Publications

Lin, Z, Bishop, KS, Sutherland, H, Marlow, G, Murray, P, Denny, WA, and Ferguson, LR. (2016). A quinazoline-based HDAC inhibitor affects gene expression pathways involved in cholesterol biosynthesis and mevalonate in prostate cancer cells. Mol Biosyst. doi:10.1039/c5mb00554j

Padamsee, M, Johansen, RB, Stuckey, SA, Williams, SE, Hooker, JE, Burns, BR, and Bellgard, SE. (2016). The arbuscular mycorrhizal fungi colonising roots and root nodules of New Zealand kauri Agathis australis. Fungal Biology. doi:http://dx.doi.org/10.1016/j.funbio.2016.01.015

Storey, AG, Birch, NP, Fan, V, and Smith, HK. (2016). Stress responses to short-term intensified and reduced training in competitive weightlifters. Scand J Med Sci Sports 26(1):29-40. doi:10.1111/sms.12400

Antony, J, Dasgupta, T, Rhodes, JM, McEwan, MV, Print, CG, O'Sullivan, JM, and Horsfield, JA. (2015). Cohesin modulates transcription of estrogen-responsive genes. Biochim Biophys Acta 1849(3):257-269. doi:10.1016/j.bbagrm.2014.12.011

Blenkiron, C, Tsai, P, Brown, LA, Tintinger, V, Askelund, KJ, Windsor, JA, and Phillips, AR. (2015). Characterisation of the small RNAs in the biomedically important green-bottle blowfly Lucilia sericata. Plos One 10(3):e0122203. doi:10.1371/journal.pone.0122203

Brekke, P, Ewen, JG, Clucas, G, and Santure, AW. (2015). Determinants of male floating behaviour and floater reproduction in a threatened population of the hihi (Notiomystis cincta). Evol Appl 8(8):796-806. doi:10.1111/eva.12287

Chatterjee, A, Leichter, AL, Fan, V, Tsai, P, Purcell, RV, Sullivan, MJ, and Eccles, MR. (2015). Erratum: A cross comparison of technologies for the detection of microRNAs in clinical FFPE samples of hepatoblastoma patients. Sci Rep 5:13505. doi:10.1038/srep13505

Chatterjee, A, Leichter, AL, Fan, V, Tsai, P, Purcell, RV, Sullivan, MJ, and Eccles, MR. (2015). A cross comparison of technologies for the detection of microRNAs in clinical FFPE samples of hepatoblastoma patients. Sci Rep 5:10438. doi:10.1038/srep10438

Cursons, J, Angel, CE, Hurley, DG, Print, CG, Dunbar, PR, Jacobs, MD, and Crampin, EJ. (2015). Spatially transformed fluorescence image data for ERK-MAPK and selected proteins within human epidermis. Gigascience 4:63. doi:10.1186/s13742-015-0102-5

Cursons, J, Gao, J, Hurley, DG, Print, CG, Dunbar, PR, Jacobs, MD, and Crampin, EJ. (2015). Regulation of ERK-MAPK signaling in human epidermis. BMC Syst Biol 9:41. doi:10.1186/s12918-015-0187-6

Drummond, AJ, Newcomb, RD, Buckley, TR, Xie, D, Dopheide, A, Potter, BC, Heled, J, Ross, HA, Tooman, L, Grosser, S, Park, D, Demetras, NJ, Stevens, MI, Russell, JC, Anderson, SH, Carter, A, and Nelson, N. (2015). Evaluating a multigene environmental DNA approach for biodiversity assessment. Gigascience 4:46. doi:10.1186/s13742-015-0086-1

Firth, JA, Hadfield, JD, Santure, AW, Slate, J, and Sheldon, BC. (2015). The influence of nonrandom extra-pair paternity on heritability estimates derived from wild pedigrees. Evolution 69(5):1336-1344. doi:10.1111/evo.12649

Hurley, DG, Cursons, J, Kan Wang, Y, Budden, DM, Print, CG, and Crampin, EJ. (2015). Erratum for: NAIL, a software toolset for inferring, analyzing and visualizing regulatory networks. Bioinformatics 31(13):2015-2240. doi:10.1093/bioinformatics/btv095

Hurley, DG, Cursons, J, Wang, YK, Budden, DM, Print, CG, and Crampin, EJ. (2015). NAIL, a software toolset for inferring, analyzing and visualizing regulatory networks. Bioinformatics 31(2):277-278. doi:10.1093/bioinformatics/btu612

James, JL, Hurley, DG, Gamage, TK, Zhang, T, Vather, R, Pantham, P, Murthi, P, and Chamley, LW. (2015). Isolation and characterisation of a novel trophoblast side-population from first trimester placentae. Reproduction 150(5):449-462. doi:10.1530/REP-14-0646

