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mcoxs methods [56 articles]

Neue Publikationen in mcoxs Bibliothek eingetragen unter dem Bezeichner: methods. You can also see everyone's methods.
  • Simultaneous recovery of extracellular and intracellular DNA suitable for molecular studies from marine sediments.
    Applied and environmental microbiology, Vol. 71, No. 1. (January 2005), pp. 46-50.
    by C Corinaldesi, R Danovaro, A Dell'Anno
    posted to sediments methods extraction dna by mcox on 2008-05-19 22:33:17 as **
  • Conditionally amplifiable BACs: switching from single-copy to high-copy vectors and genomic clones.
    Genome research, Vol. 12, No. 9. (September 2002), pp. 1434-1444.
    by J Wild, Z Hradecna, W Szybalski
    posted to methods library fosmid bac by mcox on 2008-05-19 22:19:26 as **
  • Application of tetranucleotide frequencies for the assignment of genomic fragments.
    Environ Microbiol, Vol. 6, No. 9. (September 2004), pp. 938-947.
    by H Teeling, A Meyerdierks, M Bauer, R Amann, FO Glöckner
    posted to tetranucleotide methods metagenomics genomics bioinformatics by mcox on 2008-05-19 22:15:07 as ** along with 3 people michC bluto george_g
  • Analysis of bacterial community composition by oligonucleotide fingerprinting of rRNA genes.
    Applied and environmental microbiology, Vol. 68, No. 7. (July 2002), pp. 3243-3250.
    by L Valinsky, G Della Vedova, AJ Scupham, S Alvey, A Figueroa, B Yin, RJ Hartin, M Chrobak, DE Crowley, T Jiang, J Borneman
    posted to rna methods fingerprinting 16s by mcox on 2008-05-19 21:46:06 as **
  • Levels of Bacterial Community Diversity in Four Arid Soils Compared by Cultivation and 16S rRNA Gene Cloning
    Appl. Environ. Microbiol., Vol. 65, No. 4. (1 April 1999), pp. 1662-1669.
    by John Dunbar, Shannon Takala, Susan M Barns, Jody A Davis, Cheryl R Kuske
    posted to statistics soil pcr methods library diversity clone 16s by mcox on 2008-05-19 21:29:49 as ** along with 1 person Olaf_Ilzins
  • Fidelity of select restriction endonucleases in determining microbial diversity by terminal-restriction fragment length polymorphism.
    Applied and environmental microbiology, Vol. 69, No. 8. (August 2003), pp. 4823-4829.
    by JJ Engebretson, CL Moyer
    posted to trflp methods diversity by mcox on 2008-05-19 18:43:13 as **
  • Stable-isotope probing as a tool in microbial ecology.
    Nature, Vol. 403, No. 6770. (10 February 2000), pp. 646-649.
    by S Radajewski, P Ineson, NR Parekh, JC Murrell
    posted to stable probing phylogeny methods isotope dna diversity by mcox on 2008-05-19 18:42:14 as **
  • Extensive profiling of a complex microbial community by high-throughput sequencing.
    Applied and environmental microbiology, Vol. 68, No. 6. (June 2002), pp. 3055-3066.
    by JE Hill, RP Seipp, M Betts, L Hawkins, AG Van Kessel, WL Crosby, SM Hemmingsen
    posted to sequencing methods metagenomics functional by mcox on 2008-05-19 18:27:42 as **
  • Detection and quantification of gene expression in environmental bacteriology.
    Applied and environmental microbiology, Vol. 70, No. 7. (July 2004), pp. 3795-3806.
    by FH Sharkey, IM Banat, R Marchant
    posted to qpcr methods by mcox on 2008-05-19 18:16:24 as **
  • Technical considerations for RNA-based stable isotope probing: an approach to associating microbial diversity with microbial community function.
    Rapid Commun Mass Spectrom, Vol. 16, No. 23. (2002), pp. 2179-2183.
    by M Manefield, AS Whiteley, N Ostle, P Ineson, MJ Bailey
    posted to stable rna probing methods isotope by mcox on 2008-05-19 18:14:02 as **
  • Validation of a more sensitive method for using spotted oligonucleotide DNA microarrays for functional genomics studies on bacterial communities.
