AdjAssocProf Clare Stirzaker

Warton K; Stirzaker C; Samimi G; Clark S, 2022, 'DNA Methylation Analysis of Circulating DNA Biomarkers', in Cell-Free Circulating DNA: Purification and Analysis Techniques, WORLD SCIENTIFIC, pp. 247 - 277, http://dx.doi.org/10.1142/9789811244681_0009

Stirzaker C; Armstrong NJ, 2021, 'Evaluation and measurement of epigenetic modifications in population-based studies', in Twin and Family Studies of Epigenetics, Elsevier, pp. 17 - 39, http://dx.doi.org/10.1016/B978-0-12-820951-6.00014-4

Pidsley R; Stirzaker C, 2019, 'Cancer Methylation Biomarkers in Circulating Cell-Free DNA', in Clinical Epigenetics, Springer Singapore, pp. 217 - 245, http://dx.doi.org/10.1007/978-981-13-8958-0_10

Valdés-Mora F; Stirzaker C, 2018, 'Epigenetic Alterations in Primary Prostate Cancer', in Molecular Pathology Library, Springer International Publishing, pp. 193 - 211, http://dx.doi.org/10.1007/978-3-319-64096-9_13

Brown LJ; Achinger-Kawecka J; Portman N; Clark S; Stirzaker C; Lim E, 2022, 'Epigenetic Therapies and Biomarkers in Breast Cancer', Cancers, vol. 14, pp. 474 - 474, http://dx.doi.org/10.3390/cancers14030474

Pidsley R; Lam D; Qu W; Peters TJ; Phuc-Loi L; Korbie D; Stirzaker C; Daly RJ; Stricker P; Kench JG; Horvath LG; Clark SJ, 2022, 'Comprehensive methylome sequencing reveals prognostic epigenetic biomarkers for prostate cancer mortality', CLINICAL AND TRANSLATIONAL MEDICINE, vol. 12, http://dx.doi.org/10.1002/ctm2.1030

Achinger-Kawecka J; Stirzaker C; Portman N; Campbell E; Chia K-M; Du Q; Laven-Law G; Nair SS; Yong A; Wilkinson A; Clifton S; Milioli HH; Alexandrou S; Caldon CE; Song J; Khoury A; Meyer B; Gee JMW; Schmitt A; Wong ES; Hickey TE; Lim E; Clark SJ, 2021, 'Epigenetic therapy targets the 3D epigenome in endocrine-resistant breast cancer', , http://dx.doi.org/10.1101/2021.06.21.449340

Cole AJ; Dickson KA; Liddle C; Stirzaker C; Shah JS; Clifton-Bligh R; Marsh DJ, 2021, 'Ubiquitin chromatin remodelling after DNA damage is associated with the expression of key cancer genes and pathways', Cellular and Molecular Life Sciences, vol. 78, pp. 1011 - 1027, http://dx.doi.org/10.1007/s00018-020-03552-5

Du Q; Smith GC; Luu PL; Ferguson JM; Armstrong NJ; Caldon CE; Campbell EM; Nair SS; Zotenko E; Gould CM; Buckley M; Chia KM; Portman N; Lim E; Kaczorowski D; Chan CL; Barton K; Deveson IW; Smith MA; Powell JE; Skvortsova K; Stirzaker C; Achinger-Kawecka J; Clark SJ, 2021, 'DNA methylation is required to maintain both DNA replication timing precision and 3D genome organization integrity', Cell Reports, vol. 36, http://dx.doi.org/10.1016/j.celrep.2021.109722

Luu PL; Ong PT; Loc TTH; Lam D; Pidsley R; Stirzaker C; Clark SJ, 2021, 'MethPanel: a parallel pipeline and interactive analysis tool for multiplex bisulphite PCR sequencing to assess DNA methylation biomarker panels for disease detection', Bioinformatics, vol. 37, pp. 2198 - 2200, http://dx.doi.org/10.1093/bioinformatics/btaa1060