Krissansen, GW, Yang, Y, McQueen, FM, Leung, E, Peek, D, Chan, YC, Print, C, Dalbeth, N, Williams, M, and Fraser, AG. (2015). Overexpression of miR-595 and miR-1246 in the sera of patients with active forms of inflammatory bowel disease. Inflamm Bowel Dis 21(3):520-530. doi:10.1097/MIB.0000000000000285

Lau, KEM, Washington, VJ, Fan, V, Neale, MW, Lear, G, Curran, J, and Lewis, GD. (2015). A novel bacterial community index to assess stream ecological health. Freshwater Biology 60(10):1988-2002. doi:10.1111/fwb.12625

Leong, IU, Stuckey, A, Lai, D, Skinner, JR, and Love, DR. (2015). Assessment of the predictive accuracy of five in silico prediction tools, alone or in combination, and two metaservers to classify long QT syndrome gene mutations. BMC Medical Genetics 16(1):1-13. doi:10.1186/s12881-015-0176-z

Lin, MH, Jones, DF, and Fleming, R. (2015). Transcriptomic analysis of degraded forensic body fluids. Forensic Sci Int Genet 17:35-42. doi:10.1016/j.fsigen.2015.03.005

Liu, Y, Chiaromonte, F, Ross, H, Malhotra, R, Elleder, D, and Poss, M. (2015). Error correction and statistical analyses for intra-host comparisons of feline immunodeficiency virus diversity from high-throughput sequencing data. BMC bioinformatics 16:202. doi:10.1186/s12859-015-0607-z

Mann, MB, Black, MA, Jones, DJ, Ward, JM, Yew, CC, Newberg, JY, Dupuy, AJ, Rust, AG, Bosenberg, MW, McMahon, M, Print, CG, Copeland, NG, and Jenkins, NA. (2015). Transposon mutagenesis identifies genetic drivers of Braf(V600E) melanoma. Nat Genet 47(5):486-495. doi:10.1038/ng.3275

Mougin, C, Azam, D, Caquet, T, Cheviron, N, Dequiedt, S, Le Galliard, JF, Guillaume, O, Houot, S, Lacroix, G, Lafolie, F, Maron, PA, Michniewicz, R, Pichot, C, Ranjard, L, Roy, J, Zeller, B, Clobert, J, and Chanzy, A. (2015). A coordinated set of ecosystem research platforms open to international research in ecotoxicology, AnaEE-France. Environ Sci Pollut Res Int 22(20):16215-16228. doi:10.1007/s11356-015-5233-9

Pantham, P, Viall, CA, Chen, Q, Kleffmann, T, Print, CG, and Chamley, LW. (2015). Antiphospholipid antibodies bind syncytiotrophoblast mitochondria and alter the proteome of extruded syncytial nuclear aggregates. Placenta 36(12):1463-1473. doi:10.1016/j.placenta.2015.10.006

Ping, J, Lopes, TJS, Nidom, CA, Ghedin, E, Macken, CA, Fitch, A, Imai, M, Maher, EA, Neumann, G, and Kawaoka, Y. (2015). Development of high-yield influenza A virus vaccine viruses. Nature communications. doi:10.1038/ncomms9148

Ranjard, L, Withers, SJ, Brunton, DH, Ross, HA, and Parsons, S. (2015). Integration over song classification replicates: song variant analysis in the hihi. The Journal of the Acoustical Society of America 137(5):2542-2551. doi:10.1121/1.4919329

Santure, AW, Poissant, J, De Cauwer, I, van Oers, K, Robinson, MR, Quinn, JL, Groenen, MA, Visser, ME, Sheldon, BC, and Slate, J. (2015). Replicated analysis of the genetic architecture of quantitative traits in two wild great tit populations. Molecular ecology 24(24):6148-6162. doi:10.1111/mec.13452

Sepil, I, Radersma, R, Santure, AW, De Cauwer, I, Slate, J, and Sheldon, BC. (2015). No evidence for MHC class I-based disassortative mating in a wild population of great tits. Journal of evolutionary biology 28(3):642-654. doi:10.1111/jeb.12600

Sheppard, HM, Feisst, V, Chen, J, Print, C, and Dunbar, PR. (2015). AHNAK is downregulated in melanoma, predicts poor outcome, and may be required for the expression of functional cadherin-1. Melanoma Res. doi:10.1097/CMR.0000000000000228

Sontam, DM, Firth, EC, Tsai, P, Vickers, MH, and O'Sullivan, JM. (2015). Different exercise modalities have distinct effects on the integrin-linked kinase (ILK) and Ca2+ signaling pathways in the male rat bone. Physiol Rep 3(10). doi:10.14814/phy2.12568