    Environmental microbiology, Vol. 5, No. 10. (October 2003), pp. 933-943.
    by VJ Denef, J Park, JL Rodrigues, TV Tsoi, SA Hashsham, JM Tiedje
    posted to microarray methods genomics functional by mcox on 2008-05-19 18:12:51 as **
  • Improvement of oligonucleotide probe design criteria for functional gene microarrays in environmental applications.
    Appl Environ Microbiol, Vol. 72, No. 2. (February 2006), pp. 1688-1691.
    by J Liebich, CW Schadt, SC Chong, Z He, SK Rhee, J Zhou
    posted to phylochip microarray methods diversity bioinformatics by mcox on 2008-05-19 18:06:01 as **
  • An assessment of the hypervariable domains of the 16S rRNA genes for their value in determining microbial community diversity: the paradox of traditional ecological indices.
    FEMS microbiology ecology, Vol. 57, No. 3. (September 2006), pp. 496-503.
    by DK Mills, JA Entry, JD Voss, PM Gillevet, K Mathee
    posted to statistics pcr methods lh ecology diversity 16s by mcox on 2008-05-19 18:04:16 as **
  • Statistical approaches for estimating actinobacterial diversity in marine sediments.
    Applied and environmental microbiology, Vol. 69, No. 10. (October 2003), pp. 6189-6200.
    by JE Stach, LA Maldonado, DG Masson, AC Ward, M Goodfellow, AT Bull
    posted to statistics sediments methods marine diversity by mcox on 2008-05-19 18:02:58 as **
  • G-InforBIO: integrated system for microbial genomics
    BMC Bioinformatics, Vol. 7 (04 August 2006), 368.
    by Naoto Tanaka, Takashi Abe, Satoru Miyazaki, Hideaki Sugawara
    posted to methods genomics bioinformatics by mcox on 2008-05-19 17:54:15 as **
  • 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 phylogeny methods bioinformatics by mcox on 2008-05-19 17:45:39 as ** along with 1 person and 1 group djkt iSEEM
  • Fine-scale phylogenetic architecture of a complex bacterial community.
    Nature, Vol. 430, No. 6999. (29 July 2004), pp. 551-554.
    by SG Acinas, V Klepac-Ceraj, DE Hunt, C Pharino, I Ceraj, DL Distel, MF Polz
    posted to rarefaction phylogeny methods diversity community 16s by mcox on 2008-05-19 17:36:28 as ** along with 4 people jmeppley bluto Thaverkamp kerekesj
  • Simple, rapid method for direct isolation of nucleic acids from aquatic environments.
    Applied and environmental microbiology, Vol. 55, No. 3. (March 1989), pp. 548-554.
    by CC Somerville, IT Knight, WL Straube, RR Colwell
    posted to methods marine extraction dna by mcox on 2008-05-19 17:29:54 as ** along with 1 person Olaf_Ilzins
  • Bacterial diversity of metagenomic and PCR libraries from the Delaware River
    Environmental Microbiology, Vol. 7, No. 12. (December 2005), pp. 1883-1895.
    by Matthew T Cottrell, Lisa A Waidner, Liying Yu, David L Kirchman
    posted to polysaccharide pcr methods metagenomics marine hydrolases by mcox on 2008-05-19 17:28:44 as **
  • 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 methods chimeras bioinformatics 16s by mcox on 2008-05-15 16:08:27 as ** along with 1 person and 1 group djkt iSEEM
  • Real-time quantitative PCR for assessment of abundance of Pseudoalteromonas species in marine samples.
    Applied and environmental microbiology, Vol. 70, No. 4. (April 2004), pp. 2373-2382.
    by TL Skovhus, NB Ramsing, C Holmström, S Kjelleberg, I Dahllöf
    posted to qpcr pseudoalteromonas pcr methods marine by mcox on 2008-05-15 16:07:52 as **
  • Novel hydrolase diversity retrieved from a metagenome library of bovine rumen microflora
    Environmental Microbiology, Vol. 7, No. 12. (December 2005), pp. 1996-2010.
    by Manuel Ferrer, Olga V Golyshina, Tatyana N Chernikova, Amit N Khachane, Dolores Reyes-Duarte, Vitor A Santos, Carsten Strompl, Kieran Elborough, Graeme Jarvis, Alexander Neef, Michail M Yakimov, Kenneth N Timmis, Peter N Golyshin
    posted to screening polysaccharide methods metagenomics hydrolases by mcox on 2008-05-15 16:06:34 as **
  • Mining genomes and 'metagenomes' for novel catalysts.
