Frequent somatic mutations of GATA3 in non-BRCA1/BRCA2 familial breast tumors, but not in BRCA1-, BRCA2- or sporadic breast tumors. Arnold JM, Choong DY, Thompson ER, kConFab, Waddell N, Lindeman GJ, Visvader JE, Campbell IG, and Chenevix-Trench G. (2010). Breast Cancer Res Treat Jan; 119(2):491-6.
A comprehensive catalogue of gene expression in the developing lower urinary tract and genital tubercle reveals strong links with cadherin and Wnt signaling and identifies epidermal gene networks in the developing genital tubercle. Chiu, H-S, Szucsik, JC, Georgas, KM, Jones, JL, Rumballe, BA, Tang, D, Grimmond, SM, Lewis, AG, Lessard, JL, Aronow, BJ and Little, MH. (2010). Developmental Biology 344(2):1071-1087.
Ascorbate activates CD30 expression and causes widespread specific demethylation of the epigenome of serum free cultured hESC. Chung, T, Brena, RM, Berman, BP, Kolle, G, Grimmond, SM, Laird, PW, Pera, MF, and Wolvetang, E (2010). Stem Cells 28(10):1782-93
Vitamin C Promotes Widespread Yet Specific DNA Demethylation of the Epigenome in Human Embryonic Stem Cells. Chung TL, Brena RM, Kolle G, Grimmond SM, Berman BP, Laird PW, Pera MF, and Wolvetang E. (2010). Stem Cells 8(10):1848-55.
The clinical potential and challenges of studying cancer at single nucleotide resolution. Cloonan N, Waddell N, and Grimmond SM. (2010). iDrug Nov 13 (11):778-81 PMID 21046525.
Simplifying Complexity. Cloonan N and Grimmond SM. (2010). Nature Methods 7(10):793-5.
DNA methylome of familial breast cancer identifies distinct profiles. Flanagan JM, Kugler S, Waddell N, Johnstone C, Marsh A, Henderson S, Simpson P, da Silva L, kConFab Investigators, Lakhani S, Boshoff C and Chenevix-Trench G. (2010). Am J Hum Genet 86(3):420-433.
Functional implications of the emergence of alternative splicing in hnRNP A/B transcripts. Han, SP, Kassahn, KS, Skarshewski, A, Ragan, MA, Rothnagel, J, and Smith, R. (2010). RNA 16(9):1760-1768.
International network of cancer genome projects, The International Cancer Genome Consortium (2010) (SM Grimmond listed as leader of the Australian project & member of the technology and scientific steering committees), Nature 464(7291):993-8.
Gene expression profile of the foreign body response in the peritoneal cavity. Le, SJ, Gongora, M, Zhang, B, Rolfe, BE, Grimmond, S, Campbell, JH, and Campbell, GR.(2010). Differentiation 79(4-5):232-43.
Subfractionation of differentiating hES populations allows the isolation of a mesodermal population enriched for intermediate mesoderm and putative renal progenitors. Lin SA. Kolle G, Grimmond SM, Zhou Q, Doust E, Little M, Aronow B, Ricardo S, Pera MF, Bertram JF, and Laslett AL. (2010). Stem Cells & Development19(10):1637-48.
A visual framework for sequence analysis using n-grams and spectral rearrangement. Maetschke, SR, Kassahn, KS, Dunn, JA, Han SP, Curley EZ, Stacey KJ, and Ragan MA. (2010). Bioinformatics 26(6): 737-744.
Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptome. Mercer TR, Dinger ME, Bracken CP, Kolle G, Szubert JM, Korbie DJ, Askarian-Amiri ME, Gardiner BB, Goodall GJ, Grimmond SM, and Mattick JS. (2010). Genome Res Dec;20(12): 1639-50. Epub 2010 Nov 2.
A map of human genome variation from population-scale sequencing (2010). The 1000 Genomes Project Consortium (John V Pearson contributing author). Nature 467, 1061-1073.
An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man. Schmeier S, Kanamori-Katayama M, Bertin N, Carninci P, Daub CO, Forrest ARR, Gough J, Grimmond SM, Han J-H, Hashimoto T, Hide W, Hofmann O, Kawaji H, Kubosaki A, Lassmann T, van Nimwegen E, Ogawa C, Teasdale RD, Tegnér J, Lenhard B, Teichmann SA, Arakawa T, Ninomiya N, Murakami K, Tagami M, Fukuda S, Imamura K, Kai C, Ishihara R, Kitazume Y, Kawai J, Hume DA, Ideker T, and Hayashizaki Y. (2010). Cell 140, p. 744-752.
Redirection of renal mesenchyme to stromal and chondrocytic fates in the presence of TGF-β2. Sims-Lucas S, Young RJ, Martinez G, Taylor D, Grimmond SM, Teasdale R, Little MH, Bertram JF, and Caruana G. (2010). J. Differentiation 79(4-5):272-84.
Analysis of BRCA1-deficient mouse mammary glands reveals reciprocal regulation of BRCA1 and c-kit. Smart CE, Wronski A, French JD, Edwards SL, Assalin-Labat ML, Waddell N, Peters K, Brewster BL, Brooks K, Simpson K, Manning N, Lakhani SR, Grimmond SM, Lindeman G, Visvader JE, and Brown MA. (2010). Oncogene 2010 Dec (Epub ahead of print)
Profiling Gene Expression Induced by Protease-Activated Receptor 2 (PAR2) Activation in Human Kidney Cells. Suen JY, Gardiner B, Grimmond S, and Fairlie DP. (2010). PLoS One 5(11):e13809.
A global role for KLF1 in erythropoiesis revealed by ChIP-seq in primary erythroid cells. Tallack M, Whitington T, Cloonan N, Bailey T*, Grimmond SM*, Perkins A* (Corresponding authors) (2010). Genome Research 20(8):1052-63.
Gene Expression Profiling of Formalin-Fixed Paraffin Embedded Familial Breast Tumours using the Whole Genome-DASL assay. Waddell N, Kugler S, Johnson J, Marsh A, Riley J, da Silva L, Reid L, kConFab Investigators, Simpson P, Lakhani S, and Chenevix-Trench G (2010). Journal of Pathology 221(4):452-461
Use of DNA damaging agents and RNA pooling to assess expression profiles associated with BRCA1 and BRCA2 mutation status in familial breast cancer patients. Walker LC, Thompson B, Waddell N, kConFab Investigators, Grimmond SM, and Spurdle AB. (2010). PLoS Genetics 6(2):e1000850.
QCMG Publications for 2009
QCMG Publications for 2011
QCMG Publications for 2012