Meyer B; Clifton S; Locke W; Luu PL; Du Q; Lam D; Armstrong NJ; Kumar B; Deng N; Harvey K; Swarbrick A; Ganju V; Clark SJ; Pidsley R; Stirzaker C, 2021, 'Identification of DNA methylation biomarkers with potential to predict response to neoadjuvant chemotherapy in triple-negative breast cancer', Clinical Epigenetics, vol. 13, http://dx.doi.org/10.1186/s13148-021-01210-6

Stirzaker C; Skvortsova K; Clark SJ, 2021, 'Epigenetic changes during tumour development – functional epigenetics study', Pathology, vol. 53, pp. S10 - S11, http://dx.doi.org/10.1016/j.pathol.2021.05.040

Achinger-Kawecka J; Valdes-Mora F; Luu PL; Giles KA; Caldon CE; Qu W; Nair S; Soto S; Locke WJ; Yeo-Teh NS; Gould CM; Du Q; Smith GC; Ramos IR; Fernandez KF; Hoon DS; Gee JMW; Stirzaker C; Clark SJ, 2020, 'Epigenetic reprogramming at estrogen-receptor binding sites alters 3D chromatin landscape in endocrine-resistant breast cancer', Nature Communications, vol. 11, http://dx.doi.org/10.1038/s41467-019-14098-x

Du Q; Smith G; Luu PL; Ferguson J; Armstrong N; Caldon E; Campbell E; Nair S; Zotenko E; Gould C; Buckley M; Kaczorowski D; Barton K; Deveson I; Smith M; Powell J; Skvortsova K; Stirzaker C; Achinger-Kawecka J; Clark S, 2020, 'DNA methylation is required to maintain DNA replication timing precision and 3D genome integrity', , http://dx.doi.org/10.1101/2020.10.15.338855

Khoury A; Achinger-Kawecka J; Bert SA; Smith GC; French HJ; Luu PL; Peters TJ; Du Q; Parry AJ; Valdes-Mora F; Taberlay PC; Stirzaker C; Statham AL; Clark SJ, 2020, 'Constitutively bound CTCF sites maintain 3D chromatin architecture and long-range epigenetically regulated domains', Nature Communications, vol. 11, http://dx.doi.org/10.1038/s41467-019-13753-7

Lam D; Clark S; Stirzaker C; Pidsley R, 2020, 'Advances in Prognostic Methylation Biomarkers for Prostate Cancer', , http://dx.doi.org/10.20944/preprints202010.0154.v1

Lam D; Clark S; Stirzaker C; Pidsley R, 2020, 'Advances in prognostic methylation biomarkers for prostate cancer', Cancers, vol. 12, pp. 1 - 39, http://dx.doi.org/10.3390/cancers12102993

Lam D; Luu PL; Song JZ; Qu W; Risbridger GP; Lawrence MG; Lu J; Trau M; Korbie D; Clark SJ; Pidsley R; Stirzaker C, 2020, 'Comprehensive evaluation of targeted multiplex bisulphite PCR sequencing for validation of DNA methylation biomarker panels', Clinical Epigenetics, vol. 12, pp. 90, http://dx.doi.org/10.1186/s13148-020-00880-y

Lawrence MG; Pidsley R; Niranjan B; Papargiris M; Pereira BA; Richards M; Teng L; Norden S; Ryan A; Frydenberg M; Stirzaker C; Taylor RA; Risbridger GP; Clark SJ, 2020, 'Alterations in the methylome of the stromal tumour microenvironment signal the presence and severity of prostate cancer', Clinical Epigenetics, vol. 12, pp. 48, http://dx.doi.org/10.1186/s13148-020-00836-2

Stirzaker C; Skvortsova K; Masle-Farquhar E; Goodnow C; Clark SJ, 2020, 'Epigenetic changes during tumour development – Functional epigenetics study', Pathology, vol. 52, pp. S29 - S29, http://dx.doi.org/10.1016/j.pathol.2020.01.121