    Current opinion in biotechnology, Vol. 16, No. 6. (December 2005), pp. 588-593.
    by M Ferrer, F Martínez-Abarca, PN Golyshin
    posted to screening methods metagenomics bioinformatics by mcox on 2008-05-15 16:05:06 as **
  • Genome sequencing in microfabricated high-density picolitre reactors
    Nature (31 July 2005)
    by Marcel Margulies, Michael Egholm, William E Altman, Said Attiya, Joel S Bader, Lisa A Bemben, Jan Berka, Michael S Braverman, Yi-Ju Chen, Zhoutao Chen, Scott B Dewell, Lei Du, Joseph M Fierro, Xavier V Gomes, Brian C Godwin, Wen He, Scott Helgesen, Chun H Ho, Gerard P Irzyk, Szilveszter C Jando, Maria LI Alenquer, Thomas P Jarvie, Kshama B Jirage, Jong-Bum Kim, James R Knight, Janna R Lanza, John H Leamon, Steven M Lefkowitz, Ming Lei, Jing Li, Kenton L Lohman, Hong Lu, Vinod B Makhijani, Keith E Mcdade, Michael P Mckenna, Eugene W Myers, Elizabeth Nickerson, John R Nobile, Ramona Plant, Bernard P Puc, Michael T Ronan, George T Roth, Gary J Sarkis, Jan F Simons, John W Simpson, Maithreyan Srinivasan, Karrie R Tartaro, Alexander Tomasz, Kari A Vogt, Greg A Volkmer, Shally H Wang, Yong Wang, Michael P Weiner, Pengguang Yu, Richard F Begley, Jonathan M Rothberg
    posted to pyrosequencing methods dna by mcox on 2008-05-15 16:04:24 as ** along with 23 people and 5 groups jlgreen kieran101 GustavoLacerda farhat bpb carpi bjorns dayjm jmeppley arve RMGraze JAShapiro balajis cdawson AaronDarling treangen usagi-kirin azazello beatrizfernandez wenhan xingxu erbon tpreeprem iSEEM Green Lab Microbial-Ecology GIG gatech-compgenomics
  • Phylogeny estimation: traditional and Bayesian approaches.
    Nat Rev Genet, Vol. 4, No. 4. (April 2003), pp. 275-284.
    by M Holder, PO Lewis
    posted to trees phylogeny methods comparative bioinformatics bayesian by mcox on 2008-05-15 15:57:09 as ** along with 2 people fhsantanna balajis
  • CDART: protein homology by domain architecture.
    Genome Res, Vol. 12, No. 10. (October 2002), pp. 1619-1623.
    by LY Geer, M Domrachev, DJ Lipman, SH Bryant
    posted to protein methods domain bioinformatics by mcox on 2008-05-15 15:49:56 as ** along with 2 people imouthesmp cjeans
  • Enhanced sensitivity of DNA- and rRNA-based stable isotope probing by fractionation and quantitative analysis of isopycnic centrifugation gradients.
    Environmental microbiology, Vol. 6, No. 1. (January 2004), pp. 73-78.
    by T Lueders, M Manefield, MW Friedrich
    posted to stable probing methods isotope c1 16s by mcox on 2008-05-15 15:48:44 as **
  • Rapid method for coextraction of DNA and RNA from natural environments for analysis of ribosomal DNA- and rRNA-based microbial community composition.
    Appl Environ Microbiol, Vol. 66, No. 12. (December 2000), pp. 5488-5491.
    by RI Griffiths, AS Whiteley, AG O'Donnell, MJ Bailey
    posted to rna methods extraction dna by mcox on 2008-05-15 15:47:13 as **
  • Usefulness of repeated GenomiPhi, a phi29 DNA polymerase-based rolling circle amplification kit, for generation of large amounts of plasmid DNA.