Stapley, J, Santure, AW, and Dennis, SR. (2015). Transposable elements as agents of rapid adaptation may explain the genetic paradox of invasive species. Molecular ecology 24(9):2241-2252. doi:10.1111/mec.13089

Taft, AS, Ozawa, M, Fitch, A, Depasse, JV, Halfmann, PJ, Hill-Batorski, L, Hatta, M, Friedrich, TC, Lopes, TJS, Maher, EA, Ghedin, E, Macken, CA, Neumann, G, and Kawaoka, Y. (2015). Identification of mammalian-adapting mutations in the polymerase complex of an avian H5N1 influenza virus. Nature communications 6. doi:10.1038/ncomms8491

Xu, J, Jullig, M, Middleditch, MJ, and Cooper, GJ. (2015). Modelling atherosclerosis by proteomics: Molecular changes in the ascending aortas of cholesterol-fed rabbits. Atherosclerosis 242(1):268-276. doi:10.1016/j.atherosclerosis.2015.07.001

Bouckaert, R, Heled, J, Kuhnert, D, Vaughan, T, Wu, CH, Xie, D, Suchard, MA, Rambaut, A, & Drummond, AJ. (2014). BEAST 2: A Software Platform for Bayesian Evolutionary Analysis. Plos Computational Biology, 10(4). doi: ARTN e1003537; DOI 10.1371/journal.pcbi.1003537

Cooke, IR, Jones, D, Bowen, JK, Deng, C, Faou, P, Hall, NE, Jayachandran, V, Liem, M, Taranto, AP, Plummer, KM, & Mathivanan, S. (2014). Proteogenomic Analysis of the Venturia pirina (Pear Scab Fungus) Secretome Reveals Potential Effectors. Journal of Proteome Research. doi: 10.1021/pr500176c

Evans, GE, Martinez-Conejero, JA, Phillipson, GT, Sykes, PH, Sin, IL, Lam, EY, Print, CG, Horcajadas, JA, & Evans, JJ. (2014). In the secretory endometria of women, luminal epithelia exhibit gene and protein expressions that differ from those of glandular epithelia. Fertil Steril, 102(1), 307-317 e307. doi: 10.1016/j.fertnstert.2014.04.005

Hall, CJ, Boyle, RH, Sun, X, Wicker, SM, Misa, JP, Krissansen, GW, Print, CG, Crosier, KE, & Crosier, PS. (2014). Epidermal cells help coordinate leukocyte migration during inflammation through fatty acid-fuelled matrix metalloproteinase production. Nat Commun, 5, 3880. doi: 10.1038/ncomms4880

Hunter, FW, Jaiswal, JK, Hurley, DG, Liyanage, HDS, McManaway, SP, Gu, YC, Richter, S, Wang, JL, Tercel, M, Print, CG, Wilson, WR, & Pruijn, FB. (2014). The flavoprotein FOXRED2 reductively activates nitro-chloromethylbenzindolines and other hypoxia-targeting prodrugs. Biochemical Pharmacology, 89(2), 224-235. doi: 10.1016/j.bcp.2014.03.001

Kuhnert, D, Stadler, T, Vaughan, TG, & Drummond, AJ. (2014). Simultaneous reconstruction of evolutionary history and epidemiological dynamics from viral sequences with the birth-death SIR model. Journal of the Royal Society Interface, 11(94). doi: Artn 20131106; Doi 10.1098/Rsif.2013.1106

Ross, HA. (2014). The incidence of species-level paraphyly in animals: a re-assessment. Mol Phylogenet Evol, 76, 10-17. doi: 10.1016/j.ympev.2014.02.021

Taylor, MW, Tsai, P, Anfang, N, Ross, HA, & Goddard, MR. (2014). Pyrosequencing reveals regional differences in fruit-associated fungal communities. Environ Microbiol. doi: 10.1111/1462-2920.12456

Vrancken, B, Rambaut, A, Suchard, MA, Drummond, A, Baele, G, Derdelinckx, I, Van Wijngaerden, E, Vandamme, AM, Van Laethem, K, & Lemey, P. (2014). The Genealogical Population Dynamics of HIV-1 in a Large Transmission Chain: Bridging within and among Host Evolutionary Rates. Plos Computational Biology, 10(4). doi: ARTN e1003505; DOI 10.1371/journal.pcbi.1003505

Baele, G, Li, WLS, Drummond, AJ, Suchard, MA, & Lemey, P. (2013). Accurate Model Selection of Relaxed Molecular Clocks in Bayesian Phylogenetics. Molecular Biology and Evolution, 30(2), 239-243. doi: DOI 10.1093/molbev/mss243

