jmeppley's Top Recommendations

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	Quantitative phylogenetic assessment of microbial communities in diverse environments. [My Copy] Science (New York, N.Y.), Vol. 315, No. 5815. (23 February 2007), pp. 1126-1130. by C. von Mering, P. Hugenholtz, J. Raes, et al.S. G. Tringe, T. Doerks, L. J. Jensen, N. Ward, P. Bork posted by 27 people hwright pkm michaelbarton idoerg sriesenfeld skembel kozo-ni ana nickluscombe michC bluto agg19954 TaqSys azazello structural_bioinformatics Bioinformatics EBI-regulation Microbial-Ecology Thaverkamp larsjuhljensen rvgomes mjetten microbiology_nijmegen jlgreen Green Lab iSEEM djkt
	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
	Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models [My Copy] Nature Methods, Vol. 6, No. 9. (02 August 2009), pp. 673-676. by Arthur Brady, Steven L. Salzberg posted by 12 people azazello Orengo Group Journal Picks robertrentzsch dakelley skembel Thaverkamp iSEEM sharpton Journal picks jbhiatt Mycology stajich
	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 21 people azazello hzoltan cthachuk GustavoLacerda jasontsai n00c nuin dakelley skembel Thaverkamp reyez TRHvidsten iSEEM djkt Bioinformatics hpaces APRegier pengchy natstreet druvus darian
	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
	An efficient parallel approach for identifying protein families in large-scale metagenomic data sets [My Copy] In SC '08: Proceedings of the 2008 ACM/IEEE conference on Supercomputing (2008), pp. 1-10. by Changjun Wu, Ananth Kalyanaraman posted by 3 people Thaverkamp iSEEM skembel
	Viruses manipulate the marine environment [My Copy] Nature, Vol. 459, No. 7244. (13 May 2009), pp. 207-212. by Forest Rohwer, Rebecca V. Thurber posted by 6 people hwright tomhebbron skembel Thaverkamp iSEEM djkt
	Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples [My Copy] PLoS Comput Biol, Vol. 5, No. 4. (10 April 2009), e1000352. by James R. White, Niranjan Nagarajan, Mihai Pop posted by 15 people jfr Orengo Group Journal Picks CorinYeats dayjm taylor73 Thaverkamp hpaces sriesenfeld APRegier dswan druvus djkt iSEEM skembel idoerg
	Prokaryotic Genomes and Diversity in Surface Ocean Waters: Interrogating the Global Ocean Sampling Metagenome [My Copy] Appl. Environ. Microbiol., Vol. 75, No. 7. (1 April 2009), pp. 2221-2229. by Erin J. Biers, Shulei Sun, Erinn C. Howard posted by 4 people iSEEM skembel Thaverkamp EKotlarska
	The quest for orthologs: finding the corresponding gene across genomes [My Copy] Trends in Genetics, Vol. 24, No. 11. (24 November 2008), pp. 539-551. by A. Kuzniar, R. Vanham, S. Pongor, J. Leunissen posted by 14 people kiekyon maximilianh Thaverkamp orzenil kshameer carlk guhjy natstreet druvus treangen skembel gjuggler dchughes operon
	The convergence of carbohydrate active gene repertoires in human gut microbes [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 39. (30 September 2008), pp. 15076-15081. by Catherine A. Lozupone, Micah Hamady, Brandi L. Cantarel, et al.Pedro M. Coutinho, Bernard Henrissat, Jeffrey I. Gordon, Rob Knight posted by 7 people cmzmasek sharpton Thaverkamp iSEEM djkt skembel sg45653
	Annotation of metagenome short reads using proxygenes [My Copy] Bioinformatics, Vol. 24, No. 16. (15 August 2008), pp. i7-13. by Daniel Dalevi, Natalia N. Ivanova, Konstantinos Mavromatis, et al.Sean D. Hooper, Ernest Szeto, Philip Hugenholtz, Nikos C. Kyrpides, Victor M. Markowitz posted by 6 people Thaverkamp iSEEM druvus skembel hpaces neils
	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
