley michC bluto jdelcampo beatrizfernandez Microbial-Ecology mjetten microbiology_nijmegen mcox vrich jlgreen Green Lab iSEEM djkt
	Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities [My Copy] Appl. Environ. Microbiol., Vol. 75, No. 23. (1 December 2009), pp. 7537-7541. by Patrick D. Schloss, Sarah L. Westcott, Thomas Ryabin, et al.Justine R. Hall, Martin Hartmann, Emily B. Hollister, Ryan A. Lesniewski, Brian B. Oakley, Donovan H. Parks, Courtney J. Robinson, Jason W. Sahl, Blaz Stres, Gerhard G. Thallinger, David J. Van Horn, Carolyn F. Weber posted by 2 people Thaverkamp jmeppley
	Metagenome of a Versatile Chemolithoautotroph from Expanding Oceanic Dead Zones [My Copy] Science, Vol. 326, No. 5952. (23 October 2009), pp. 578-582. by David A. Walsh, Elena Zaikova, Charles G. Howes, et al.Young C. Song, Jody J. Wright, Susannah G. Tringe, Philippe D. Tortell, Steven J. Hallam posted by 3 people ajsferreira Thaverkamp jmeppley
	Windshield splatter analysis with the Galaxy metagenomic pipeline [My Copy] Genome Research, Vol. 19, No. 11. (9 November 2009), pp. 2144-2153. by Sergei Kosakovsky Pond, Samir Wadhawan, Francesca Chiaromonte, et al.Guruprasad Ananda, Wen-Yu Chung, James Taylor, Anton Nekrutenko posted by 14 people dutilh kiekyon Thaverkamp jmeppley seb1 microbiology_nijmegen Katje iSEEM djkt operon neils idonaldson jgill kshameer
	Bias in assessments of marine microbial biodiversity in fosmid libraries as evaluated by pyrosequencing [My Copy] The ISME Journal, Vol. 3, No. 7. (02 April 2009), pp. 792-796. by Ben Temperton, Dawn Field, Anna Oliver, et al.Bela Tiwari, Martin Muhling, Ian Joint, Jack A. Gilbert posted by 4 people seb1 manduca Thaverkamp jmeppley
	Microbial oceanography in a sea of opportunity [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 180-184. by Chris Bowler, David M. Karl, Rita R. Colwell posted by 5 people hwright jmeppley Microbial-Ecology Thaverkamp skembel
	The microbial ocean from genomes to biomes [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 200-206. by Edward F. Delong posted by 9 people roys jmeppley Mycology stajich Thaverkamp neils iSEEM djkt skembel
	Metatranscriptomics reveals unique microbial small RNAs in the ocean\|[rsquo]\|s water column [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 266-269. by Yanmei Shi, Gene W. Tyson, Edward F. DeLong posted by 18 people tonamswish kinestetika gdb michaelbarton samgj Papers recommended by the Roscoff Plankton Group Microbial-Ecology vaulot microbiology_nijmegen Katje absterga jmeppley Thaverkamp pengchy iSEEM djkt skembel jbhiatt
	Microbial community structure and its functional implications [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 193-199. by Jed A. Fuhrman posted by 6 people hwright jmeppley Thaverkamp iSEEM djkt skembel
	Anaerobic catabolism of aromatic compounds: a genetic and genomic view. [My Copy] Microbiology and molecular biology reviews : MMBR, Vol. 73, No. 1. (March 2009), pp. 71-133. by M. Carmona, M. T. Zamarro, B. Blázquez, et al.G. Durante-Rodríguez, J. F. Juárez, J. A. Valderrama, M. J. Barragán, J. L. García, E. Díaz posted by 3 people jmeppley Microbial-Ecology Thaverkamp
	On the origin of prokaryotic species. [My Copy] Genome research, Vol. 19, No. 5. (May 2009), pp. 744-756. by W. Ford Doolittle, Olga Zhaxybayeva posted by 5 people neils jmeppley Microbial-Ecology Thaverkamp inquil
	Microbial co-habitation and lateral gene transfer: what transposases can tell us [My Copy] Genome Biology, Vol. 10 (24 April 2009), R45. by Sean, Nikos C. Kyrpides posted by 3 people jmeppley Microbial-Ecology Thaverkamp
	Comparative metagenomics of Daphnia symbionts. [My Copy] BMC genomics, Vol. 10 (21 April 2009), 172. by W. Qi, G. Nong, J. F. Preston, F. Ben-Ami, D. Ebert posted by 4 people cmzmasek jmeppley thegoose Thaverkamp
