By Professor Susan Clark

Journal articles

Hitchins MP; Ap Lin V; Buckle AD; Cheong KF; Halani N; Ku S; Kwok C; Packham D; Suter CM; Meagher AP; Stirzaker C; Clark SJ; Hawkins NJ; Ward RL, 2007, 'Epigenetic inactivation of a cluster of genes flanking MLH1 in microsatellite-unstable colorectal cancer', Cancer research, 67, pp. 9107 - 9116, http://dx.doi.org/10.1158/0008-5472.CAN-07-0869

Coolen M; Statham A; Gardiner-Garden M; Clark SJ, 2007, 'Genomic profiling of CpG methylation and allelic specificity using quantitative high-throughput mass spectrometry: critical evaluation and improvements', Nucleic Acids Research, 35

Clark SJ; Statham A; Stirzaker C; Molloy PL; Frommer M, 2006, 'DNA methylation: Bisulphite modification and analysis', Nature Protocols, 1, pp. 2353 - 2364, http://dx.doi.org/10.1038/nprot.2006.324

Rand KN; Mitchell SM; Clark SJ; Molloy PL, 2006, 'Bisulphite differential denaturation PCR for analysis of DNA methylation', Epigenetics, 1, pp. 94 - 100, http://dx.doi.org/10.4161/epi.1.2.2680

Wong NC; Wong LH; Quach JM; Canham P; Craig JM; Song JZ; Clark SJ; Choo KHA, 2006, 'Permissive transcriptional activity at the centromere through pockets of DNA hypomethylation', PLoS Genetics, 2, pp. 172 - 186

Frigola J; Song J; Stirzaker C; Hinshelwood R; Peinado M; Clark SJ, 2006, 'Epigenetic remodeling in colorectal cancer results in coordinate gene suppression across an entire chromosome band', Nature Genetics, 38, pp. 540 - 549

Wen VW; Wu K; Baksh S; Hinselwood RA; Lock RB; Clark SJ; Moore MA; Mackenzie K, 2006, 'Telomere-driven karyotypic complexity concurs with p16INK4a inactivation in TP53 competent immortal endothelial cells', Cancer research, 66, pp. 10691 - 10700

Rand KN; Ho T; Qu W; Mitchell SM; White R; Clark SJ; Molloy PL, 2005, 'Headloop suppression PCR and its application to selective amplification of methylated DNA sequences.', Nucleic acids research, 33

Rand KN; Ho T; Qu W; Mitchell SM; White R; Clark SJ; Molloy PL, 2005, 'Headloop suppression PCR and its application to selective amplification of methylated DNA sequences', Nucleic Acids Research, 33, pp. 1 - 11, http://dx.doi.org/10.1093/nar/gni120

Frigola J; Munoz MA; Clark SJ; Moreno V; Capella G; Peinado M, 2005, 'Hypermethylation of the prostacyclin synthase (PTGIS) promoter is a frequent event in colorectal cancer and associated with aneuploidy', Oncogene, 24, pp. 7320 - 7326

Sidhu S; Martin E; Gicquel C; Melki J; Clark SJ; Campbell P; Magarey CJ; Schulte KM; Roher HD; Delbridge L; Robinson BG, 2005, 'Mutation and methylation analysis of TP53 in adrenal carcinogenesis', Eur J Surg Oncol, 31, pp. 549 - 554, http://dx.doi.org/10.1016/j.ejso.2005.01.013

Broad A; Links MR; Rosenthal M; Abraham R; Clark SJ; Burns I; Dilulio J; Mitchell P, 2005, 'Oxaliplatin and gemcitabine in advanced NSCLC: A multicentre phase 2 Australian study', Lung Cancer, 49, pp. S239 - S239

Wong NC-L; Wong LH; Quach JM; Canham P; Craig JM; Song JZ; Clark SJ; Choo A, 2005, 'Permissive transcriptional activity at the centromere through pockets of DNA hypomethylation', PLoS Genetics, preprint, pp. e17 - e17, http://dx.doi.org/10.1371/journal.pgen.0020017.eor

Noble JR; Zhong ZH; Neumann AA; Melki JR; Clark SJ; Reddel RR, 2004, 'Alterations in the p16(INK4a) and p53 tumor suppressor genes of hTERT-immortalized human fibroblasts', Oncogene, 23, pp. 3116 - 3121, http://dx.doi.org/10.1038/sj.onc.1207440

Stirzaker C; Song J; Davidson B; Clark SJ, 2004, 'Transcriptional Gene Silencing Promotes DNA Hypermethylation through a sequential Change in Chromatin Modifications in Cancer Cells', Cancer research, 64, pp. 3871 - 3877

Clark SJ; Millar DS; Molloy P, 2003, 'Bisulfite methylation analysis of tumor suppressor genes in prostate cancer from fresh and archival tissue samples', Methods Mol Med, 81, pp. 219 - 240, http://dx.doi.org/10.1385/1-59259-372-0:219

