The Walter and Eliza Hall Institute of Medical Research

Professor Terry Speed

Details

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Division: Bioinformatics

Research Projects

Metabolic flux analysis

Estimating 13C enrichment in time course experiments

Basecalling for resequencing chips

Phylogenomics Illuminates the Evolution of the Apicomplexan Phylum

Major Publications

1. McCoubrie JE, Miller SK, Sargeant T, Good RT, Hodder AN, Speed TP, de Koning-Ward TF, Crabb BS.
   Evidence for a common role for the serine-type Plasmodium falciparum serine repeat antigen proteases: implications for vaccine and drug design.
   Infect Immun. 2007 Dec;75(12):5565-74 PMID: 17893128 [PubMed - indexed for MEDLINE]
2. Robinson MD, De Souza DP, Keen WW, Saunders EC, McConville MJ, Speed TP, Likić VA.
   A dynamic programming approach for the alignment of signal peaks in multiple gas chromatography-mass spectrometry experiments.
   BMC Bioinformatics. 2007 Oct 29;8:419 PMID: 17963529 [PubMed - indexed for MEDLINE]
3. Robinson MD, Speed TP.
   A comparison of Affymetrix gene expression arrays.
   BMC Bioinformatics . 2007 Nov 15;8:449 PMID: 18005448 [PubMed - indexed for MEDLINE]
4. Szpara ML, Vranizan K, Tai YC, Goodman CS, Speed TP, Ngai J.
   Analysis of gene expression during neurite outgrowth and regeneration.
   BMC Neurosci. 2007 Nov 23;8:100 PMID: 18036227 [PubMed - indexed for MEDLINE]
5. Guipponi M, Toh MY, Tan J, Park D, Hanson K, Ballana E, Kwong D, Cannon PZ, Wu Q, Gout A, Delorenzi M, Speed TP, Smith RJ, Dahl HH, Petersen M, Teasdale RD, Estivill X, Park WJ, Scott HS.
   An integrated genetic and functional analysis of the role of type II transmembrane serine proteases (TMPRSSs) in hearing loss.
   Hum Mutat. 2008 Jan;29(1):130-41 PMID: 17918732 [PubMed - indexed for MEDLINE]
6. Burfoot RK, Jensen CJ, Field J, Stankovich J, Varney MD, Johnson LJ, Butzkueven H, Booth D, Bahlo M, Tait BD, Taylor BV, Speed TP, Heard R, Stewart GJ, Foote SJ, Kilpatrick TJ, Rubio JP.
   SNP mapping and candidate gene sequencing in the class I region of the HLA complex: searching for multiple sclerosis susceptibility genes in Tasmanians.
   Tissue Antigens. 2008 Jan;71(1):42-50 PMID: 17971048 [PubMed - indexed for MEDLINE]
7. Levy N, Tatomer D, Herber CB, Zhao X, Tang H, Sargeant T, Ball LJ, Summers J, Speed TP, Leitman DC.
   Differential regulation of native estrogen receptor-regulatory elements by estradiol, tamoxifen, and raloxifene.
   Mol Endocrinol. 2008 Feb;22(2):287-303 PMID: 17962382 [PubMed - indexed for MEDLINE]
8. Li XY, MacArthur S, Bourgon R, Nix D, Pollard DA, Iyer VN, Hechmer A, Simirenko L, Stapleton M, Luengo Hendriks CL, Chu HC, Ogawa N, Inwood W, Sementchenko V, Beaton A, Weiszmann R, Celniker SE, Knowles DW, Gingeras T, Speed TP, Eisen MB, Biggin MD.
   Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm.
   PLoS Biol. 2008 Feb;6(2):e27 PMID: 18271625 [PubMed - indexed for MEDLINE]
9. Bengtsson H, Irizarry R, Carvalho B, Speed TP.
   Estimation and assessment of raw copy numbers at the single locus level.
   Bioinformatics. 2008 Mar 15;24(6):759-67 PMID: 18204055 [PubMed - indexed for MEDLINE]
10. Chuan Tai Y, Speed TP.
    On Gene Ranking Using Replicated Microarray Time Course Data.
    Biometrics. 2008 Jun 5; PMID: 18537947 [PubMed - as supplied by publisher]

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Current Laboratory Members

Faculty Member: Terry Speed, BSc(Hons) Melb DipEd Mon FAA PhD Mon

Scientific Coordinator/Alliance Manager: Fiona McGrath, BAppSc(Hons) RMIT (Jointly with Molecular Medicine Division)

Administrative Assistant: Maria Markovic, BA RMIT DipEd LaT (Jointly with Molecular Medicine Division)

Senior Postdoctoral Fellow: Toby Sargeant, BComp(Hons) BSc MComp Mon PhD Melb (Jointly with Molecular Medicine Division)

Senior Postdoctoral Fellow: Mark Robinson, BSc(Hons) Guelph PhD British Columbia

Senior Postdoctoral Fellow: Martin O'Hely, BSc(Hons) Mon MA PhD Minnesota

Senior Postdoctoral Fellow: Matthew Wakefield, BSc(Hons) Melb PhD LaT

Postdoctoral Fellow: Sarah Boyd, BSc(Hons) PhD Mon

Postgraduate Student: Alexander Gout, BSc(Hons) GradDipComp UWA (jointly with Professor Terry Speed)

Undergraduate Student: Jacob Egwunye

Undergraduate Student: Duc Truong