	KEGG spider: interpretation of genomics data in the context of the global gene metabolic network [My Copy] Genome Biology, Vol. 9, No. 12. (2008), R179. by Alexey Antonov, Sabine Dietmann, Hans Mewes posted by 17 people Thaverkamp cgaugain ptrobajo jfr bluto sylvainforet Bioinformatics - CRUK Stew Cortel Roswell Cancer Crosstalk Zephyrus guhjy neils cmzmasek fgibson dullhunk druvus
	Microbial Ecology of Ocean Biogeochemistry: A Community Perspective [My Copy] Science, Vol. 320, No. 5879. (23 May 2008), pp. 1043-1045. by Suzanne L. Strom posted by 8 people hwright Thaverkamp bluto djkt jdelcampo Microbial-Ecology iSEEM fornstar
	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
	Gene-Boosted Assembly of a Novel Bacterial Genome from Very Short Reads [My Copy] 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 22 people 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
	Gene prediction in metagenomic fragments: a large scale machine learning approach [My Copy] BMC Bioinformatics, Vol. 9 (28 April 2008), 217. by Katharina J. Hoff, Maike Tech, Thomas Lingner, Rolf Daniel, Burkhard Morgenstern, Peter Meinicke posted by 10 people Thaverkamp idoerg druvus alexl mjetten anammox microbiology_nijmegen stajich Mycology azazello
	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 10 people azazello sgoetz stefanorb coela Thaverkamp barriot druvus JeremyZucker klager MetabolicModeling
	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 (26 February 2007), 64. by Daniel D. Sommer, Arthur L. Delcher, Steven L. Salzberg, Mihai Pop posted by 4 people 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
	Metabolic-network-driven analysis of bacterial ecological strategies [My Copy] Genome Biology, Vol. 10, No. 6. (05 June 2009), R61. by Shiri Freilich, Anat Kreimer, Elhanan Borenstein, et al.Nir Yosef, Roded Sharan, Uri Gophna, Eytan Ruppin posted by 10 people bovee michaelbarton seamudbug Winzer tomhebbron Microbial-Ecology Thaverkamp druvus iSEEM jlgreen
	XplorSeq: A software environment for integrated management and phylogenetic analysis of metagenomic sequence data [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (07 October 2008), 420. by Daniel Frank posted by 9 people Papers recommended by the Roscoff Plankton Group Microbial-Ecology vaulot iSEEM jlgreen Thaverkamp treangen ojabado nuin
	SAR11 marine bacteria require exogenous reduced sulphur for growth [My Copy] Nature (12 March 2008) by James H. Tripp, Joshua B. Kitner, Michael S. Schwalbach, John W. H. Dacey, Larry J. Wilhelm, Stephen J. Giovannoni posted by 9 people sanxiyn Microbial-Ecology Thaverkamp mblwhoi vaulot Papers recommended by the Roscoff Plankton Group jlgreen Green Lab iSEEM
	Microbial community gene expression in ocean surface waters [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 10. (11 March 2008), pp. 3805-3810. by Jorge Frias-Lopez, Yanmei Shi, Gene W. Tyson, et al.Maureen L. Coleman, Stephan C. Schuster, Sallie W. Chisholm, Edward F. DeLong posted by 14 people hwright druvus elbrodie idoerg bluto skembel mcox tmmurali vaulot mjetten microbiology_nijmegen jlgreen Green Lab iSEEM
	The marine viromes of four oceanic regions. [My Copy] PLoS Biol, Vol. 4, No. 11. (November 2006) by F. E. Angly, B. Felts, M. Breitbart, et al.P. Salamon, R. A. Edwards, C. Carlson, A. M. Chan, M. Haynes, S. Kelley, H. Liu, J. M. Mahaffy, J. E. Mueller, J. Nulton, R. Olson, R. Parsons, S. Rayhawk, C. A. Suttle, F. Rohwer posted by 9 people hwright anphony azazello balicea bluto xingxu djkt iSEEM jlgreen
	Sense from sequence reads: methods for alignment and assembly [My Copy] Nat Meth, Vol. 6, No. 11s. (15 November 2009), pp. S6-S12. by Paul Flicek, Ewan Birney posted by 15 people pst owenlancaster Orengo Group Journal Picks robertrentzsch oannes74 Thaverkamp jasontsai natstreet seb1 druvus chvlyl GeeSharpMinor n00c venancio desany