Schmitt JF; Millar DS; Pedersen JS; Clark SL; Venter DJ; Frydenberg M; Molloy PL; Risbridger GP, 2002, 'Hypermethylation of the inhibin α-subunit gene in prostate carcinoma', Molecular Endocrinology, 16, pp. 213 - 220, http://dx.doi.org/10.1210/me.16.2.213

Rand K; Qu W; Ho T; Clark SJ; Molloy P, 2002, 'Conversion-specific detection of DNA methylation using real-time polymerase chain reaction (ConLight-MSP) to avoid false positives', Methods, 27, pp. 114 - 120, http://www.ncbi.nlm.nih.gov/pubmed/12095268

Clark SJ; Warnecke PM, 2002, 'DNA methylation analysis in mammalian cells', Methods, 27, pp. 99 - 100, http://www.ncbi.nlm.nih.gov/pubmed/12095265

Clark SJ; Melki J, 2002, 'DNA methylation and gene silencing in cancer: which is the guilty party?', Oncogene, 21, pp. 5380 - 5387, http://dx.doi.org/10.1038/sj.onc.1205598

Melki JR; Clark SJ, 2002, 'DNA methylation changes in leukaemia', Semin Cancer Biol, 12, pp. 347 - 357, http://www.ncbi.nlm.nih.gov/pubmed/12191634

Schmitt JF; Millar DS; Pedersen JS; Clark SL; Venter DJ; Frydenberg M; Molloy PL; Risbridger GP, 2002, 'Hypermethylation of the inhibin alpha-subunit gene in prostate carcinoma', Mol Endocrinol, 16, pp. 213 - 220, http://dx.doi.org/10.1210/mend.16.2.0771

Song JZ; Stirzaker C; Harrison J; Melki JR; Clark SJ, 2002, 'Hypermethylation trigger of the glutathione-S-transferase gene (GSTP1) in prostate cancer cells', Oncogene, 21, pp. 1048 - 1061, http://dx.doi.org/10.1038/sj.onc.1205153

Warnecke PM; Stirzaker C; Song J; Grunau C; Melki JR; Clark SJ, 2002, 'Identification and resolution of artifacts in bisulfite sequencing', Methods, 27, pp. 101 - 107, http://www.ncbi.nlm.nih.gov/pubmed/12095266

Millar DS; Warnecke PM; Melki JR; Clark SJ, 2002, 'Methylation sequencing from limiting DNA: embryonic, fixed, and microdissected cells', Methods, 27, pp. 108 - 113, http://www.ncbi.nlm.nih.gov/pubmed/12095267

Grunau C; Renault E; Rosenthal A; Roizes G, 2001, 'MethDB - a public database for DNA methylation data', NUCLEIC ACIDS RESEARCH, 29, pp. 270 - 274, http://dx.doi.org/10.1093/nar/29.1.270

Grunau C; Clark SJ; Rosenthal A, 2001, 'Bisulfite genomic sequencing: systematic investigation of critical experimental parameters', Nucleic Acids Res, 29, pp. E65 - E65, http://www.ncbi.nlm.nih.gov/pubmed/11433041

Welch J; Millar D; Goldman A; Heenan P; Stark M; Eldon M; Clark S; Martin NG; Hayward NK, 2001, 'Lack of genetic and epigenetic changes in CDKN2A in melanocytic nevi', J Invest Dermatol, 117, pp. 383 - 384, http://dx.doi.org/10.1046/j.0022-202x.2001.01391.x

Chetcuti A; Margan SH; Russell P; Mann S; Millar DS; Clark SJ; Rogers J; Handelsman DJ; Dong Q, 2001, 'Loss of annexin II heavy and light chains in prostate cancer and its precursors', Cancer Res, 61, pp. 6331 - 6334, http://www.ncbi.nlm.nih.gov/pubmed/11522620

Jackson P; Millar D; Kingsley E; Yardley G; Ow K; Clark S; Russell PJ, 2000, 'Methylation of a CpG island within the promoter region of the KAI1 metastasis suppressor gene is not responsible for down-regulation of KAI1 expression in invasive cancers or cancer cell lines', Cancer Letters, 157, pp. 169 - 176, http://dx.doi.org/10.1016/S0304-3835(00)00483-3

Millar DS; Paul CL; Molloy PL; Clark SJ, 2000, 'A distinct sequence (ATAAA)n separates methylated and unmethylated domains at the 5'-end of the GSTP1 CpG island', J Biol Chem, 275, pp. 24893 - 24899, http://dx.doi.org/10.1074/jbc.M906538199

Melki JR; Vincent PC; Brown RD; Clark SJ, 2000, 'Hypermethylation of E-cadherin in leukemia', Blood, 95, pp. 3208 - 3213, http://www.ncbi.nlm.nih.gov/pubmed/10807790