Bahl, J, Krauss, S, Kuhnert, D, Fourment, M, Raven, G, Pryor, SP, Niles, LJ, Danner, A, Walker, D, Mendenhall, IH, Su, YCF, Dugan, VG, Halpin, RA, Stockwell, TB, Webby, RJ, Wentworth, DE, Drummond, AJ, Smith, GJD, & Webster, RG. (2013). Influenza A Virus Migration and Persistence in North American Wild Birds. Plos Pathogens, 9(8). doi: ARTN e1003570; DOI 10.1371/journal.ppat.1003570

Blenkiron, C, Hurley, DG, Fitzgerald, S, Print, CG, & Lasham, A. (2013). Links between the oncoprotein YB-1 and small non-coding RNAs in breast cancer. PLoS One, 8(11), e80171. doi: 10.1371/journal.pone.0080171

Fullston, T, Ohlsson Teague, EM, Palmer, NO, DeBlasio, MJ, Mitchell, M, Corbett, M, Print, CG, Owens, JA, & Lane, M. (2013). Paternal obesity initiates metabolic disturbances in two generations of mice with incomplete penetrance to the F2 generation and alters the transcriptional profile of testis and sperm microRNA content. FASEB J, 27(10), 4226-4243. doi: 10.1096/fj.12-224048

Gavryushkina, A, Welch, D, & Drummond, AJ. (2013). Recursive algorithms for phylogenetic tree counting. Algorithms for Molecular Biology, 8. doi: Artn 26; Doi 10.1186/1748-7188-8-26

Heled, J, Bryant, D, & Drummond, AJ. (2013). Simulating gene trees under the multispecies coalescent and time-dependent migration. Bmc Evolutionary Biology, 13. doi: Artn 44; Doi 10.1186/1471-2148-13-44

Lampugnani, ER, Moller, IE, Cassin, A, Jones, DF, Koh, PL, Ratnayake, S, Beahan, CT, Wilson, SM, Bacic, A, & Newbigin, E. (2013). In Vitro Grown Pollen Tubes of Nicotiana alata Actively Synthesise a Fucosylated Xyloglucan. Plos One, 8(10). doi: ARTN e77140; DOI 10.1371/journal.pone.0077140

Lasham, A, Print, CG, Woolley, AG, Dunn, SE, & Braithwaite, AW. (2013). YB-1: oncoprotein, prognostic marker and therapeutic target? Biochem J, 449(1), 11-23. doi: 10.1042/BJ20121323

Richter, S, Morrison, S, Connor, T, Su, J, Print, CG, Ronimus, RS, McGee, SL, & Wilson, WR. (2013). Zinc finger nuclease mediated knockout of ADP-dependent glucokinase in cancer cell lines: effects on cell survival and mitochondrial oxidative metabolism. PLoS One, 8(6), e65267. doi: 10.1371/journal.pone.0065267

Stadler, T, Kuhnert, D, Bonhoeffer, S, & Drummond, AJ. (2013). Birth-death skyline plot reveals temporal changes of epidemic spread in HIV and hepatitis C virus (HCV). Proceedings of the National Academy of Sciences of the United States of America, 110(1), 228-233. doi: DOI 10.1073/pnas.1207965110

Stone, A, Cowley, MJ, Valdes-Mora, F, McCloy, RA, Sergio, CM, Gallego-Ortega, D, Caldon, CE, Ormandy, CJ, Biankin, AV, Gee, JM, Nicholson, RI, Print, CG, Clark, SJ, & Musgrove, EA. (2013). BCL-2 hypermethylation is a potential biomarker of sensitivity to antimitotic chemotherapy in endocrine-resistant breast cancer. Mol Cancer Ther, 12(9), 1874-1885. doi: 10.1158/1535-7163.MCT-13-0012

Taylor, MW, Tsai, P, Simister, RL, Deines, P, Botte, E, Ericson, G, Schmitt, S, & Webster, NS. (2013). 'Sponge-specific' bacteria are widespread (but rare) in diverse marine environments. Isme Journal, 7(2), 438-443. doi: 10.1038/ismej.2012.111

Trevarton, AJ, Mann, MB, Knapp, C, Araki, H, Wren, JD, Stones-Havas, S, Black, MA, & Print, CG. (2013). MelanomaDB: A Web Tool for Integrative Analysis of Melanoma Genomic Information to Identify Disease-Associated Molecular Pathways. Front Oncol, 3, 184. doi: 10.3389/fonc.2013.00184