	KEGGconverter: a tool for the in-silico modelling of metabolic networks of the KEGG Pathways database [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (08 October 2009), 324. by Konstantinos Moutselos, Ioannis Kanaris, Aristotelis Chatziioannou, Ilias Maglogiannis, Fragiskos Kolisis posted by 10 people tonamswish Thaverkamp Orengo Group Journal Picks sillitoe trogdor druvus ptrobajo dullhunk reyez renatomilani
	Metabolic pathfinding using RPAIR annotation. [My Copy] Journal of molecular biology, Vol. 388, No. 2. (1 May 2009), pp. 390-414. by Karoline Faust, Didier Croes, Jacques van Helden posted by 3 people Thaverkamp druvus ptrobajo
	PAVE: Program for assembling and viewing ESTs [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 400. by Carol Soderlund, Eric Johnson, Matthew Bomhoff, Anne Descour posted by 5 people Thaverkamp rtogawa FabienneGranier natstreet druvus
	LookSeq: A browser-based viewer for deep sequencing data [My Copy] Genome Research, Vol. 19, No. 11. (29 November 2009), pp. 2125-2132. by Heinrich M. Manske, Dominic P. Kwiatkowski posted by 30 people hzoltan darian dakelley tonamswish inesdesantiago Thaverkamp BergmanLab idonaldson heliopais owhitney GustavoLacerda ngehlenborg sandfire fpattyn xianjun katholt stubrown orzenil operon guhjy kongl Mycology stajich n00c torfinnnome nuin kshameer neils druvus natstreet
	Mapping Accuracy of Short Reads from Massively Parallel Sequencing and the Implications for Quantitative Expression Profiling [My Copy] PLoS ONE, Vol. 4, No. 7. (28 July 2009), e6323. by Nicola Palmieri, Christian Schlötterer posted by 20 people torfinnnome hzoltan darian debasis mqbphcw3 stubrown Thaverkamp PabloMarin jasontsai Journal picks ThomasDOtto heliopais guhjy JLab BergmanLab cisevol n00c natstreet druvus jbhiatt
	The consequences of genetic drift for bacterial genome complexity [My Copy] Genome Research, Vol. 19, No. 8. (5 August 2009), pp. 1450-1454. by Chih-Horng Kuo, Nancy A. Moran, Howard Ochman posted by 4 people iSEEM djkt Thaverkamp druvus
	Using R in Taverna: RShell v1.2 [My Copy] BMC Research Notes, Vol. 2, No. 1. (16 July 2009), 138. by Ingo Wassink, Han Rauwerda, Pieter Neerincx, et al.Paul E. Vet, Timo Breit, Jack Leunissen, Anton Nijholt posted by 8 people Yanno isimpson guhjy Thaverkamp daforerog natstreet druvus dullhunk
	IMG ER: a system for microbial genome annotation expert review and curation [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2271-2278. by Victor M. Markowitz, Konstantinos Mavromatis, Natalia N. Ivanova, I-Min A. Chen, Ken Chu, Nikos C. Kyrpides posted by 5 people kiekyon Thaverkamp neils natstreet druvus
	Genomic Characterization of Methanomicrobiales Reveals Three Classes of Methanogens [My Copy] PLoS ONE, Vol. 4, No. 6. (4 June 2009), e5797. by Iain Anderson, Luke E. Ulrich, Boguslaw Lupa, et al.Dwi Susanti, Iris Porat, Sean D. Hooper, Athanasios Lykidis, Magdalena Sieprawska-Lupa, Lakshmi Dharmarajan, Eugene Goltsman, Alla Lapidus, Elizabeth Saunders, Cliff Han, Miriam Land, Susan Lucas, Biswarup Mukhopadhyay, William B. Whitman, Carl Woese, James Bristow, Nikos Kyrpides posted by 1 person Thaverkamp
	Biogeography of the Sulfolobus islandicus pan-genome [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 21. (26 May 2009), pp. 8605-8610. by Michael L. Reno, Nicole L. Held, Christopher J. Fields, Patricia V. Burke, Rachel J. Whitaker posted by 1 person Thaverkamp
	EDGAR: A software framework for the comparative analysis of prokaryotic genomes [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 154. by Jochen Blom, Stefan Albaum, Daniel Doppmeier, et al.Alfred Puhler, Frank J. Vorholter, Martha Zakrzewski, Alexander Goesmann posted by 6 people Thaverkamp nuin druvus operon Journal picks AlexBateman
