Annie Xin, Frederick Masson, Yang Liao, Simon Preston, Tianxia Guan, Renee Gloury, Moshe Olshansky, Jian-Xin Lin, Peng Li, T. Speed, G. Smyth, Matthias Ernst, Warren J Leonard, Marc Pellegrini, Susan M Kaech, Stephen L Nutt, Wei Shi, Gabrielle T Belz, Axel Kallies. A molecular threshold for effector CD8(+) T cell differentiation controlled by transcription factors Blimp-1 and T-bet. Nature Immunology, 17, 422-+, 2016. doi: 10.1038/ni.3410.
F Masson, A Xin, Y Liao, S Preston, T Guan, R Gloury, M Olshansky, J-X Lin, P Li, T. Speed, G. Smyth, M Ernst, WJ Leonard, M Pellegrini, S Kaech, SL Nutt, W Shi, GT Belz, A Kallies. A combinatorial threshold model for effector differentiation of CD8(+) T cells mediated by Blimp-1 and T-bet. European Journal of Immunology, 46, 5 (1pp), 2016.
D Chandrananda, NP Thorne, D Ganesamoorthy, DL Bruno, Y Benjamini, T. Speed, HR Slater, M. Bahlo. Investigating and Correcting Plasma DNA Sequencing Coverage Bias to Enhance Aneuploidy Discovery. PLoS One, 9, e86993 (14pp), 2014. doi: 10.1371/journal.pone.0086993.
L. Gandolfo, M. Bahlo, T. Speed. Dating Rare Mutations from Small Samples with Dense Marker Data. Genetics, 197, 1315-U437, 2014. doi: 10.1534/genetics.114.164616.
Iris Tan, Leanne Mackin, Nancy Wang, A. Papenfuss, Colleen Elso, Michelle Ashton, Fiona Quirk, B. Phipson, M. Bahlo, T. Speed, G. Smyth, Grant Morahan, Thomas Brodnicki. Congenic mouse strains identify a novel gene for which allelic variation affects susceptibility to type 1 diabetes. Journal of Immunology, 186, 2011.
KT Tan, L Mackin, NW Wang, A. Papenfuss, C Elso, MPA Ashton, F Quirk, B. Phipson, M. Bahlo, T. Speed, G. Smyth, G Morahan, T Brodnicki. A recombination hotspot leads to sequence variability within a novel gene (AK005651) and contributes to type 1 diabetes susceptibility. Genome Research, 20, 1629-1638, 2010. doi: 10.1101/gr.101881.109.
DE Krane, V Bahn, D. Balding, B Barlow, H Cash, BL Desportes, K Devlin, TE Doom, I Dror, S Ford, C Funk, J Gilder, G Hampikian, K Inman, A Jamieson, PE Kent, R Koppl, I Kornfield, S Krimsky, J Mnookin, L Mueller, E Murphy, DR Paoletti, DA Petrov, M Raymer, DM Risinger, A Roth, N Rudin, W Shields, JA Siegel, M Slatkin, YS Song, T. Speed, C Spiegelman, P Sullivan, AR Swienton, T Tarpey, WC Thompson, E Ungvarsky, S Zabell. Time for DNA Disclosure. 326, 1631-1632, Amer Assoc Advancement Science, 2009. doi: 10.1126/science.326.5960.1631.
Joelle Michaud, Ken M Simpson, Robert Escher, Karine Buchet-Poyau, Tim Beissbarth, Catherine Carmichael, M. Ritchie, Frederic Schuetz, Ping Cannon, M. Liu, Xiaofeng Shen, Yoshiaki Ito, Wendy H Raskind, Marshall S Horwitz, Motomi Osato, David R Turner, T. Speed, Maria Kavallaris, G. Smyth, Hamish S Scott, F Schütz. Integrative analysis of RUNX1 downstream pathways and target genes. BMC Genomics, 9, 363 (17pp), 2008. doi: 10.1186/1471-2164-9-363.
Husain, Yildirim-Toruner, Rubio, Field, N Tubridy, M Marriott, C Chapman, T Kilpatrick, B. Taylor, S Foote, H Butzkueven, M. Bahlo, T. Speed, J Stankovich, Schwalb, Cook, Devoto, Vitale, Southern MS Genetics Consortium. Variants of ST8SIA1 are associated with risk of developing multiple sclerosis. PLoS One, 3, e2653 (6pp), 2008. doi: 10.1371/journal.pone.0002653.