Vaughan, TG, & Drummond, AJ. (2013). A Stochastic Simulator of Birth-Death Master Equations with Application to Phylodynamics. Molecular Biology and Evolution, 30(6), 1480-1493. doi: DOI 10.1093/molbev/mst057

Wang, YK, Hurley, DG, Schnell, S, Print, CG, & Crampin, EJ. (2013). Integration of steady-state and temporal gene expression data for the inference of gene regulatory networks. PLoS One, 8(8), e72103. doi: 10.1371/journal.pone.0072103

Wang, YK, Print, CG, & Crampin, EJ. (2013). Biclustering reveals breast cancer tumour subgroups with common clinical features and improves prediction of disease recurrence. BMC Genomics, 14, 102. doi: 10.1186/1471-2164-14-102

Wu, CH, Suchard, MA, & Drummond, AJ. (2013). Bayesian Selection of Nucleotide Substitution Models and Their Site Assignments. Molecular Biology and Evolution, 30(3), 669-688. doi: DOI 10.1093/molbev/mss258

Abbott, WGH, Tsai, P, Ross, HA, Ofanoa, M, Trevarton, AJ, Hornell, J, Munn, SR, & Gane, EJ. (2012). Selection pressure on the hepatitis B virus pre-S/S and P open reading frames in Tongan subjects with a chronic hepatitis B virus infection. Antiviral Research, 96(2), 148-157. doi: 10.1016/j.antiviral.2012.08.007

Bouckaert, R, Lemey, P, Dunn, M, Greenhill, SJ, Alekseyenko, AV, Drummond, AJ, Gray, RD, Suchard, MA, & Atkinson, QD. (2012). Mapping the Origins and Expansion of the Indo-European Language Family. Science, 337(6097), 957-960. doi: DOI 10.1126/science.1219669

Caldon, CE, Sergio, CM, Kang, J, Muthukaruppan, A, Boersma, MN, Stone, A, Barraclough, J, Lee, CS, Black, MA, Miller, LD, Gee, JM, Nicholson, RI, Sutherland, RL, Print, CG, & Musgrove, EA. (2012). Cyclin E2 overexpression is associated with endocrine resistance but not insensitivity to CDK2 inhibition in human breast cancer cells. Mol Cancer Ther, 11(7), 1488-1499. doi: 10.1158/1535-7163.MCT-11-0963

Delaney, NF, Balenger, S, Bonneaud, C, Marx, CJ, Hill, GE, Ferguson-Noel, N, Tsai, P, Rodrigo, A, & Edwards, SV. (2012). Ultrafast Evolution and Loss of CRISPRs Following a Host Shift in a Novel Wildlife Pathogen, Mycoplasma gallisepticum. Plos Genetics, 8(2), 12. doi: 10.1371/journal.pgen.1002511

Drummond, AJ, Suchard, MA, Xie, D, & Rambaut, A. (2012). Bayesian Phylogenetics with BEAUti and the BEAST 1.7. Molecular Biology and Evolution, 29(8), 1969-1973. doi: DOI 10.1093/molbev/mss075

Evans, GE, Martinez-Conejero, JA, Phillipson, GT, Simon, C, McNoe, LA, Sykes, PH, Horcajadas, JA, Lam, EY, Print, CG, Sin, IL, & Evans, JJ. (2012). Gene and protein expression signature of endometrial glandular and stromal compartments during the window of implantation. Fertil Steril, 97(6), 1365-1373 e1361-1362. doi: 10.1016/j.fertnstert.2012.03.007

Grace, PM, Hurley, D, Barratt, DT, Tsykin, A, Watkins, LR, Rolan, PE, & Hutchinson, MR. (2012). Harnessing pain heterogeneity and RNA transcriptome to identify blood-based pain biomarkers: a novel correlational study design and bioinformatics approach in a graded chronic constriction injury model. Journal of Neurochemistry, 122(5), 976-994. doi: 10.1111/j.1471-4159.2012.07833.x

Heled, J, & Drummond, AJ. (2012). Calibrated Tree Priors for Relaxed Phylogenetics and Divergence Time Estimation. Systematic Biology, 61(1), 138-149. doi: DOI 10.1093/sysbio/syr087

Hohna, S, & Drummond, AJ. (2012). Guided Tree Topology Proposals for Bayesian Phylogenetic Inference. Systematic Biology, 61(1), 1-11. doi: DOI 10.1093/sysbio/syr074

Horsfield, JA, Print, CG, & Monnich, M. (2012). Diverse developmental disorders from the one ring: distinct molecular pathways underlie the cohesinopathies. Front Genet, 3, 171. doi: 10.3389/fgene.2012.00171

