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djkts metagenomics [52 articles]

Neue Publikationen in djkts Bibliothek eingetragen unter dem Bezeichner: metagenomics. You can also see everyone's metagenomics.
  • Environmental Shotgun Sequencing: Its Potential and Challenges for Studying the Hidden World of Microbes
    PLoS Biology, Vol. 5, No. 3. (1 March 2007), e82.
    by Jonathan A Eisen
    posted to review metagenomics by djkt on 2008-07-24 23:21:06 as read along with 6 people and 2 groups olympos jmeppley jdelcampo azazello beatrizfernandez xingxu iSEEM Microbial-Ecology
  • Viral population estimation using pyrosequencing.
    PLoS computational biology, Vol. 4, No. 4. (April 2008)
    by N Eriksson, L Pachter, Y Mitsuya, SY Rhee, C Wang, B Gharizadeh, M Ronaghi, RW Shafer, N Beerenwinkel
    posted to virus popgen metagenomics diversity by djkt on 2008-07-24 23:16:52 as read along with 1 person and 1 group bmaust iSEEM
  • Inference of population genetic parameters in metagenomics: A clean look at messy data
    Genome Res., Vol. 16, No. 10. (1 October 2006), pp. 1320-1327.
    by Philip L Johnson, Montgomery Slatkin
    posted to popgen metagenomics by djkt on 2008-07-24 23:14:43 as read along with 2 people and 1 group jmeppley bluto iSEEM
  • Investigations of Oligonucleotide Usage Variance Within and Between Prokaryotes
    PLoS Comput Biol, Vol. 4, No. 4. (18 April 2008), e1000057.
    by Jon Bohlin, Eystein Skjerve, David W Ussery
    posted to microbes metagenomics by djkt on 2008-07-24 23:12:46 as read along with 1 group iSEEM
  • FastGroupII: A web-based bioinformatics platform for analyses of large 16S rDNA libraries
    BMC Bioinformatics, Vol. 7, No. 1. (2006)
    by Yanan Yu, Mya Breitbart, Pat Mcnairnie, Forest Rohwer
    posted to rna metagenomics by djkt on 2008-07-24 23:08:05 as read along with 1 group iSEEM
  • The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific
    PLoS Biology, Vol. 5, No. 3. (1 March 2007), e77.
    by Douglas B Rusch, Aaron L Halpern, Granger Sutton, 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, Craig J Venter
    posted to metagenomics by djkt on 2008-07-24 23:03:42 as read along with 9 people and 5 groups jmeppley kaspermunch michC jdelcampo stajich skoch3 beatrizfernandez kinestetika Thaverkamp iSEEM Bioinformatics Microbial-Ecology Koch_Lab microbiology_nijmegen
  • Metabolic complementarity and genomics of the dual bacterial symbiosis of sharpshooters.
    PLoS Biol, Vol. 4, No. 6. (June 2006)
    by D Wu, SC Daugherty, SE Van Aken, GH Pai, KL Watkins, H Khouri, LJ Tallon, JM Zaborsky, HE Dunbar, PL Tran, NA Moran, JA Eisen
    posted to rna microbes metagenomics by djkt on 2008-07-24 22:43:18 as read along with 1 person and 1 group operon iSEEM
  • Predicting prokaryotic ecological niches using genome sequence analysis.
    PLoS ONE, Vol. 2, No. 1. (2007)
    by G Suen, BS Goldman, RD Welch
    posted to microbes metagenomics ecology by djkt on 2008-07-24 22:41:01 as read along with 4 people and 3 groups jdelcampo blobbybirdman Thaverkamp kroos iSEEM Microbial-Ecology Myxo group
  • Spatial scaling of microbial eukaryote diversity
    Nature, Vol. 432, No. 7018. (09 December 2004), pp. 747-750.
    by Jessica L Green, Andrew J Holmes, Mark Westoby, Ian Oliver, David Briscoe, Mark Dangerfield, Michael Gillings, Andrew J Beattie
    posted to microbes metagenomics ecology by djkt on 2008-07-24 19:04:47 as read along with 1 group iSEEM
  • The diversity and biogeography of soil bacterial communities.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 103, No. 3. (17 January 2006), pp. 626-631.
