Adams, B. and A. McHardy: The impact of seasonal and year-round transmission regimes on the evolution of influenza A virus. In: Proceedings of the Royal Society / B, Biological Sciences 278, 1716, 2249-2256 (2011).
doi: 10.1098/rspb.2010.2191
url: http://dx.doi.org/10.1098/rspb.2010.2191
localid: C1257539004AF554-BFFD2B087A0D1DFDC125796600552D9D-Adams2010
Konietzny, S., L. Dietz and A. McHardy: Inferring functional modules of protein families with probabilistic topic models. In: BMC Bioinformatics 12, 141:1-141:14, Seq. No.: 141 (2011).
doi: 10.1186/1471-2105-12-141
url: http://dx.doi.org/10.1186/1471-2105-12-141
localid: C1256DBF005F876D-06FA5AB836F698A4C125789200405CAF-DietzMcHardy2011
Konietzny, S.G.A., L. Dietz and A. McHardy: Inferring functional modules of protein families with probabilistic topic models. In: BMC Bioinformatics 12, 1 (2011).
doi: 10.1186/1471-2105-12-141
url: http://www.biomedcentral.com/1471-2105/12/141
localid: C1257539004AF554-E60A4C57945406FDC125796B0038BC8F-KON2011
Pope, P.B., W. Smith, S.E. Denman, S.G. Tringe, K. Barry, P. Hugenholtz, C.S. McSweeney, A. McHardy and M. Morrison: Isolation of Succinivibrionaceae Implicated in Low Methane Emissions from Tammar Wallabies. In: Science 333, 6042, 646-648 (2011).
doi: 10.1126/science.1205760
url: http://www.sciencemag.org/content/333/6042/646.short
localid: C1257539004AF554-9B59790E425184D3C125796B003945EC-MCH2011b
McHardy, A. and K.R. Patil: Phylogenetic binning of metagenome sequence samples. In: Handbook of molecular microbial ecology. - Vol. 1, Metagenomics and complementary approaches. (Eds.) Frans J. de Bruijn. Wiley-Blackwell, Chichester (2011) 353-358.
localid: C1257539004AF554-3A66D936E9DC1DCCC125784800356078-McHardyPatil2011
Patil, K.R., P. Haider, P.B. Pope, P.J. Turnbaugh, M. Morrison, T. Scheffer and A. McHardy: Taxonomic metagenome sequence assignment with structured output models. In: Nature Methods 8, 3, 191-192 (2011).
doi: 10.1038/nmeth0311-191
url: http://dx.doi.org/10.1038/nmeth0311-191
localid: C1257539004AF554-CEC8C43625D7A791C125784800346850-Patil2011
Pope, P.B., S.E. Denman, M. Jones, S.G. Tringe, K. Barry, S.A. Malfatti, A. McHardy, J.-.F. Cheng, P. Hugenholtz, C.S. McSweeney and M. Morrison: Adaptation to herbivory by the Tammar wallaby includes bacterial and glycoside hydrolase profiles different from other herbivores. In: Proceedings of the National Academy of Sciences of the United States of America 107, 33, 14793-14798 (2010).
doi: 10.1073/pnas.1005297107
url: http://dx.doi.org/10.1073/pnas.1005297107
localid: C1257539004AF554-8C6EE8002010004BC12577ED005A4619-mchardy2010aht
Steinbr├╝ck, L. and A. McHardy: Allele dynamics plots for the study of evolutionary dynamics in viral populations. In: Nucleic Acids Research 39, 1, 1-12, Seq. No.: e4 (2010).
doi: 10.1093/nar/gkq909
url: http://dx.doi.org/10.1093/nar/gkq909
localid: C1257539004AF554-8FA352BBA6FEC70FC12577ED0057897A-steinbrueck2010adp
Lykidis, A., C.-L. Chen, S.G. Tringe, A. McHardy, A. Copeland, N.C. Kyrpides, P. Hugenholtz, H. Macarie, A. Olmos, O. Monroy and W.-T. Liu: Multiple syntrophic interactions in a terephthalate-degrading methanogenic consortium. In: ISME Journal Online, 122-130 (2010).
doi: 10.1038/ismej.2010.125
url: http://dx.doi.org/10.1038/ismej.2010.125
localid: C1257539004AF554-12EEC35CFF1CA0A4C12578470047E66D-Lykidis2010
Turnbaugh, P.J., C. Quince, J.J. Faith, A. McHardy, T. Yatsunenko, F. Niazi, J. Affourtit, M. Egholm, B. Henrissat, R. Knight and J.I. Gordon: Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins. In: Proceedings of the National Academy of Sciences of the United States of America 107, 16, 7503-7508 (2010).
doi: 10.1073/pnas.1002355107
url: http://dx.doi.org/10.1073/pnas.1002355107
localid: C1257539004AF554-84BAAA3033FDEA9BC12577ED005AA274-mchardy2010ogt
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