Hurley, D, Araki, H, Tamada, Y, Dunmore, B, Sanders, D, Humphreys, S, Affara, M, Imoto, S, Yasuda, K, Tomiyasu, Y, Tashiro, K, Savoie, C, Cho, VK, Smith, S, Kuhara, S, Miyano, S, Charnock-Jones, DS, Crampin, EJ, & Print, CG. (2012). Gene network inference and visualization tools for biologists: application to new human transcriptome datasets. Nucleic Acids Research, 40(6), 2377-2398. doi: 10.1093/nar/gkr902

Krull, CR, Ranjard, L, Landers, TJ, Ismar, SMH, Matthews, JL, & Hauber, ME. (2012). Analyses of sex and individual differences in vocalizations of Australasian gannets using a dynamic time warping algorithm. Journal of the Acoustical Society of America, 132(2), 1189-1198. doi: 10.1121/1.4734237

Lasham, A, Samuel, W, Cao, H, Patel, R, Mehta, R, Stern, JL, Reid, G, Woolley, AG, Miller, LD, Black, MA, Shelling, AN, Print, CG, & Braithwaite, AW. (2012). YB-1, the E2F pathway, and regulation of tumor cell growth. J Natl Cancer Inst, 104(2), 133-146. doi: 10.1093/jnci/djr512

Li, WLS, & Drummond, AJ. (2012). Model Averaging and Bayes Factor Calculation of Relaxed Molecular Clocks in Bayesian Phylogenetics. Molecular Biology and Evolution, 29(2), 751-761. doi: DOI 10.1093/molbev/msr232

O'Rorke, R, Lavery, S, Chow, S, Takeyama, H, Tsai, P, Beckley, LE, Thompson, PA, Waite, AM, & Jeffs, AG. (2012). Determining the Diet of Larvae of Western Rock Lobster (Panulirus cygnus) Using High-Throughput DNA Sequencing Techniques. Plos One, 7(8), 10. doi: 10.1371/journal.pone.0042757

Pantham, P, Rosario, R, Chen, Q, Print, CG, & Chamley, LW. (2012). Transcriptomic analysis of placenta affected by antiphospholipid antibodies: following the TRAIL of trophoblast death. J Reprod Immunol, 94(2), 151-154. doi: 10.1016/j.jri.2012.03.487

Richter, S, Richter, JP, Mehta, SY, Gribble, AM, Sutherland-Smith, AJ, Stowell, KM, Print, CG, Ronimus, RS, & Wilson, WR. (2012). Expression and role in glycolysis of human ADP-dependent glucokinase. Mol Cell Biochem, 364(1-2), 131-145. doi: 10.1007/s11010-011-1212-8

Rosario, R, Araki, H, Print, CG, & Shelling, AN. (2012). The transcriptional targets of mutant FOXL2 in granulosa cell tumours. PLoS One, 7(9), e46270. doi: 10.1371/journal.pone.0046270

Schmitt, S, Tsai, P, Bell, J, Fromont, J, Ilan, M, Lindquist, N, Perez, T, Rodrigo, A, Schupp, PJ, Vacelet, J, Webster, N, Hentschel, U, & Taylor, MW. (2012). Assessing the complex sponge microbiota: core, variable and species-specific bacterial communities in marine sponges. Isme Journal, 6(3), 564-576. doi: 10.1038/ismej.2011.116

Simister, R, Taylor, MW, Tsai, P, Fan, L, Bruxner, TJ, Crowe, ML, & Webster, N. (2012). Thermal stress responses in the bacterial biosphere of the Great Barrier Reef sponge, Rhopaloeides odorabile. Environmental Microbiology, 14(12), 3232-3246. doi: 10.1111/1462-2920.12010

Simister, R, Taylor, MW, Tsai, P, & Webster, N. (2012). Sponge-Microbe Associations Survive High Nutrients and Temperatures. Plos One, 7(12), 14. doi: 10.1371/journal.pone.0052220

Stadler, T, Kouyos, R, von Wyl, V, Yerly, S, Boni, J, Burgisser, P, Klimkait, T, Joos, B, Rieder, P, Xie, D, Gunthard, HF, Drummond, AJ, Bonhoeffer, S, & Study, SHC. (2012). Estimating the Basic Reproductive Number from Viral Sequence Data. Molecular Biology and Evolution, 29(1), 347-357. doi: DOI 10.1093/molbev/msr217

Stratford, AL, Reipas, K, Hu, K, Fotovati, A, Brough, R, Frankum, J, Takhar, M, Watson, P, Ashworth, A, Lord, CJ, Lasham, A, Print, CG, & Dunn, SE. (2012). Targeting p90 ribosomal S6 kinase eliminates tumor-initiating cells by inactivating Y-box binding protein-1 in triple-negative breast cancers. Stem Cells, 30(7), 1338-1348. doi: 10.1002/stem.1128