	Suppression Subtractive Hybridisation Allows Selective Sampling of Metagenomic Subsets of Interest. [My Copy] Journal of microbiological methods (11 May 2009) by Yi Vee V. Chew, Andrew J J. Holmes posted by 2 people Bioinformatics Thaverkamp
	The otherness of the oceans [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 166-167. by Alexandra Z. Worden, Darcy Mcrose posted by 2 people Microbial-Ecology Thaverkamp
	The life of diatoms in the world's oceans [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 185-192. by Virginia E. Armbrust posted by 3 people omc11 Microbial-Ecology Thaverkamp
	Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 219. by Eli Meyer, Galina Aglyamova, Shi Wang, et al.Jade B. Carter, David Abrego, John Colbourne, Bette Willis, Mikhail Matz posted by 7 people orzenil mlog jonilaserson Mycology stajich Thaverkamp idoerg
	Green Evolution and Dynamic Adaptations Revealed by Genomes of the Marine Picoeukaryotes Micromonas [My Copy] Science, Vol. 324, No. 5924. (10 April 2009), pp. 268-272. by Alexandra Z. Worden, Jae-Hyeok Lee, Thomas Mock, et al.Pierre Rouze, Melinda P. Simmons, Andrea L. Aerts, Andrew E. Allen, Marie L. Cuvelier, Evelyne Derelle, Meredith V. Everett, Elodie Foulon, Jane Grimwood, Heidrun Gundlach, Bernard Henrissat, Carolyn Napoli, Sarah M. McDonald, Micaela S. Parker, Stephane Rombauts, Aasf Salamov, Peter Von Dassow, Jonathan H. Badger, Pedro M. Coutinho, Elif Demir, Inna Dubchak, Chelle Gentemann, Wenche Eikrem, Jill E. Gready, Uwe John, William Lanier, Erika A. Lindquist, Susan Lucas, Klaus F. X. Mayer, Herve Moreau, Fabrice Not, Robert Otillar, Olivier Panaud, Jasmyn Pangilinan, Ian Paulsen, Benoit Piegu, Aaron Poliakov, Steven Robbens, Jeremy Schmutz, Eve Toulza, Tania Wyss, Alexander Zelensky, Kemin Zhou, E. Virginia Armbrust, Debashish Bhattacharya, Ursula W. Goodenough, Yves Van de Peer, Igor V. Grigoriev posted by 3 people dandaman operon Thaverkamp
	How to map billions of short reads onto genomes [My Copy] Nature Biotechnology, Vol. 27, No. 5. (01 May 2009), pp. 455-457. by Cole Trapnell, Steven L. Salzberg posted by 34 people cthachuk hzoltan tonamswish heliopais giovenko Bioinformatics jfr torfinnnome daforerog jonilaserson Chinnaiyan Lab mkiyer Annab darian BergmanLab polivares SIMR bioinformatics ghattem kiekyon n00c GeeSharpMinor guhjy nuin reyez orzenil Thaverkamp natstreet druvus fenghezi Bioinformatics - CRUK Stew inesdesantiago idonaldson neils
	ANNIE: integrated de novo protein sequence annotation [My Copy] Nucl. Acids Res., Vol. 37, No. suppl_2. (1 July 2009), pp. W435-440. by Hong S. Ooi, Chia Y. Kwo, Michael Wildpaner, et al.Fernanda L. Sirota, Birgit Eisenhaber, Sebastian Maurer-Stroh, Wing C. Wong, Alexander Schleiffer, Frank Eisenhaber, Georg Schneider posted by 6 people nlapalu Thaverkamp druvus dullhunk guhjy renatomilani
	Next-generation pyrosequencing of gonad transcriptomes in the polyploid lake sturgeon (Acipenser fulvescens): the relative merits of normalization and rarefaction in gene discovery [My Copy] BMC Genomics, Vol. 10 (29 April 2009), 203. by Matthew, Andrew J. Dewoody posted by 4 people Mycology stajich Schmidtc Thaverkamp
	Detecting Lateral Genetic Transfer [My Copy] Bioinformatics, Vol. 452 (2008), pp. 457-469. by Robert G. Beiko, Mark A. Ragan posted by 2 people calderonv Thaverkamp
	EnGenIUS -- Environmental Genome Informational Utility System. [My Copy] Journal of bioinformatics and computational biology, Vol. 6, No. 6. (December 2008), pp. 1193-1211. by M. Kaplarevic, A. E. Murray, S. C. Cary, G. R. Gao posted by 2 people Nagy Thaverkamp