    Biomolecular engineering, Vol. 22, No. 4. (October 2005), pp. 129-132.
    by M Sato, M Ohtsuka, Y Ohmi
    posted to wga pcr methods by mcox on 2008-05-13 21:34:52 as **
  • Assessment of whole genome amplification-induced bias through high-throughput, massively parallel whole genome sequencing
    BMC Genomics, Vol. 7 (23 August 2006), 216.
    by Robert Pinard, Alex de Winter, Gary J Sarkis, Mark B Gerstein, Karrie R Tartaro, Ramona N Plant, Michael Egholm, Jonathan M Rothberg, John H Leamon
    posted to wga pcr methods by mcox on 2008-05-13 21:30:51 as ** along with 2 people jmeppley rabu
  • 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 methods bioinformatics arb 16s by mcox on 2008-05-13 21:21:19 as ** along with 1 person and 1 group djkt iSEEM
  • Rapid isolation of rare clones from highly complex DNA libraries by PCR analysis of liquid gel pools.
    Journal of microbiological methods, Vol. 68, No. 2. (February 2007), pp. 434-436.
    by S Hrvatin, J Piel
    posted to screening methods metagenomics clones by mcox on 2008-05-12 21:10:42 as **
  • Metaproteomics: studying functional gene expression in microbial ecosystems.
    Trends Microbiol, Vol. 14, No. 2. (February 2006), pp. 92-97.
    by P Wilmes, PL Bond
    posted to methods metaproteomics functional by mcox on 2008-05-12 21:08:35 as ** along with 6 people Yanno knaseanka jmeppley bluto nitiniitk barberan
  • Laboratory-dependent bacterial ecology: a cautionary tale.
    Applied and environmental microbiology, Vol. 72, No. 4. (April 2006), pp. 3032-3035.
    by KJ O'Keefe, NM Morales, H Ernstberger, G Benoit, PE Turner
    posted to methods ecology community artificial by mcox on 2008-05-12 21:07:06 as **
  • 18S rRNA gene variation among common airborne fungi, and development of specific oligonucleotide probes for the detection of fungal isolates.
    Applied and environmental microbiology, Vol. 69, No. 9. (September 2003), pp. 5389-5397.
    by Z Wu, Y Tsumura, G Blomquist, XR Wang
    posted to sequence methods hybridization fungi diversity 18s by mcox on 2008-05-12 21:00:32 as **
  • Evaluation of methods to predict bacterial yield using thermodynamics.
    Biodegradation, Vol. 13, No. 3. (2002), pp. 171-190.
    by JM VanBriesen
    posted to yield thermodynamics methods by mcox on 2008-05-12 20:38:10 as **
  • Identification of Eukaryotic Open Reading Frames in Metagenomic cDNA Libraries Made from Environmental Samples
    Appl. Environ. Microbiol., Vol. 72, No. 1. (1 January 2006), pp. 135-143.
    by Susan Grant, William D Grant, Don A Cowan, Brian E Jones, Yanhe Ma, Antonio Ventosa, Shaun Heaphy
    posted to methods metagenomics bioinformatics by mcox on 2008-05-12 20:19:04 as ** along with 1 person wxg119
  • Community structure and metabolism through reconstruction of microbial genomes from the environment.
    Nature, Vol. 428, No. 6978. (4 March 2004), pp. 37-43.
    by GW Tyson, J Chapman, P Hugenholtz, EE Allen, RJ Ram, PM Richardson, VV Solovyev, EM Rubin, DS Rokhsar, JF Banfield
    posted to methods metagenomics diversity by mcox on 2008-05-12 20:16:42 as ** along with 4 people bpb bluto wenhan niallhaslam
  • RNAmmer: consistent and rapid annotation of ribosomal RNA genes.
    Nucleic acids research, Vol. 35, No. 9. (2007), pp. 3100-3108.
    by K Lagesen, P Hallin, EA Rødland, HH Staerfeldt, T Rognes, DW Ussery
    posted to methods bioinformatics 16s by mcox on 2008-05-12 20:00:47 as **
  • ARB: a software environment for sequence data.