Vaughan, TG, Drummond, PD, & Drummond, AJ. (2012). Within-host demographic fluctuations and correlations in early retroviral infection. Journal of Theoretical Biology, 295, 86-99. doi: DOI 10.1016/j.jtbi.2011.11.016

Wang, L, Hurley, DG, Watkins, W, Araki, H, Tamada, Y, Muthukaruppan, A, Ranjard, L, Derkac, E, Imoto, S, Miyano, S, Crampin, EJ, & Print, CG. (2012). Cell cycle gene networks are associated with melanoma prognosis. PLoS One, 7(4), e34247. doi: 10.1371/journal.pone.0034247

Wright, DM, McNeill, R, Merrie, AE, & Print, CG. (2012). Great expectations: use of molecular tests and computerised prognostic tools in New Zealand cancer care. N Z Med J, 125(1353), 9-21. 

Affara, M, Dunmore, BJ, Sanders, DA, Johnson, N, Print, CG, & Charnock-Jones, DS. (2011). MMP1 bimodal expression and differential response to inflammatory mediators is linked to promoter polymorphisms. BMC Genomics, 12, 43. doi: 10.1186/1471-2164-12-43

Cheng, CW, Licence, D, Cook, E, Luo, F, Arends, MJ, Smith, SK, Print, CG, & Charnock-Jones, DS. (2011). Activation of mutated K-ras in donor endometrial epithelium and stroma promotes lesion growth in an intact immunocompetent murine model of endometriosis. J Pathol, 224(2), 261-269. doi: 10.1002/path.2852

Cowburn, AS, Summers, C, Dunmore, BJ, Farahi, N, Hayhoe, RP, Print, CG, Cook, SJ, & Chilvers, ER. (2011). Granulocyte/macrophage colony-stimulating factor causes a paradoxical increase in the BH3-only pro-apoptotic protein Bim in human neutrophils. Am J Respir Cell Mol Biol, 44(6), 879-887. doi: 10.1165/rcmb.2010-0101OC

Drummond, AJ. (2011). Assimilation, contrast and voter projections of parties in left-right space: Does the electoral system matter? Party Politics, 17(6), 711-743. doi: Doi 10.1177/1354068810376781

Kuhnert, D, Wu, CH, & Drummond, AJ. (2011). Phylogenetic and epidemic modeling of rapidly evolving infectious diseases. Infection Genetics and Evolution, 11(8), 1825-1841. doi: DOI 10.1016/j.meegid.2011.08.005

Masters, BC, Fan, V, & Ross, HA. (2011). Species delimitation - a geneious plugin for the exploration of species boundaries. Molecular Ecology Resources, 11(1), 154-157. doi: DOI 10.1111/j.1755-0998.2010.02896.x

Monnich, M, Kuriger, Z, Print, CG, & Horsfield, JA. (2011). A zebrafish model of Roberts syndrome reveals that Esco2 depletion interferes with development by disrupting the cell cycle. PLoS One, 6(5), e20051. doi: 10.1371/journal.pone.0020051

Rayner, MJ, Hauber, ME, Steeves, TE, Lawrence, HA, Thompson, DR, Sagar, PM, Bury, SJ, Landers, TJ, Phillips, RA, Ranjard, L, & Shaffer, SA. (2011). Contemporary and historical separation of transequatorial migration between genetically distinct seabird populations. Nature Communications, 2, 7. doi: 10.1038/ncomms1330

Shapiro, B, Ho, SYW, Drummond, AJ, Suchard, MA, Pybus, OG, & Rambaut, A. (2011). A Bayesian Phylogenetic Method to Estimate Unknown Sequence Ages. Molecular Biology and Evolution, 28(2), 879-887. doi: DOI 10.1093/molbev/msq262

Warner, BG, Tsai, P, Rodrigo, AG, Ofanoa, M, Gane, EJ, Munn, SR, & Abbott, WGH. (2011). Evidence for reduced selection pressure on the hepatitis B virus core gene in hepatitis B e antigen-negative chronic hepatitis B. Journal of General Virology, 92, 1800-1808. doi: 10.1099/vir.0.030478-0

Wright, DM, Print, CG, & Merrie, AE. (2011). Clinical decision support systems: should we rely on unvalidated tools? ANZ J Surg, 81(5), 314-317. doi: 10.1111/j.1445-2197.2011.05703.x

Wu, CH, & Drummond, AJ. (2011). Joint Inference of Microsatellite Mutation Models, Population History and Genealogies Using Transdimensional Markov Chain Monte Carlo. Genetics, 188(1), 151-U254. doi: DOI 10.1534/genetics.110.125260