	Microbial community structure analysis of produced water from a high-temperature North Sea oil-field. [My Copy] Antonie van Leeuwenhoek, Vol. 93, No. 1-2. (b 2008), pp. 37-49. by H. Dahle, F. Garshol, M. Madsen, N. K. Birkeland posted by 4 people suzannevdVelde jmeppley Microbial-Ecology Thaverkamp
	Bacterial diversity in deep Mediterranean sediments: relationship with the active bacterial fraction and substrate availability. [My Copy] Environmental microbiology, Vol. 6, No. 7. (July 2004), pp. 745-753. by G. M. Luna, A. Dell'Anno, L. Giuliano, R. Danovaro posted by 3 people jmeppley Microbial-Ecology Thaverkamp
	Exploratory experimentation and scientific practice: metagenomics and the proteorhodopsin case. [My Copy] History and philosophy of the life sciences, Vol. 29, No. 3. (2007), pp. 337-360. by M. A. O'Malley posted by 3 people jmeppley Microbial-Ecology Thaverkamp
	Phenotypic and genetic diversification of Pseudanabaena spp. (cyanobacteria). [My Copy] The ISME journal, Vol. 3, No. 1. (January 2009), pp. 31-46. by S. G. Acinas, T. H. Haverkamp, J. Huisman, L. J. Stal posted by 3 people jmeppley Microbial-Ecology Thaverkamp
	Colorful microdiversity of Synechococcus strains (picocyanobacteria) isolated from the Baltic Sea [My Copy] ISME J, Vol. 3, No. 4. (4 December 2008), pp. 397-408. by Thomas H. Haverkamp, Daphne Schouten, Marije Doeleman, Ute Wollenzien, Jef Huisman, Lucas J. Stal posted by 3 people jmeppley Microbial-Ecology Thaverkamp
	Identification of ribosomal RNA genes in metagenomic fragments [My Copy] Bioinformatics, Vol. 25, No. 10. (15 May 2009), pp. 1338-1340. by Ying Huang, Paul Gilna, Weizhong Li posted by 5 people iSEEM djkt Microbial-Ecology Thaverkamp jmeppley
	Metagenomics: Concept, methodology, ecological inference and recent advances. [My Copy] Biotechnology journal (13 March 2009) by Jagtar Singh, Arvind Behal, Neha Singla, et al.Amit Joshi, Niti Birbian, Sukhdeep Singh, Vandana Bali, Navneet Batra posted by 2 people Thaverkamp jmeppley
	KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 11. (1 June 2009), pp. 1470-1471. by Jitao David D. Zhang, Stefan Wiemann posted by 17 people jfr Thaverkamp daforerog Vincent_Rouilly kiara coela guhjy dolchan neils VGreiff nuin chrisamiller renatomilani jmeppley natstreet phoenixzxl druvus
	Population genomics and the bacterial species concept. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 532 (2009), pp. 367-377. by M. A. Riley, M. Lizotte-Waniewski posted by 6 people jasontsai Zephyrus jmeppley Microbial-Ecology Thaverkamp AaronDarling
	Biopython: freely available Python tools for computational molecular biology and bioinformatics [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1422-1423. by Peter J. A. Cock, Tiago Antao, Jeffrey T. Chang, et al.Brad A. Chapman, Cymon J. Cox, Andrew Dalke, Iddo Friedberg, Thomas Hamelryck, Frank Kauff, Bartek Wilczynski, Michiel J. L. de Hoon posted by 50 people agomez akou eesruiz Geknitics pekrau Systems_Biology Computational_Systems_Biology Sergey_gerbek hwright jfr karinaecomp applebyb klexa rdiaz FabienneGranier thegoose Structural Biology Group TorVergata oteri cmzmasek jwm guhjy Journal picks AlexBateman daforerog ltitodem Thaverkamp baker-group sobolevnrm psique Bioinformatics dswan neils dullhunk bertelsen Vincent_Rouilly gwallau brianb jorisslob svenrahmann jmeppley VGreiff sjcockell druvus Software-Architecture OER_Open_Educational_Resources Method_Engineering_Services jago kshameer operon svozil
	Visualization of genomic data with the Hilbert curve [My Copy] Bioinformatics, Vol. 25, No. 10. (15 May 2009), pp. 1231-1235. by Simon Anders posted by 17 people Yanno jfr jandot ewilban1 BergmanLab polivares inesdesantiago djkt behindtherabbit guhjy humburg Thaverkamp svenrahmann jmeppley idonaldson rdiaz paszkows