Bradford ST; Nair SS; Statham AL; van Dijk SJ; Peters TJ; Anwar F; French HJ; von Martels JZH; Sutcliffe B; Maddugoda MP; Peranec M; Varinli H; Arnoldy R; Buckley M; Ross JP; Zotenko E; Song JZ; Stirzaker C; Bauer DC; Qu W; Swarbrick MM; Lutgers HL; Lord RV; Samaras K; Molloy PL; Clark SJ, 2019, 'Methylome and transcriptome maps of human visceral and subcutaneous adipocytes reveal key epigenetic differences at developmental genes', Scientific Reports, vol. 9, pp. 9511, http://dx.doi.org/10.1038/s41598-019-45777-w

Du Q; Bert SA; Armstrong NJ; Caldon CE; Song JZ; Nair SS; Gould CM; Luu PL; Peters T; Khoury A; Qu W; Zotenko E; Stirzaker C; Clark SJ, 2019, 'Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer', Nature Communications, vol. 10, pp. 416, http://dx.doi.org/10.1038/s41467-019-08302-1

Giles KA; Gould CM; Du Q; Skvortsova K; Song JZ; Maddugoda MP; Achinger-Kawecka J; Stirzaker C; Clark SJ; Taberlay PC, 2019, 'Integrated epigenomic analysis stratifies chromatin remodellers into distinct functional groups', Epigenetics and Chromatin, vol. 12, pp. 12, http://dx.doi.org/10.1186/s13072-019-0258-9

Peters TJ; French HJ; Bradford ST; Pidsley R; Stirzaker C; Varinli H; Nair S; Qu W; Song J; Giles KA; Statham AL; Speirs H; Speed TP; Clark SJ, 2019, 'Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements', Bioinformatics, vol. 35, pp. 560 - 570, http://dx.doi.org/10.1093/bioinformatics/bty675

Skvortsova K; Masle-Farquhar E; Luu PL; Song JZ; Qu W; Zotenko E; Gould CM; Du Q; Peters TJ; Colino-Sanguino Y; Pidsley R; Nair SS; Khoury A; Smith GC; Miosge LA; Reed JH; Kench JG; Rubin MA; Horvath L; Bogdanovic O; Lim SM; Polo JM; Goodnow CC; Stirzaker C; Clark SJ, 2019, 'DNA Hypermethylation Encroachment at CpG Island Borders in Cancer Is Predisposed by H3K4 Monomethylation Patterns', Cancer Cell, vol. 35, pp. 297 - 314.e8, http://dx.doi.org/10.1016/j.ccell.2019.01.004

Skvortsova K; Stirzaker C; Taberlay P, 2019, 'The DNA methylation landscape in cancer', Essays in Biochemistry, vol. 63, pp. 797 - 811, http://dx.doi.org/10.1042/EBC20190037

O'Toole SA; Pidsley R; Harvey K; Karim R; Lee CS; Chan B; Stirzaker C, 2018, 'Using the epigenome to understand and better classify phyllodes tumours', Pathology, vol. 50, pp. S7 - S8, http://dx.doi.org/10.1016/j.pathol.2017.12.015

Pidsley R; Lawrence MG; Zotenko E; Niranjan B; Statham A; Song J; Chabanon RM; Qu W; Wang H; Richards M; Nair SS; Armstrong NJ; Nim HT; Papargiris M; Balanathan P; French H; Peters T; Norden S; Ryan A; Pedersen J; Kench J; Daly RJ; Horvath LG; Stricker P; Frydenberg M; Taylor RA; Stirzaker C; Risbridger GP; Clark SJ, 2018, 'Enduring epigenetic landmarks define the cancer microenvironment', Genome Research, vol. 28, pp. 625 - 638, http://dx.doi.org/10.1101/gr.229070.117

Stirzaker C; Song JZ; Statham AL; Clark SJ, 2018, 'Bisulphite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq)', Methods in Molecular Biology, vol. 1708, pp. 285 - 302, http://dx.doi.org/10.1007/978-1-4939-7481-8_15