Jackson P; Mills DR; Kingsley EA; Yardley G; Ow KT; Clark SJ; Russell PJ, 2000, 'Methylation of a CpG island within the KAI1 promoter region is not responsible for reduced KAI1 expression in invasive bladder cancer or bladder cancer cell lines', Cancer Letters, 157, pp. 169 - 175

Veitch C; Harte J; Hays R; Pashen D; Clark S, 1999, 'Community participation in the recruitment and retention of rural doctors: methodological and logistical considerations.', The Australian journal of rural health, 7, pp. 206 - 211, http://dx.doi.org/10.1046/j.1440-1584.1999.00213.x

Melki JR; Vincent PC; Clark SJ, 1999, 'Cancer-specific region of hypermethylation identified within the HIC1 putative tumour suppressor gene in acute myeloid leukaemia', Leukemia, 13, pp. 877 - 883, http://www.ncbi.nlm.nih.gov/pubmed/10360376

Melki JR; Vincent PC; Clark SJ, 1999, 'Concurrent DNA hypermethylation of multiple genes in acute myeloid leukemia', Cancer Res, 59, pp. 3730 - 3740, http://www.ncbi.nlm.nih.gov/pubmed/10446989

Millar DS; Ow KT; Paul CL; Russell PJ; Molloy PL; Clark SJ, 1999, 'Detailed methylation analysis of the glutathione S-transferase pi (GSTP1) gene in prostate cancer', Oncogene, 18, pp. 1313 - 1324

Warnecke PM; Clark SJ, 1999, 'DNA methylation profile of the mouse skeletal alpha-actin promoter during development and differentiation', Mol Cell Biol, 19, pp. 164 - 172, http://www.ncbi.nlm.nih.gov/pubmed/9858541

Molloy PL; Millar DS; Russell PJ; Clark SJ, 1999, 'Prostate Cancer DNA Methylation assay', Today's Life Science, 11, pp. 34 - 35

Warnecke PM; Mann JR; Frommer M; Clark SJ, 1998, 'Bisulfite sequencing in preimplantation embryos: DNA methylation profile of the upstream region of the mouse imprinted H19 gene', Genomics, 51, pp. 182 - 190, http://dx.doi.org/10.1006/geno.1998.5371

Harrison J; Stirzaker C; Clark SJ, 1998, 'Cytosines adjacent to methylated CpG sites can be partially resistant to conversion in genomic bisulfite sequencing leading to methylation artifacts', Anal Biochem, 264, pp. 129 - 132, http://dx.doi.org/10.1006/abio.1998.2833

Melki JR; Warnecke P; Vincent PC; Clark SJ, 1998, 'Increased DNA methyltransferase expression in leukaemia', Leukemia, 12, pp. 311 - 316, http://www.ncbi.nlm.nih.gov/pubmed/9529124

Huschtscha LI; Noble JR; Neumann AA; Moy EL; Barry P; Melki JR; Clark SJ; Reddel RR, 1998, 'Loss of p16INK4 expression by methylation is associated with lifespan extension of human mammary epithelial cells', Cancer Res, 58, pp. 3508 - 3512, http://www.ncbi.nlm.nih.gov/pubmed/9721850

Warnecke PM; Biniszkiewicz D; Jaenisch R; Frommer M; Clark SJ, 1998, 'Sequence-specific methylation of the mouse H19 gene in embryonic cells deficient in the Dnmt-1 gene', Dev Genet, 22, pp. 111 - 121, http://dx.doi.org/10.1002/(SICI)1520-6408(1998)22:2<111::AID-DVG1>3.0.CO;2-9

Melki JR; Vincent PC; Clark SJ, 1997, 'DNA methylation in leukemia', Experimental Hematology, 25, pp. 855

Stirzaker C; Millar DS; Paul CL; Warnecke PM; Harrison J; Vincent PC; Frommer M; Clark SJ, 1997, 'Extensive DNA methylation spanning the Rb promoter in retinoblastoma tumors', Cancer Research, 57, pp. 2229 - 2237

Warnecke PM; Stirzaker C; Melki JR; Millar DS; Paul CL; Clark SJ, 1997, 'Detection and measurement of PCR bias in quantitative methylation analysis of bisulphite-treated DNA', Nucleic Acids Res, 25, pp. 4422 - 4426, http://www.ncbi.nlm.nih.gov/pubmed/9336479

Clark SJ; Harrison J; Molloy PL, 1997, 'Sp1 binding is inhibited by (m)Cp(m)CpG methylation', Gene, 195, pp. 67 - 71, http://www.ncbi.nlm.nih.gov/pubmed/9300822

Paul CL; Clark SJ, 1996, 'Cytosine methylation: quantitation by automated genomic sequencing and GENESCAN analysis', Biotechniques, 21, pp. 126 - 133, http://www.ncbi.nlm.nih.gov/pubmed/8816247

Clark SJ; Harrison J; Frommer M, 1995, 'CpNpG methylation in mammalian cells', Nat Genet, 10, pp. 20 - 27, http://dx.doi.org/10.1038/ng0595-20

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