Arthur, Armati, Bye, T Kilpatrick, S Foote, H Butzkueven, B. Taylor, N Tubridy, M Marriott, J Stankovich, T. Speed, M. Bahlo, C Chapman, Heard, Stewart, Pollard, Booth, Southern MS Genetics Consortium. Genes implicated in multiple sclerosis pathogenesis from consilience of genotyping and expression profiles in relapse and remission.. BMC Medical Genetics, 9, 17-29, 2008. doi: 10.1186/1471-2350-9-17.
Samuel Wormald, Douglas J Hilton, G. Smyth, T. Speed. Proximal genomic localization of STATI binding and regulated transcriptional activity. BMC Genomics, 7, 254 (13pp), 2006. doi: 10.1186/1471-2164/7/254.
Y Gilad, A Oshlack, G. Smyth, T. Speed, K. White. Expression profiling in primates reveals a rapid evolution of human transcription factors. Nature, 440, 242-245, 2006. doi: 10.1038/nature04559.
Enmoore Lin, Tony Pappenfuss, R. Tan, Danielle Senyschyn, M. Bahlo, T. Speed, Simon J Foote. Mapping of the Plasmodium chabaudi resistance locus char2. Infection and Immunity, 74, 5814-5819, 2006. doi: 10.1128/IAI.01690-05.
Paul R Gilson, Thomas Nebl, D. Vukcevic, Robert L Moritz, Tobias Sargeant, T. Speed, Louis Schofield, Brendan S Crabb. Identification and stoichiometry of glycosylphosphatidylinositol-anchored membrane proteins of the human malaria parasite Plasmodium falciparum.. Molecular and Cellular Proteomics, 5, 1286-1299, 2006. doi: 10.1074/mcp.M600035-MCP200.
JA Tye-Din, G. Smyth, T. Speed, RP Anderson, T Beissbarth. A systematic approach for comprehensive T-cell epitope discovery using peptide libraries. Bioinformatics, 21, I29-I37, 2005. doi: 10.1093/bioinformatics/bti1013.
Tim Beissbarth, Lavinia Hyde, G. Smyth, Chris Job, Wee-Ming Boon, S. Tan, Hamish S Scott, T. Speed, T Beissbarth. Statistical modeling of sequencing errors in SAGE libraries. Bioinformatics, 20, 31-39, 2004. doi: 10.1093/bioinformatics/bth924.
G. Smyth, T. Speed. Normalization of cDNA microarray data. Methods, 31, 265-273, 2003. doi: 10.1016/S1046-2023(03)00155-5.
M. Bahlo, R Thomson, T. Speed. Discussion. Australian and New Zealand Journal of Statistics, 45, 427-430, 2003.
P Banerjee, M. Bahlo, JR Schwartz, GG Loots, KA Houston, I Dubchak, T. Speed, EM Rubin. SNPs in putative regulatory regions identified by human mouse comparative sequencing and transcription factor binding site data. Mammalian Genome, 13, 554-557, 2002. doi: 10.1007/s00335-002-2169-4.
D. Balding, AD Carothers, JL Marchini, LR Cardon, A Vetta, B Griffiths, BS Weir, WG Hill, D Goldstein, K Strimmer, S Myers, MA Beaumont, CA Glasbey, CD Mayer, S Richardson, C Marshall, R Durrett, R Nielsen, PM Visscher, SA Knott, CS Haley, RD Ball, CA Hackett, S. Holmes, D Husmeier, RC Jansen, CJF ter Braak, CA Maliepaard, MP Boer, P Joyce, N. Li, M Stephens, GA Marcoulides, Z Drezner, K Mardia, G McVean, XL Meng, MF Ochs, M Pagel, N Sha, M Vannucci, MJ Sillanpaa, S Sisson, BS Yandell, CF Jin, JM Satagopan, PJ Gaffney, ZB Zeng, KW Broman, T. Speed, P Fearnhead, P Donnelly, B Larget, DL Simon, JB Kadane, G Nicholson, A. Smith, F Jonsson, O Gustafsson, K Stefansson, G Parmigiani, ES Garrett, R Anbazhagan, E Gabrielson, MJ Sillanpää, F Jónsson, O Gústafsson, K Stefánsson. Discussion on the meeting on 'Statistical modelling and analysis of genetic data'. 64, 737-775, WILEY-BLACKWELL, 2002. doi: 10.1111/1467-9868.00359.