Cybulski C; Kluźniak W; Huzarski T; Wokołorczyk D; Kashyap A; Jakubowska A; Szwiec M; Byrski T; Dębniak T; Górski B; Sopik V; Akbari MR; Sun P; Gronwald J; Narod SA; Lubiński J; Dębniak T; Dymerska D; Kurzawski G; Lubiński J; Dymerska D; Tutlewska K; Kuswik M; Rudnicka H; Scott RJ; Billings R; Pławski A; Lubinski J; Kurzawski G; Gromowski T; Kąklewski K; Marciniak W; Durda K; Lener M; Sukiennicki G; Kaczmarek K; Jaworska-Bieniek K; Paszkowska-Szczur K; Waloszczyk P; Lubiński J; Dębniak T; Gronwald J; Hemminki K; Försti A; Huzarski T; Gronwald J; Cybulski C; Oszurek O; Szwiec M; Gugała K; Stawicka M; Morawiec Z; Mierzwa T; Falco M; Janiszewska H; Kilar E; Marczyk E; Kozak-Klonowska B; Siołek M; Surdyka D; Wiśniowski R; Posmyk M; Domagała P; Byrski T; Sun P; Lubiński J; Narod SA; Imyanitov EN; Kaczmarek K; Muszyńska M; Marciniak W; Sukiennicki G; Lener M; Durda K; Jaworska-Bieniek K; Gromowski T; Prajzendanc K; Peruga N; Huzarski T; Byrski T; Gronwald J; Cybulski C; Dębniak T; Morawski A; Jakubowska A; Lubiński J; Lener MR; Scott RJ; Kluźniak W; Gronwald J; Baszuk P; Cybulski C; Wiechowska-Kozłowska A; Huzarski T; Kładny J; Pietrzak S; Soluch A; Jakubowska A; Lubiński J; Plawski A; Prajzendanc K; Jakubowska A; Lubiński J; Rashid UR; Naeemi H; Muhammad N; Lubiński J; Jakubowska A; Loya A; Yusuf MA; Savanevich A; Aszurek O; Gronwald J; Lubiński J; Mathe A; Wong-Brown M; Locke W; Stirzaker C; Braye SG; Forbes JF; Clark S; Avery-Kiejda K; Scott RJ; Tomiczek-Szwiec J; Huzarski T; Szwiec M; Gronwald J; Cybulski C; Marczyk E; Jakubowicz J; Kilar E; Sibilski R; Stawicka M; Morawiec Z; Mierzwa T; Falco M; Janiszewska H; Kozak-Klonowska B; Siołek M; Surdyka D; Wiśniowski R; Posmyk R; Domagała P; Lubiński J; Szwiec M; Tomiczek-Szwiec J; Huzarski T; Cybulski C; Lubiński J, 2017, 'Meeting abstracts from the Annual Conference on Hereditary Cancers 2016', Hereditary Cancer in Clinical Practice, vol. 15, http://dx.doi.org/10.1186/s13053-017-0081-x

Lawrence M; Pidlsey R; Zotenko E; Niranjan B; Nair S; French H; Statham A; Song J; Chabanon R; Papargiris M; Ellem S; Frydenberg M; Pedersen J; Stirzaker C; Taylor R; Clark S; Risbridger G, 2017, 'Hypomethylation of estrogen receptor alpha: a landmark in the epigenome landscape of prostate cancer stroma', CLINICAL ENDOCRINOLOGY, vol. 86, pp. 23 - 23, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000393453600061&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Skvortsova K; Zotenko E; Luu PL; Gould CM; Nair SS; Clark SJ; Stirzaker C, 2017, 'Comprehensive evaluation of genome-wide 5-hydroxymethylcytosine profiling approaches in human DNA', Epigenetics and Chromatin, vol. 10, http://dx.doi.org/10.1186/s13072-017-0123-7