	Comparative genomic analysis using the UCSC genome browser. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 395 (2007), pp. 17-34. by D. Karolchik, G. Bejerano, A. S. Hinrichs, et al.R. M. Kuhn, W. Miller, K. R. Rosenbloom, A. S. Zweig, D. Haussler, W. J. Kent posted by 1 person Thaverkamp
	Choosing the right path: enhancement of biologically relevant sets of genes or proteins using pathway structure [My Copy] Genome Biology, Vol. 10, No. 4. (24 April 2009), R44. by Reuben Thomas, Julia Gohlke, Geffrey Stopper, Frederick Parham, Christopher Portier posted by 5 people jfr greg thomaskelder guhjy Thaverkamp
	Analysis of the Rickettsia africae genome reveals that virulence acquisition in Rickettsia species may be explained by genome reduction [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 166. by Pierre E. Fournier, Khalid E. Karkouri, Quentin Leroy, et al.Catherine Robert, Bernadette Giumelli, Patricia Renesto, Cristina Socolovschi, Philippe Parola, Stephane Audic, Didier Raoult posted by 2 people Thaverkamp druvus
	Diversity and abundance of bacteria in an underground oil-storage cavity. [My Copy] BMC microbiology, Vol. 2 (28 August 2002) by K. Watanabe, Y. Kodama, N. Kaku posted by 2 people florisbuijzen Thaverkamp
	Analysis of environmental microbial communities by reverse sample genome probing. [My Copy] Journal of microbiological methods, Vol. 53, No. 2. (May 2003), pp. 211-219. by E. A. Greene, G. Voordouw posted by 1 person Thaverkamp
	Microbiology of petroleum reservoirs. [My Copy] Antonie van Leeuwenhoek, Vol. 77, No. 2. (February 2000), pp. 103-116. by M. Magot, B. Ollivier, B. K. Patel posted by 1 person Thaverkamp
	Isolation, gene detection and solvent tolerance of benzene, toluene and xylene degrading bacteria from nearshore surface water and Pacific Ocean sediment. [My Copy] Extremophiles : life under extreme conditions, Vol. 12, No. 3. (May 2008), pp. 335-342. by L. Wang, N. Qiao, F. Sun, Z. Shao posted by 1 person Thaverkamp
	Identification and diversity of putative aminoglycoside-biosynthetic aminotransferase genes from deep-sea environmental DNA. [My Copy] Bioscience, biotechnology, and biochemistry, Vol. 72, No. 5. (May 2008), pp. 1388-1393. by R. Aoki, A. Nagaya, S. Arakawa, C. Kato, H. Tamegai posted by 1 person Thaverkamp
	Actinomycetes from sediments in the Trondheim fjord, Norway: diversity and biological activity. [My Copy] Marine drugs, Vol. 6, No. 1. (2008), pp. 12-24. by H. Bredholt, E. Fjaervik, G. Johnsen, S. B. Zotchev posted by 1 person Thaverkamp
	Phylogenetic diversity of sediment bacteria from the southern Cretan margin, Eastern Mediterranean Sea. [My Copy] Systematic and applied microbiology, Vol. 32, No. 1. (February 2009), pp. 17-26. by P. N. Polymenakou, N. Lampadariou, M. Mandalakis, A. Tselepides posted by 1 person Thaverkamp
	Inter- and intra-habitat bacterial diversity associated with cold-water corals. [My Copy] The ISME journal (12 March 2009) by Sandra Schöttner, Friederike Hoffmann, Christian Wild, Hans Tore T. Rapp, Antje Boetius, Alban Ramette posted by 1 person Thaverkamp
	Sequence assembly [My Copy] Computational Biology and Chemistry, Vol. 33, No. 2. (April 2009), pp. 121-136. by K. Scheibye-Alsing, S. Hoffmann, A. Frankel, et al.P. Jensen, P. F. Stadler, Y. Mang, N. Tommerup, M. J. Gilchrist, A. B. Nygård, S. Cirera posted by 9 people GustavoLacerda n00c katholt orzenil guhjy natstreet Thaverkamp robsyme druvus
	The transferome of metabolic genes explored: analysis of the horizontal transfer of enzyme encoding genes in unicellular eukaryotes. [My Copy] Genome biology, Vol. 10, No. 4. (15 April 2009), R36. by John W. Whitaker, Glenn A. McConkey, David R. Westhead posted by 8 people barriot johnwhitaker michaelbarton Microbial-Ecology Thaverkamp cmzmasek neils biomcgary