    Nucleic Acids Res, Vol. 32, No. 4. (2004), pp. 1363-1371.
    by W Ludwig, O Strunk, R Westram, L Richter, H Meier, Yadhukumar, A Buchner, T Lai, S Steppi, G Jobb, W Förster, I Brettske, S Gerber, AW Ginhart, O Gross, S Grumann, S Hermann, R Jost, A König, T Liss, R Lüssmann, M May, B Nonhoff, B Reichel, R Strehlow, A Stamatakis, N Stuckmann, A Vilbig, M Lenke, T Ludwig, A Bode, KH Schleifer
    posted to methods functional bioinformatics arb 16s by mcox on 2008-05-12 19:58:55 as **
  • 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 statistics methods ecology diversity by mcox on 2008-05-12 18:56:42 as ** along with 6 people and 2 groups djkt vrich Olaf_Ilzins jmeppley Stenuite andrewirwin iSEEM Biological oceanography
  • Mini-Tn5 transposon derivatives for insertion mutagenesis, promoter probing, and chromosomal insertion of cloned DNA in gram-negative eubacteria.
    Journal of bacteriology, Vol. 172, No. 11. (November 1990), pp. 6568-6572.
    by V de Lorenzo, M Herrero, U Jakubzik, KN Timmis
    posted to transposon mutagenesis methods by mcox on 2008-05-12 18:54:43 as **
  • Combined microautoradiography-16S rRNA probe technique for determination of radioisotope uptake by specific microbial cell types in situ.
    Applied and environmental microbiology, Vol. 65, No. 4. (April 1999), pp. 1746-1752.
    by CC Ouverney, JA Fuhrman
    posted to starfish methods marine fish diversity by mcox on 2008-05-12 18:52:21 as **
  • Separation of bacterial cells by isoelectric focusing, a new method for analysis of complex microbial communities.
    Applied and environmental microbiology, Vol. 63, No. 8. (August 1997), pp. 3176-3181.
    by E Jaspers, J Overmann
    posted to methods isoelectric focusing diversity by mcox on 2008-05-12 18:47:11 as **
  • Problems in Measuring Bacterial Diversity and a Possible Solution.
    Applied and environmental microbiology, Vol. 62, No. 11. (November 1996), pp. 4299-4301.
    by M G G Watve, R M M Gangal
    posted to statistics methods diversity by mcox on 2008-05-12 18:42:09 as **
  • Methods for the differentiation of microorganisms.
    Journal of chromatography. B, Biomedical sciences and applications, Vol. 722, No. 1-2. (5 February 1999), pp. 263-278.
    by U Busch, H Nitschko
    posted to methods diversity by mcox on 2008-05-12 18:30:10 as **
  • A simple procedure for optimising the polymerase chain reaction (PCR) using modified Taguchi methods.
    Nucleic Acids Res, Vol. 22, No. 18. (11 September 1994), pp. 3801-3805.
    by BD Cobb, JM Clarkson
    posted to pcr methods by mcox on 2008-05-12 18:26:24 as ** along with 1 person florentcrepineau
  • New approaches to analyzing microbial biodiversity data.
    Current opinion in microbiology, Vol. 6, No. 3. (June 2003), pp. 282-287.
    by BJ Bohannan, J Hughes
    posted to statistics methods ecology diversity bioinformatics by mcox on 2008-05-12 18:17:53 as **
  • Heteroduplexes in mixed-template amplifications: formation, consequence and elimination by 'reconditioning PCR'
    Nucl. Acids Res., Vol. 30, No. 9. (1 May 2002), pp. 2083-2088.
    by Janelle R Thompson, Luisa A Marcelino, Martin F Polz
    posted to pcr methods by mcox on 2008-05-12 18:05:11 as ** along with 1 person vrich
  • Optimization of Terminal-Restriction Fragment Length Polymorphism Analysis for Complex Marine Bacterioplankton Communities and Comparison with Denaturing Gradient Gel Electrophoresis
    Appl. Environ. Microbiol., Vol. 65, No. 8. (1 August 1999), pp. 3518-3525.
    by Markus M Moeseneder, Jesus M Arrieta, Gerard Muyzer, Christian Winter, Gerhard J Herndl
    posted to trflp methods marine diversity 16s by mcox on 2008-05-12 18:01:59 as ** along with 1 person vrich
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