Stirzaker C; Song JZ; Ng W; Du Q; Armstrong NJ; Locke WJ; Statham AL; French H; Pidsley R; Valdes-Mora F; Zotenko E; Clark SJ, 2017, 'Methyl-CpG-binding protein MBD2 plays a key role in maintenance and spread of DNA methylation at CpG islands and shores in cancer', Oncogene, vol. 36, pp. 1328 - 1338, http://dx.doi.org/10.1038/onc.2016.297

Valdés-Mora F; Gould CM; Colino-Sanguino Y; Qu W; Song JZ; Taylor KM; Buske FA; Statham AL; Nair SS; Armstrong NJ; Kench JG; Lee KML; Horvath LG; Qiu M; Ilinykh A; Yeo-Teh NS; Gallego-Ortega D; Stirzaker C; Clark SJ, 2017, 'Acetylated histone variant H2A.Z is involved in the activation of neo-enhancers in prostate cancer', Nature Communications, vol. 8, http://dx.doi.org/10.1038/s41467-017-01393-8

Bock C; Halbritter F; Carmona FJ; Tierling S; Datlinger P; Assenov Y; Berdasco M; Bergmann AK; Booher K; Busato F; Campan M; Dahl C; Dahmcke CM; Diep D; Fernández AF; Gerhauser C; Haake A; Heilmann K; Holcomb T; Hussmann D; Ito M; Kläver R; Kreutz M; Kulis M; Lopez V; Nair SS; Paul DS; Plongthongkum N; Qu W; Queirós AC; Reinicke F; Sauter G; Schlomm T; Statham A; Stirzaker C; Strogantsev R; Urdinguio RG; Walter K; Weichenhan D; Weisenberger DJ; Beck S; Clark SJ; Esteller M; Ferguson-Smith AC; Fraga MF; Guldberg P; Hansen LL; Laird PW; Martín-Subero JI; Nygren AOH; Peist R; Plass C; Shames DS; Siebert R; Sun X; Tost J; Walter J; Zhang K, 2016, 'Quantitative comparison of DNA methylation assays for biomarker development and clinical applications', Nature Biotechnology, vol. 34, pp. 726 - 737, http://dx.doi.org/10.1038/nbt.3605

Mathe A; Wong-Brown M; Locke WJ; Stirzaker C; Braye SG; Forbes JF; Clark SJ; Avery-Kiejda KA; Scott RJ, 2016, 'DNA methylation profile of triple negative breast cancer-specific genes comparing lymph node positive patients to lymph node negative patients', Scientific Reports, vol. 6, http://dx.doi.org/10.1038/srep33435

Pidsley R; Zotenko E; Peters TJ; Lawrence MG; Risbridger GP; Molloy P; Van Djik S; Muhlhausler B; Stirzaker C; Clark SJ, 2016, 'Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling', GENOME BIOLOGY, vol. 17, http://dx.doi.org/10.1186/s13059-016-1066-1

Pidsley R; Zotenko E; Peters TJ; Lawrence MG; Risbridger GP; Molloy P; Van Djik S; Muhlhausler B; Stirzaker C; Clark SJ, 2016, 'Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling', Genome Biology, vol. 17, http://dx.doi.org/10.1186/s13059-016-1066-1

Stirzaker C; Zotenko E; Clark SJ, 2016, 'Genome-wide DNA methylation profiling in triple-negative breast cancer reveals epigenetic signatures with important clinical value', Molecular and Cellular Oncology, vol. 3, http://dx.doi.org/10.1080/23723556.2015.1038424

Taberlay PC; Achinger-Kawecka J; Lun ATL; Buske FA; Sabir KS; Gould CM; Zotenko E; Bert SA; Giles KA; Bauer D; Smyth GK; Stirzaker C; O Donoghue SI; Clark SJ, 2016, 'Three-dimensional disorganisation of the cancer genome occurs coincident with long range genetic and epigenetic alterations', Genome Research, vol. 26, pp. 719 - 731, http://dx.doi.org/10.1101/gr.201517.115