	ProbeMatch: rapid alignment of oligonucleotides to genome allowing both gaps and mismatches. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 11. (1 June 2009), pp. 1424-1425. by You Jung J. Kim, Nikhil Teletia, Victor Ruotti, et al.Christopher A. Maher, Arul M. Chinnaiyan, Ron Stewart, James A. Thomson, Jignesh M. Patel posted by 15 people Bioinformatics jfr mmartin n00c guhjy nuin idonaldson Journal picks AlexBateman bmajoros humburg Thaverkamp druvus svenrahmann djkt
	How genomics has affected the concept of microbiology [My Copy] Current Opinion in Microbiology, Vol. 8, No. 5. (October 2005), pp. 564-571. by N. Ward, C. Fraser posted by 3 people druvus Thaverkamp AaronDarling
	The Distribution of Fitness Effects of Beneficial Mutations in <italic>Pseudomonas aeruginosa</italic> [My Copy] PLoS Genet, Vol. 5, No. 3. (6 March 2009), e1000406. by Craig R. Maclean, Angus Buckling posted by 3 people diamantis Thaverkamp trfield
	Chapter 6 Microbial Processes in Oil FieldsCulprits, Problems, and Opportunities [My Copy] In Advances in Applied Microbiology Volume 66, Vol. 66 (2009), pp. 141-251. by Noha Youssef, Mostafa S. Elshahed, Michael J. Mcinerney posted by 2 people Thaverkamp florisbuijzen
	Single-pass classification of all noncoding sequences in a bacterial genome using phylogenetic profiles [My Copy] Genome Research, Vol. 19, No. 6. (1 June 2009), pp. 1084-1092. by Antonin Marchais, Magali Naville, Chantal Bohn, Philippe Bouloc, Daniel Gautheret posted by 4 people Journal picks ppgardne Thaverkamp samgj
	Genome data mining for everyone. [My Copy] BMB reports, Vol. 41, No. 11. (30 November 2008), pp. 757-764. by G. W. Lee, S. Kim posted by 4 people Thaverkamp daforerog shoshin guhjy
	Genome and proteome annotation: organization, interpretation and integration [My Copy] Journal of The Royal Society Interface, Vol. 6, No. 31. (6 February 2009), pp. 129-147. by Gabrielle A. Reeves, David Talavera, Janet M. Thornton posted by 7 people operon bertelsen richardbickerton Thaverkamp druvus dullhunk guhjy
	Diversity of ring-hydroxylating dioxygenases in pristine and oil contaminated microbial mats at genomic and transcriptomic levels [My Copy] Environmental Microbiology, Vol. 10, No. 12. (December 2008), pp. 3201-3211. by Bordenave, Sylvain, Goni-Urriza, et al. Marisol, Vilette, Cecile, Blanchard, Sophie, Caumette, Pierre, Duran, Robert posted by 1 person Thaverkamp
	The Rough Guide to In Silico Function Prediction, or How To Use Sequence and Structure Information To Predict Protein Function [My Copy] PLoS Comput Biol, Vol. 4, No. 10. (31 October 2008), e1000160. by Marco Punta, Yanay Ofran posted by 21 people pansapiens kiekyon Thaverkamp niallhaslam daforerog Zalanszabo bpcusack microbiology_nijmegen Katje joseph_x_zhou taguchi sjcockell markchen ptrobajo chad_davis druvus mdstobbe giovenko nilanjanroy reyez GeeSharpMinor
	Genome Annotation [My Copy] Bioinformatics (2008), pp. 125-139. by Hideya Kawaji, Yoshihide Hayashizaki posted by 2 people Thaverkamp inesdesantiago
	A database of phylogenetically atypical genes in archaeal and bacterial genomes, identified using the DarkHorse algorithm. [My Copy] BMC bioinformatics, Vol. 9 (07 October 2008), 419. by Sheila Podell, Terry Gaasterland, Eric E. Allen posted by 4 people Bioinformatics Thaverkamp cgaugain barriot
	The infinite sites model of genome evolution [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 38. (23 September 2008), pp. 14254-14261. by Jian Ma, Aakrosh Ratan, Brian J. Raney, Bernard B. Suh, Webb Miller, David Haussler posted by 10 people sharpton Thaverkamp AaronDarling ilyashl druvus operon inesdesantiago Mycology stajich stringertheory