    by N Fierer, RB Jackson
    posted to microbes metagenomics ecology by djkt on 2008-07-24 19:03:48 as read along with 1 group iSEEM
  • Larger Islands House More Bacterial Taxa
    Science, Vol. 308, No. 5730. (24 June 2005), 1884.
    by Thomas Bell, Duane Ager, Ji-Inn Song, Jonathan A Newman, Ian P Thompson, Andrew K Lilley, Christopher J van der Gast
    posted to microbes metagenomics ecology by djkt on 2008-07-24 19:02:53 as read along with 1 group iSEEM
  • A taxa-area relationship for bacteria
    Nature, Vol. 432, No. 7018. (09 December 2004), pp. 750-753.
    by Claire C Horner-Devine, Melissa Lage, Jennifer B Hughes, Brendan JM Bohannan
    posted to microbes metagenomics ecology by djkt on 2008-07-24 19:01:07 as read along with 1 person and 1 group mcox iSEEM
  • The application of rarefaction techniques to molecular inventories of microbial diversity.
    Methods Enzymol, Vol. 397 (2005), pp. 292-308.
    by JB Hughes, JJ Hellmann
    posted to microbes metagenomics diversity by djkt on 2008-07-24 19:00:05 as read along with 1 person and 1 group rabu iSEEM
  • Quantitative and Qualitative beta Diversity Measures Lead to Different Insights into Factors That Structure Microbial Communities
    Appl. Environ. Microbiol., Vol. 73, No. 5. (1 March 2007), pp. 1576-1585.
    by Catherine A Lozupone, Micah Hamady, Scott T Kelley, Rob Knight
    posted to metagenomics diversity by djkt on 2008-07-24 18:59:15 as read along with 1 person and 1 group Olaf_Ilzins iSEEM
  • Global patterns in bacterial diversity
    by Catherine A Lozupone, Rob Knight
    posted to review microbes metagenomics diversity by djkt on 2008-07-24 18:58:06 as read along with 1 group iSEEM
  • Bioinformatics for whole-genome shotgun sequencing of microbial communities.
    PLoS Comput Biol, Vol. 1, No. 2. (July 2005)
    by K Chen, L Pachter
    posted to review metagenomics by djkt on 2008-07-24 18:53:51 as ** along with 6 people and 3 groups knaseanka ana jmeppley dullhunk bluto wenhan iSEEM structural_bioinformatics Bioinformatics
  • A statistical toolbox for metagenomics: assessing functional diversity in microbial communities
    BMC Bioinformatics, Vol. 9 (23 January 2008), 34.
    by Patrick Schloss, Jo Handelsman
    posted to rna metagenomics diversity db by djkt on 2008-07-24 18:51:25 as ** along with 5 people and 4 groups bluto mjetten alexisfjdufresne jmeppley Thaverkamp iSEEM microbiology_nijmegen anammox Microbial-Ecology
  • Evaluating different approaches that test whether microbial communities have the same structure.
    The ISME journal, Vol. 2, No. 3. (March 2008), pp. 265-275.
    by PD Schloss
    posted to review metagenomics diversity by djkt on 2008-07-24 18:50:14 as ** along with 1 person and 1 group sconlan iSEEM
  • An application of statistics to comparative metagenomics.
    BMC Bioinformatics, Vol. 7, No. 1. (20 March 2006)
    by Beltran Rodriguez-Brito, Forest Rohwer, Robert Edwards
    posted to metagenomics diversity by djkt on 2008-07-24 18:48:39 as ** along with 4 people and 1 group carpi jmeppley knaseanka bluto iSEEM
  • The marine viromes of four oceanic regions.
    PLoS Biol, Vol. 4, No. 11. (November 2006)
    by FE Angly, B Felts, M Breitbart, P Salamon, RA Edwards, C Carlson, AM Chan, M Haynes, S Kelley, H Liu, JM Mahaffy, JE Mueller, J Nulton, R Olson, R Parsons, S Rayhawk, CA Suttle, F Rohwer
    posted to virus metagenomics ecology by djkt on 2008-07-24 18:47:14 as ** along with 3 people and 1 group balicea bluto xingxu iSEEM
  • UniFrac - An online tool for comparing microbial community diversity in a phylogenetic context
    BMC Bioinformatics, Vol. 7 (07 August 2006), 371.