Du Q; Luu PL; Stirzaker C; Clark SJ, 2015, 'Methyl-CpG-binding domain proteins: Readers of the epigenome', Epigenomics, vol. 7, pp. 1051 - 1073, http://dx.doi.org/10.2217/epi.15.39

Korbie D; Lin E; Wall D; Nair SS; Stirzaker C; Clark SJ; Trau M, 2015, 'Multiplex bisulfite PCR resequencing of clinical FFPE DNA', Clinical Epigenetics, vol. 7, http://dx.doi.org/10.1186/s13148-015-0067-3

Locke WJ; Zotenko E; Stirzaker C; Robinson MD; Hinshelwood RA; Stone A; Reddel RR; Huschtscha LI; Clark SJ, 2015, 'Coordinated epigenetic remodelling of transcriptional networks occurs during early breast carcinogenesis', Clinical Epigenetics, vol. 7, http://dx.doi.org/10.1186/s13148-015-0086-0

Stirzaker C; Zotenko E; Song JZ; Qu W; Nair SS; Locke WJ; Stone A; Armstong NJ; Robinson MD; Dobrovic A; Avery-Kiejda KA; Peters KM; French JD; Stein S; Korbie DJ; Trau M; Forbes JF; Scott RJ; Brown MA; Francis GD; Clark SJ, 2015, 'Methylome sequencing in triple-negative breast cancer reveals distinct methylation clusters with prognostic value', Nature Communications, vol. 6, pp. 5899 - 5899, http://dx.doi.org/10.1038/ncomms6899

Stone A; Zotenko E; Locke WJ; Korbie D; Millar EKA; Pidsley R; Stirzaker C; Graham P; Trau M; Musgrove EA; Nicholson RI; Gee JMW; Clark SJ, 2015, 'DNA methylation of oestrogen-regulated enhancers defines endocrine sensitivity in breast cancer', Nature Communications, vol. 6, http://dx.doi.org/10.1038/ncomms8758

Riebler A; Menigatti M; Song JZ; Statham AL; Stirzaker C; Mahmud N; Mein CA; Clark SJ; Robinson MD, 2014, 'BayMeth:Improved DNA methylation quantification for affinity capture sequencing data using a flexible Bayesian approach', Genome Biology, vol. 15, http://dx.doi.org/10.1186/gb-2014-15-2-r35

Stirzaker C; Taberlay PC; Statham AL; Clark SJ, 2014, 'Mining cancer methylomes: Prospects and challenges', Trends in Genetics, vol. 30, pp. 75 - 84, http://dx.doi.org/10.1016/j.tig.2013.11.004

Bert SA; Robinson MD; Strbenac D; Statham AL; Song JZ; Hulf T; Sutherland RL; Coolen MW; Stirzaker C; Clark SJ, 2013, 'Regional Activation of the Cancer Genome by Long-Range Epigenetic Remodeling', Cancer Cell, vol. 23, pp. 9 - 22, http://dx.doi.org/10.1016/j.ccr.2012.11.006

Clark AK; Taubenberger AV; Taylor RA; Niranjan B; Chea ZY; Zotenko E; Sieh S; Pedersen JS; Norden S; Frydenberg M; Grummet JP; Pook DW; Stirzaker C; Clark SJ; Lawrence MG; Ellem SJ; Hutmacher DW; Risbridger GP, 2013, 'A bioengineered microenvironment to quantitatively measure the tumorigenic properties of cancer-associated fibroblasts in human prostate cancer', Biomaterials, vol. 34, pp. 4777 - 4785, http://dx.doi.org/10.1016/j.biomaterials.2013.03.005

Hulf T; Sibbritt T; Wiklund ED; Patterson K; Song JZ; Stirzaker C; Qu W; Nair S; Horvath LG; Armstrong NJ; Kench JG; Sutherland RL; Clark SJ, 2013, 'Epigenetic-induced repression of microRNA-205 is associated with MED1 activation and a poorer prognosis in localized prostate cancer', Oncogene, vol. 32, pp. 2891 - 2899, http://dx.doi.org/10.1038/onc.2012.300

