IMG: Integrated Microbial Genomes
IMG: Integrated Microbial Genomes

Publications

System and Methods

  1. Markowitz VM, Ivanova N, Szeto E, Palaniappan K, Chu K, Dalevi D, Chen IM, Grechkin Y, Dubchak I, Anderson I, Lykidis A, Mavromatis K, Hugenholtz P, Kyrpides NC. 2008. img/m: a data management and analysis system for metagenomes, Nucleic Acids Research 36, D534 - D538.
  2. Markowitz VM, Ivanova N, Palaniappan K, Szeto E, Korzeniewski F, Lykidis A, Anderson I, Mavromatis K, Kunin V, Garcia Martin H, Dubchak I, Hugenholtz P, Kyrpides NC. 2006. An Experimental Metagenome Data Management and Analysis System, Bioinformatics, 22(14), 359-367.
  3. Mavromatis K, Ivanova N, Barry K, Shapiro H, Goltsman E, McHardy AC, Rigoutsos I, Salamov A, Korzeniewski F, Land M, Lapidus A, Grigoriev I, Hugenholtz P, Kyrpides NC. 2007. On the fidelity of processing metagenomic sequences using simulated dataset. Nature Methods, in press.
  4. Mavromatis, K. et al. 2007. On the fidelity of processing metagenomic sequences using simulated datasets. Nature Methods 4(6), 495-500.

Biology

  1. Martin HG, Ivanova NN, Kunin V, Warnecke F, Barry KW, McHardy AC, Yeates C, He S, Salamov AA, Szeto E, Dalin E, Putnam NH, Shapiro HJ, Pangilinan JL, Rigoutsos I, Kyrpides NC, Blackall LL, McMahon KD, Hugenholtz P. 2006. Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities. Nature Biotechnology, 24, 1263-1269.
  2. Woyke T, Teeling H, Ivanova NN, Huntemann M, Richter M, Gloeckner FO, Biffelli D, Anderson I, Barry KW, Shapiro HJ, Szeto E, Kyrpides NC, Mussmann M, Amann R, Bergin C, Ruehland C, Rubin EM, Dubilier N. 2006. Symbiosis insights through mtegagenomic analysis of a microbial consortium. Nature, 443:950-955.
  3. Marcy Y, Ouverney C, Bik EM, Losekann T, Ivanova N, Garcia Martin H, Szeto E, Platt D, Hugenholtz P, Relman DA, Quake SR. 2007. Dissecting biological dark matter: single cell genetic analysis of TM7, a rare and uncultivated microbe from the human mouth. Proceedings of the National Academy of Sciences, 104(29), 11889-11894.
  4. Kunin, V, He S, Warnecke F, Peterson SB, Garcia Martin H, Haynes M, Ivanova N, Blackall LL, Breitbart M, Rohwer FL, McMahon KD, Hugenholtz P. A bacterial metapopulation adapts locally to phage predation despite global dispersal. Genome Res. 2008 18(2):293-297.
  5. Warnecke F, Luginbuhl P, Ivanova N, Ghassemian M, Richardson TH, Stege JT, Djordjevic N, Aboushadi N, Sorek R, Tringe SG, et al. 2007. Metagenomic and functional analysis of hindgut microbiota of a wood feeding higher termite. Nature 450, 560-565.