    by Catherine Lozupone, Micah Hamady, Rob Knight
    posted to phylogenetics metagenomics diversity by djkt on 2008-07-24 18:45:57 as read along with 1 person and 1 group mcox iSEEM
  • Phylogenetic Approaches for Describing and Comparing the Diversity of Microbial Communities
    Appl. Environ. Microbiol., Vol. 68, No. 8. (1 August 2002), pp. 3673-3682.
    by Andrew P Martin
    posted to phylogenetics metagenomics diversity by djkt on 2008-07-24 18:45:14 as read along with 4 people and 2 groups Olaf_Ilzins mcox jmeppley Thaverkamp iSEEM Microbial-Ecology
  • Testing for Differentiation of Microbial Communities Using Phylogenetic Methods: Accounting for Uncertainty of Phylogenetic Inference and Character State Mapping
    Microbial Ecology, Vol. 52, No. 3. (October 2006), pp. 408-417.
    by Jones, Ryan, Martin, Andrew
    posted to phylogenetics metagenomics diversity by djkt on 2008-07-24 18:44:28 as read along with 1 group iSEEM
  • Introducing TreeClimber, a test to compare microbial community structures.
    Applied and environmental microbiology, Vol. 72, No. 4. (April 2006), pp. 2379-2384.
    by PD Schloss, J Handelsman
    posted to phylogenetics metagenomics diversity by djkt on 2008-07-24 18:42:35 as read along with 1 person and 1 group mcox iSEEM
  • Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples.
    Applied and environmental microbiology, Vol. 67, No. 9. (September 2001), pp. 4374-4376.
    by DR Singleton, MA Furlong, SL Rathbun, WB Whitman
    posted to rna metagenomics ecology diversity by djkt on 2008-07-24 18:41:42 as read along with 1 person and 1 group mcox iSEEM
  • Integration of Microbial Ecology and Statistics: a Test To Compare Gene Libraries
    Appl. Environ. Microbiol., Vol. 70, No. 9. (1 September 2004), pp. 5485-5492.
    by Patrick D Schloss, Bret R Larget, Jo Handelsman
    posted to microbes metagenomics ecology diversity by djkt on 2008-07-24 18:39:36 as read along with 2 people and 1 group mcox jmeppley iSEEM
  • Introducing SONS, a tool for operational taxonomic unit-based comparisons of microbial community memberships and structures.
    Applied and environmental microbiology, Vol. 72, No. 10. (October 2006), pp. 6773-6779.
    by PD Schloss, J Handelsman
    posted to phylogenetics metagenomics diversity by djkt on 2008-07-24 18:30:20 as read along with 1 person and 1 group sconlan iSEEM
  • Short pyrosequencing reads suffice for accurate microbial community analysis
    Nucl. Acids Res., Vol. 35, No. 18. (25 September 2007), e120.
    by Zongzhi Liu, Catherine Lozupone, Micah Hamady, Frederic D Bushman, Rob Knight
    posted to sequencing metagenomics by djkt on 2008-07-24 18:28:47 as read along with 3 people and 2 groups jlgreen vrich niallhaslam Green Lab iSEEM
  • Counting the Uncountable: Statistical Approaches to Estimating Microbial Diversity
    Appl. Environ. Microbiol., Vol. 67, No. 10. (1 October 2001), pp. 4399-4406.
    by Jennifer B Hughes, Jessica J Hellmann, Taylor H Ricketts, Brendan J Bohannan
    posted to review metagenomics diversity by djkt on 2008-07-24 18:27:30 as *** along with 6 people and 2 groups mcox vrich Olaf_Ilzins jmeppley Stenuite andrewirwin iSEEM Biological oceanography
  • EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences.
    International journal of systematic and evolutionary microbiology, Vol. 57, No. Pt 10. (October 2007), pp. 2259-2261.
    by J Chun, JH Lee, Y Jung, M Kim, S Kim, BK Kim, YW Lim
    posted to rna metagenomics db by djkt on 2008-07-24 18:25:38 as ** along with 1 group iSEEM
  • Alignment-independent bilinear multivariate modelling (AIBIMM) for global analyses of 16S rRNA gene phylogeny.
    Int J Syst Evol Microbiol, Vol. 56, No. Pt 7. (July 2006), pp. 1565-1575.
    by Knut Rudi, Monika Zimonja, Tormod Næs
    posted to rna phylogenetics metagenomics by djkt on 2008-07-24 18:24:08 as read along with 1 person and 1 group Bevan_Weir iSEEM
  • FastGroup: a program to dereplicate libraries of 16S rDNA sequences.