Robinson MD; Strbenac D; Stirzaker C; Statham A; Song JZ; Speed TP; Clark SJ, 2012, 'Copy-number-aware differential analysis of quantitative DNA sequencing data', Genome Research, vol. 22, pp. 2490 - 2496, http://dx.doi.org/10.1101/gr.139055.112

Statham AL; Robinson MD; Song JZ; Coolen MW; Stirzaker C; Clark SJ, 2012, 'Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA', Genome Research, vol. 22, pp. 1120 - 1127, http://dx.doi.org/10.1101/gr.132076.111

Valdes-Mora F; Song JZ; Statham AL; Strbenac D; Robinson MD; Nair SS; Patterson K; Tremethick DJ; Stirzaker C; Clark SJ, 2012, 'Acetylation of H2A.Z is a key epigenetic modification associated with gene deregulation and epigenetic remodeling in cancer', Genome Research, vol. 22, pp. 307 - 321, http://dx.doi.org/10.1101/gr.118919.110

Devaney J; Stirzaker C; Qu W; Song JZ; Statham AL; Patterson K; Horvath LG; Tabor B; Coolen MW; Hulf T; Kench JG; Henshall SM; Pe benito R; Haynes AM; Mayor R; Peinado M; Sutherland RL; Clark SJ, 2011, 'Epigenetic deregulation across chromosome 2q14.2 differentiates normal from prostate cancer and provides a regional panel of novel DNA methylation cancer biomarkers', Cancer Epidemiology Biomarkers and Prevention, vol. 20, pp. 148 - 159, http://dx.doi.org/10.1158/1055-9965.EPI-10-0719

Kohonen-Corish MRJ; Selinger CI; Cooper WA; Al-Sohaily S; Mladenova DN; Pangon L; Kennedy CW; McCaughan BC; Stirzaker C, 2011, 'LOSS OF SATB 1 EXPRESSION IS A MARKER OF POOR SURVIVAL IN LUNG CANCER', JOURNAL OF THORACIC ONCOLOGY, vol. 6, pp. S4 - S4, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000287990600013&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Nair SS; Coolen MW; Stirzaker C; Song J; Statham AL; Strbenac D; Robinson MR; Clark SJ, 2011, 'Comparison of methyl-DNA immunoprecipitation (MeDIP) and methyl-CpG binding domain (MBD) protein capture for genome-wide DNA methylation analysis reveal CpG sequence coverage bias', Epigenetics, vol. 6, pp. 34 - 44, http://dx.doi.org/10.4161/epi.6.1.13313

Patterson K; Molloy L; Qu W; Clark SJ, 2011, 'DNA methylation: Bisulphite modification and analysis', Journal of Visualized Experiments, pp. e3170, http://dx.doi.org/10.3791/3170

Robinson MD; Stirzaker C; Statham AL; Coolen MW; Song JZ; Nair SS; Strbenac D; Speed TP; Clark SJ, 2011, 'Evaluation of affinity-based genome-wide DNA methylation data: Effects of CpG density, amplification bias, and copy number variation (Genome Research (2010), 20 (1719-1729))', Genome Research, vol. 21, pp. 146

Selinger CI; Cooper WA; Al-Sohaily IA; Mladenova DN; Pangon L; Kennedy C; McCaughan B; Stirzaker C; Stirzaker C; Kohonen-Corish M, 2011, 'Loss of special at-rich binding protein 1 expression is a marker of poor survival in lung cancer', Journal of Thoracic Oncology, vol. 6, pp. 1179 - 1189, http://dx.doi.org/10.1097/JTO.0b013e31821b4ce0