	The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (19 September 2008), 386. by F. Meyer, D. Paarmann, M. D'Souza, et al.R. Olson, E. M. Glass, M. Kubal, T. Paczian, A. Rodriguez, R. Stevens, A. Wilke, J. Wilkening, R. A. Edwards posted by 9 people taylor73 idoerg Thaverkamp druvus guhjy operon ojabado nuin neils
	mut-7 of C. elegans, required for transposon silencing and RNA interference, is a homolog of Werner syndrome helicase and RNaseD. [My Copy] Cell, Vol. 99 (1999), pp. 133-141. by R. F. Ketting, T. H. A. Haverkamp, H. G. A. M. van Luenen, R. H. A. Plasterk posted by 4 people thegoose2 Thaverkamp C. elegans / WormBase tharris
	Dominance of putative marine benthic Archaea in Qinghai Lake, north-western China [My Copy] Environmental Microbiology, Vol. 10, No. 9. (September 2008), pp. 2355-2367. by Jiang, Hongchen, Dong, et al. Hailiang, Yu, Bingsong, Ye, Qi, Shen, Ji, Rowe, Harry, Zhang, Chuanlun posted by 2 people Thaverkamp skato_toyaku
	FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology [My Copy] Bioinformatics, Vol. 24, No. 15. (1 August 2008), pp. 1729-1730. by Anthony P. Fejes, Gordon Robertson, Mikhail Bilenky, Richard Varhol, Matthew Bainbridge, Steven J. M. Jones posted by 22 people hzoltan darian n00c polivares idonaldson tonamswish ewilban1 humburg Bioinformatics Thaverkamp natstreet druvus Mycology stajich cassj WanderingAengus rschulz jfr sconlan reyez guhjy vega
	EagleView: A genome assembly viewer for next-generation sequencing technologies [My Copy] Genome Research, Vol. 18, No. 9. (11 September 2008), pp. 1538-1543. by Weichun Huang, Gabor Marth posted by 16 people Thaverkamp imaginatio hpaces darian n00c xingxu natstreet abizar druvus balicea bcondon fpattyn APRegier Neeperando GustavoLacerda guhjy
	KEGG Atlas mapping for global analysis of metabolic pathways. [My Copy] Nucleic acids research, Vol. 36, No. Web Server issue. (1 July 2008), gkn282. by Shujiro Okuda, Takuji Yamada, Masami Hamajima, et al.Masumi Itoh, Toshiaki Katayama, Peer Bork, Susumu Goto, Minoru Kanehisa posted by 7 people Thaverkamp chica epigenetics michaelbarton reyez renatomilani guhjy
	Use and misuse of the gene ontology annotations [My Copy] Nature Reviews Genetics, Vol. 9, No. 7. (13 May 2008), pp. 509-515. by Seung Yon Rhee, Valerie Wood, Kara Dolinski, Sorin Draghici posted by 43 people epigenetics davidmam Thaverkamp druvus dullhunk 8_01 suizan dolchan Borelli Zephyrus VGreiff klo thomaskelder ilyashl phoenixzxl MarcoAlvarez isakemal bertelsen daforerog jfr djkt guhjy aheilbut mariakmejia cmzmasek A_Olympia logics of knowledge realzhang carlk roys gjuggler fpattyn RamuAnandakrishnan ptrobajo giovenko cabbagesofdoom tmmurali renatomilani capitall marck rvosa FAB-lab bpcusack
	Diverse syntrophic partnerships from deep-sea methane vents revealed by direct cell capture and metagenomics [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 19. (13 May 2008), pp. 7052-7057. by Annelie Pernthaler, Anne E. Dekas, C. Titus Brown, Shana K. Goffredi, Tsegereda Embaye, Victoria J. Orphan posted by 5 people Thaverkamp skato_toyaku vaulot Microbial-Ecology Papers recommended by the Roscoff Plankton Group
	Microbial Diversity in Natural Asphalts of the Rancho La Brea Tar Pits [My Copy] Appl. Environ. Microbiol., Vol. 73, No. 14. (15 July 2007), pp. 4579-4591. by Jong-Shik Kim, David E. Crowley posted by 3 people Thaverkamp microrita Olaf_Ilzins
	Culture-Dependent and Culture-Independent Characterization of Microbial Assemblages Associated with High-Temperature Petroleum Reservoirs [My Copy] Appl. Environ. Microbiol., Vol. 66, No. 2. (1 February 2000), pp. 700-711. by V. J. Orphan, L. T. Taylor, D. Hafenbradl, E. F. Delong posted by 2 people Thaverkamp Olaf_Ilzins