    BMC bioinformatics, Vol. 2 (2001)
    by V Seguritan, F Rohwer
    posted to rna metagenomics by djkt on 2008-07-24 18:23:05 as ** along with 1 group iSEEM
  • Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness.
    Applied and environmental microbiology, Vol. 71, No. 3. (March 2005), pp. 1501-1506.
    by PD Schloss, J Handelsman
    posted to metagenomics diversity by djkt on 2008-07-24 18:21:56 as read along with 3 people and 1 group sconlan mcox melissa_wos iSEEM
  • NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes.
    Nucleic Acids Res, Vol. 34, No. Web Server issue. (1 July 2006)
    by TZ DeSantis, P Hugenholtz, K Keller, EL Brodie, N Larsen, YM Piceno, R Phan, GL Andersen
    posted to rna metagenomics db by djkt on 2008-07-24 18:20:03 as read along with 3 people and 1 group mcox jmeppley nghoffma iSEEM
  • An Automated Phylogenetic Tree-Based Small Subunit rRNA Taxonomy and Alignment Pipeline (STAP)
    PLoS ONE, Vol. 3, No. 7. (2 July 2008), e2566.
    by Dongying Wu, Amber Hartman, Naomi Ward, Jonathan A Eisen
    posted to rna metagenomics by djkt on 2008-07-24 18:14:38 as *** along with 1 person and 1 group skato_toyaku iSEEM
  • Bellerophon: a program to detect chimeric sequences in multiple sequence alignments.
    Bioinformatics (Oxford, England), Vol. 20, No. 14. (22 September 2004), pp. 2317-2319.
    by T Huber, G Faulkner, P Hugenholtz
    posted to msa metagenomics chromosome by djkt on 2008-07-24 18:12:09 as ** along with 1 person and 1 group mcox iSEEM
  • SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    Nucl. Acids Res., Vol. 35, No. 21. (18 December 2007), pp. 7188-7196.
    by Elmar Pruesse, Christian Quast, Katrin Knittel, Bernhard M Fuchs, Wolfgang Ludwig, Jorg Peplies, Frank O Glockner
    posted to rna metagenomics db by djkt on 2008-07-24 18:09:38 as read along with 1 group iSEEM
  • Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB.
    Applied and environmental microbiology, Vol. 72, No. 7. (July 2006), pp. 5069-5072.
    by TZ DeSantis, P Hugenholtz, N Larsen, M Rojas, EL Brodie, K Keller, T Huber, D Dalevi, P Hu, GL Andersen
    posted to rna metagenomics db by djkt on 2008-07-24 18:08:12 as read along with 1 person and 1 group mcox iSEEM
  • Species divergence and the measurement of microbial diversity
    FEMS Microbiology Reviews (July 2008), pp. 557-578.
    by Catherine A Lozupone, Rob Knight
    posted to review microbes metagenomics ecology by djkt on 2008-07-24 18:04:10 as read along with 1 person and 2 groups jlgreen iSEEM Green Lab
  • Metagenomics: application of genomics to uncultured microorganisms.
    Microbiol Mol Biol Rev, Vol. 68, No. 4. (December 2004), pp. 669-685.
    by J Handelsman
    posted to review microbes metagenomics by djkt on 2008-07-24 18:00:33 as *** along with 5 people and 2 groups jlgreen orzenil mcox vrich knaseanka iSEEM Green Lab
  • Metagenomics: genomic analysis of microbial communities.
    Annu Rev Genet, Vol. 38 (2004), pp. 525-552.
    by CS Riesenfeld, PD Schloss, J Handelsman
    posted to review microbes metagenomics by djkt on 2008-07-24 17:59:26 as ** along with 4 people and 2 groups mcox knaseanka jmeppley wenhan iSEEM Green Lab
  • Population Genomic Analysis of Strain Variation in Leptospirillum Group II Bacteria Involved in Acid Mine Drainage Formation
    PLoS Biology, Vol. 6, No. 7. (1 July 2008), e177.
    by Sheri L Simmons, Genevieve Dibartolo, Vincent J Denef, Daniela S Goltsman, Michael P Thelen, Jillian F Banfield
    posted to popgen microbes metagenomics by djkt on 2008-07-23 03:21:12 as ** along with 1 group iSEEM
  • Taxonomic distribution of large DNA viruses in the sea
    Genome Biology, Vol. 9, No. 7. (2008)
    by Adam Monier, Jean M Claverie, Hiroyuki Ogata
    posted to virus microbes metagenomics by djkt on 2008-07-17 23:47:08 as ** along with 1 person and 1 group neils iSEEM
  • A diversity profile of the human skin microbiota.