Abbott, WGH, Tsai, P, Leung, E, Trevarton, A, Ofanoa, M, Hornell, J, Gane, EJ, Munn, SR, & Rodrigo, AG. (2010). Associations between HLA Class I Alleles and Escape Mutations in the Hepatitis B Virus Core Gene in New Zealand-Resident Tongans. Journal of Virology, 84(1), 621-629. doi: 10.1128/jvi.01471-09

Bennett, SN, Drummond, AJ, Kapan, DD, Suchard, MA, Munoz-Jordan, JL, Pybus, OG, Holmes, EC, & Gubler, DJ. (2010). Epidemic Dynamics Revealed in Dengue Evolution. Molecular Biology and Evolution, 27(4), 811-818. doi: DOI 10.1093/molbev/msp285

Cursons, J, Hurley, D, Angel, CE, Dunbar, R, Crampin, EJ, Jacobs, MD, & Ieee. (2010). Inference of an in situ Epidermal Intracellular Signaling Cascade. 2010 Annual International Conference of the Ieee Engineering in Medicine and Biology Society (Embc), 799-802. doi: 10.1109/iembs.2010.5626520

Drummond, AJ, & Lubecki, J. (2010). Reconstructing Galicia: Mapping the Cultural and Civic Traditions of the Former Austrian Galicia in Poland and Ukraine. Europe-Asia Studies, 62(8), 1311-1338. doi: Pii 927355165; Doi 10.1080/09668136.2010.504385

Drummond, AJ, & Suchard, MA. (2010). Bayesian random local clocks, or one rate to rule them all. Bmc Biology, 8. doi: Artn 114; Doi 10.1186/1741-7007-8-114

Drummond, PD, Vaughan, TG, & Drummond, AJ. (2010). Extinction Times in Autocatalytic Systems. Journal of Physical Chemistry A, 114(39), 10481-10491. doi: Doi 10.1021/Jp104471e

Greenhill, SJ, Drummond, AJ, & Gray, RD. (2010). How Accurate and Robust Are the Phylogenetic Estimates of Austronesian Language Relationships? Plos One, 5(3). doi: Artn E9573; Doi 10.1371/Journal.Pone.0009573

Heled, J, & Drummond, AJ. (2010). Bayesian Inference of Species Trees from Multilocus Data. Molecular Biology and Evolution, 27(3), 570-580. doi: DOI 10.1093/molbev/msp274

Miller, AK, Print, CG, Nielsen, PM, & Crampin, EJ. (2010). A Bayesian search for transcriptional motifs. PLoS One, 5(11), e13897. doi: 10.1371/journal.pone.0013897

Ranjard, L, Anderson, MG, Rayner, MJ, Payne, RB, McLean, I, Briskie, JV, Ross, HA, Brunton, DH, Woolley, SMN, & Hauber, ME. (2010). Bioacoustic distances between the begging calls of brood parasites and their host species: a comparison of metrics and techniques. Behavioral Ecology and Sociobiology, 64(11), 1915-1926. doi: 10.1007/s00265-010-1065-2

Rhodes, JM, Bentley, FK, Print, CG, Dorsett, D, Misulovin, Z, Dickinson, EJ, Crosier, KE, Crosier, PS, & Horsfield, JA. (2010). Positive regulation of c-Myc by cohesin is direct, and evolutionarily conserved. Dev Biol, 344(2), 637-649. doi: 10.1016/j.ydbio.2010.05.493

Robins, JH, McLenachan, PA, Phillips, MJ, McComish, BJ, Matisoo-Smith, E, & Ross, HA. (2010). Evolutionary relationships and divergence times among the native rats of Australia. BMC Evol Biol, 10, 375. doi: 10.1186/1471-2148-10-375

Teague, EM, Print, CG, & Hull, ML. (2010). The role of microRNAs in endometriosis and associated reproductive conditions. Hum Reprod Update, 16(2), 142-165. doi: 10.1093/humupd/dmp034

Vaughan, TG, Drummond, PD, & Drummond, AJ. (2010). A retrodictive stochastic simulation algorithm. Journal of Computational Physics, 229(10), 3777-3791. doi: DOI 10.1016/j.jcp.2010.01.027

Yamaji, M, Bielby, H, Licence, D, Cheng, CW, Cook, E, Smith, SK, Print, CG, & Charnock-Jones, DS. (2010). VEGF-A loss in the haematopoietic and endothelial lineages exacerbates age-induced renal changes. Microvasc Res, 80(3), 372-383. doi: 10.1016/j.mvr.2010.07.006