	annot8r: rapid assignment of GO, EC and KEGG annotations [My Copy] BMC Bioinformatics, Vol. 9 (09 April 2008), 180. by Ralf Schmid, Mark L. Blaxter posted by 9 people Thaverkamp coela JeremyZucker natstreet druvus renatomilani stajich Mycology guhjy
	JCoast - A biologist-centric software tool for data mining and comparison of prokaryotic (meta)genomes [My Copy] BMC Bioinformatics, Vol. 9 (01 April 2008), 177. by Michael Richter, Thierry Lombardot, Ivaylo Kostadinov, et al.Renzo Kottmann, Melissa B. Duhaime, Jorg Peplies, Frank O. Glockner posted by 6 people Bioinformatics Thaverkamp treangen druvus wisdom_love beatrizfernandez
	Genome assembly forensics: finding the elusive mis-assembly [My Copy] Genome Biology, Vol. 9, No. 3. (14 March 2008), R55. by Adam Phillippy, Michael Schatz, Mihai Pop posted by 12 people n00c Thaverkamp kiekyon dakelley jasontsai orzenil DeNovoAssembly-SIMR druvus fernan lp2 Neeperando GustavoLacerda
	Seasonal and habitat-related distribution pattern of Synechococcus genotypes in Lake Constance [My Copy] FEMS Microbiology Ecology, Vol. 62, No. 1. (2007), pp. 64-77. by Sven Becker, Petra Richl, Anneliese Ernst posted by 4 people Stenuite Microbial-Ecology Thaverkamp andrewirwin
	Designing multiple degenerate primers via consecutive pairwise alignments [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Hamed S. Najafabadi, Noorossadat Torabi, Mahmood Chamankhah posted by 3 people Microbial-Ecology Thaverkamp guhjy
	Light Variability Illuminates Niche-Partitioning among Marine Picocyanobacteria. [My Copy] PLoS ONE, Vol. 2, No. 12. (2007) by C. Six, Z. V. Finkel, A. J. Irwin, D. A. Campbell posted by 4 people Microbial-Ecology Thaverkamp andrewirwin Biological oceanography
	Global phylogeography of marine Synechococcus and Prochlorococcus reveals a distinct partitioning of lineages among oceanic biomes [My Copy] Environmental Microbiology, Vol. 0, No. 0. (0), pp. ???-???. by Katrin Zwirglmaier, Ludwig Jardillier, Martin Ostrowski, et al.Sophie Mazard, Laurence Garczarek, Daniel Vaulot, Fabrice Not, Ramon Massana, Osvaldo Ulloa, Dave J. Scanlan posted by 6 people hwright Stenuite Microbial-Ecology Thaverkamp andrewirwin Biological oceanography
	KEGG for linking genomes to life and the environment. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (11 January 2008), pp. D480-484. by Minoru Kanehisa, Michihiro Araki, Susumu Goto, et al.Masahiro Hattori, Mika Hirakawa, Masumi Itoh, Toshiaki Katayama, Shuichi Kawashima, Shujiro Okuda, Toshiaki Tokimatsu, Yoshihiro Yamanishi posted by 31 people Thaverkamp sjcockell JeremyZucker jperkins vkwn pablocarb VGreiff mqbphcw3 karinlag robert85 peterli jjray schwartzjmc ubcg08l allysonlister YukaH Cortel coela daforerog reyez namunet irenas guhjy raiyar barriot renatomilani shung hpaces massivemayhem natstreet TheresaNiederberger
	Diversity and evolution of phycobilisomes in marine Synechococcus spp. - a comparative genomics study [My Copy] Genome Biology, Vol. 8 (06 December 2007), R259. by Christophe Six, Jean-Claude Thomas, Laurence Garczarek, et al.Martin Ostrowski, Alexis Dufresne, Nicolas Blot, David J. Scanlan, Frederic Partensky posted by 3 people cjeans Microbial-Ecology Thaverkamp
	Differential response of phytoplankton to additions of nitrogen, phosphorus and iron in Lake Tanganyika [My Copy] Freshwater Biology, Vol. 0, No. 0. (0), pp. ???-???. by Aaike D. E. Wever, Koenraad Muylaert, Denis Langlet, et al.Laurent Alleman, Pierre J. E. A. N. Descy, L. U. C. Andre, Christine Cocquyt, W. I. M. Vyverman posted by 4 people Stenuite Microbial-Ecology Thaverkamp andrewirwin