    Genome research (23 May 2008)
    by Elizabeth A A Grice, Heidi H H Kong, Gabriel Renaud, Alice C C Young, , Gerard G G Bouffard, Robert W W Blakesley, Tyra G G Wolfsberg, Maria L L Turner, Julia A A Segre
    posted to microbes metagenomics human by djkt on 2008-07-01 19:18:08 as ** along with 3 people and 1 group sconlan caseybrown aprasad iSEEM
  • Evolution of Mammals and Their Gut Microbes
    Science, Vol. 320, No. 5883. (20 June 2008), pp. 1647-1651.
    by Ruth E Ley, Micah Hamady, Catherine Lozupone, Peter J Turnbaugh, Rob R Ramey, Stephen J Bircher, Michael L Schlegel, Tammy A Tucker, Mark D Schrenzel, Rob Knight, Jeffrey I Gordon
    posted to microbes metagenomics mammals evolution by djkt on 2008-06-20 16:34:54 as ** along with 3 people and 1 group lp2 dchughes dinnes iSEEM
  • Trends in Selenium Utilization in Marine Microbial World Revealed through the Analysis of the Global Ocean Sampling (GOS) Project
    PLoS Genet, Vol. 4, No. 6. (13 June 2008), e1000095.
    by Yan Zhang, Vadim N Gladyshev
    posted to metagenomics ecology by djkt on 2008-06-13 20:06:51 as ** along with 1 person and 1 group xingxu iSEEM
  • Microbial Biogeography: From Taxonomy to Traits
    Science, Vol. 320, No. 5879. (23 May 2008), pp. 1039-1043.
    by Jessica L Green, Brendan J Bohannan, Rachel J Whitaker
    posted to review phylogenetics microbes metagenomics ecology by djkt on 2008-05-23 17:15:53 as ** along with 5 people and 5 groups dbensasson dbikard vaulot stajich jdelcampo iSEEM Centre de Recherches Interdisciplinaires Papers recommended by the Roscoff Plankton Group Berkeley Mycology Microbial-Ecology
  • Microbial Ecology of Ocean Biogeochemistry: A Community Perspective
    Science, Vol. 320, No. 5879. (23 May 2008), pp. 1043-1045.
    by Suzanne L Strom
    posted to review microbes metagenomics ecology by djkt on 2008-05-23 17:14:32 as ** along with 1 person and 2 groups jdelcampo iSEEM Microbial-Ecology
  • Virus Population Dynamics and Acquired Virus Resistance in Natural Microbial Communities
    Science, Vol. 320, No. 5879. (23 May 2008), pp. 1047-1050.
    by Anders F Andersson, Jillian F Banfield
    posted to virus microbes metagenomics by djkt on 2008-05-23 17:10:54 as ** along with 1 group iSEEM
  • Functional metagenomic profiling of nine biomes
    Nature (12 March 2008)
    by Elizabeth A Dinsdale, Robert A Edwards, Dana Hall, Florent Angly, Mya Breitbart, Jennifer M Brulc, Mike Furlan, Christelle Desnues, Matthew Haynes, Linlin Li, Lauren Mcdaniel, Mary A Moran, Karen E Nelson, Christina Nilsson, Robert Olson, John Paul, Beltran R Brito, Yijun Ruan, Brandon K Swan, Rick Stevens, David L Valentine, Rebecca V Thurber, Linda Wegley, Bryan A White, Forest Rohwer
    posted to metagenomics by djkt on 2008-04-02 22:46:46 as ** along with 10 people and 5 groups jlgreen oelemento vaulot vrich jmeppley alexisfjdufresne bluto jyuh neils kinestetika Green Lab iSEEM Papers recommended by the Roscoff Plankton Group Microbial-Ecology microbiology_nijmegen
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