Coolen M; Stirzaker C; Song JZ; Statham AL; Kassir Z; Moreno CS; Young AM; Varma V; Speed TP; Cowley MJ; Lacaze P; Kaplan W; Robinson M; Clark SJ, 2010, 'Consolidation of the cancer genome into domains of repressive chromatin by long-range epigenetic silencing (LRES) reduces transcriptional plasticity', Nature Cell Biology, vol. 12, pp. 235 - 246, http://dx.doi.org/10.1038/ncb2023

Robinson M; Stirzaker C; Statham AL; Coolen M; Song J; Nair S; Strbenac D; Speed TP; Clark SJ, 2010, 'Evaluation of affinity-based genome-wide DNA methylation data: Effects of CpG density, amplification bias, and copy number variation', Genome Research, vol. 20, pp. 1719 - 1729, http://dx.doi.org/10.1101/gr.110601.110

Statham AL; Strbenac D; Coolen M; Stirzaker C; Robinson M; Clark SJ, 2010, 'Repitools: an R package for the analysis of enrichment-based epigenomic data', Bioinformatics, vol. 26, pp. 1662 - 1663, http://dx.doi.org/10.1093/bioinformatics/btq247

Hinshelwood R; Melki J; Huschtscha L; Paul C; Song JZ; Stirzaker C; Reddel RR; Clark SJ, 2009, 'Aberrant de novo methylation of the p16INK4A CpG island is initiated post gene silencing in association with chromatin remodelling and mimics nucleosome positioning', Human Molecular Genetics, vol. 18, pp. 3098 - 3109, http://dx.doi.org/10.1093/hmg/ddp251

Hinshelwood R; Huschtscha L; Melki J; Stirzaker C; Abdipranoto A; Vissel B; Ravasi T; Wells C; Hume DP; Reddel R; Clark SJ, 2007, 'Concordant epigenetic silencing of transforming growth factor-beta signaling pathway genes occurs early in breast carcinogenesis', Cancer research, vol. 67, pp. 11517 - 11527, http://dx.doi.org/10.1158/0008-5472.CAN-07-1284

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, vol. 67, pp. 9107 - 9116, http://dx.doi.org/10.1158/0008-5472.CAN-07-0869

Stirzaker C; Dia H, 2007, 'Evaluation of transportation infrastructure management strategies using microscopic traffic simulation', Journal of Infrastructure Systems, vol. 13, pp. 168 - 174, http://dx.doi.org/10.1061/(ASCE)1076-0342(2007)13:2(168)

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

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, vol. 38, pp. 540 - 549, http://dx.doi.org/10.1038/ng1781

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, vol. 64, pp. 3871 - 3877, http://dx.doi.org/10.1158/0008-5472.CAN-03-3690

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, vol. 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, vol. 27, pp. 101 - 107, http://dx.doi.org/10.1016/S1046-2023(02)00060-9

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, vol. 264, pp. 129 - 132, http://dx.doi.org/10.1006/abio.1998.2833

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, vol. 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, vol. 25, pp. 4422 - 4426, http://dx.doi.org/10.1093/nar/25.21.4422

Stirzaker SC; Poncet D; Both GW, 1990, 'Sequences in rotavirus glycoprotein VP7 that mediate delayed translocation and retention of the protein in the endoplasmic reticulum', Journal of Cell Biology, vol. 111, pp. 1343 - 1350, http://dx.doi.org/10.1083/jcb.111.4.1343

Stirzaker SC; Both GW, 1989, 'The signal peptide of the rotavirus glycoprotein VP7 is essential for its retention in the ER as an integral membrane protein', Cell, vol. 56, pp. 741 - 747, http://dx.doi.org/10.1016/0092-8674(89)90677-6

Stirzaker SC; Whitfield PL; Christie DL; Bellamy AR; Both GW, 1987, 'Processing of rotavirus glycoprotein VP7: Implications for the retention of the protein in the endoplasmic reticulum', Journal of Cell Biology, vol. 105, pp. 2897 - 2903, http://dx.doi.org/10.1083/jcb.105.6.2897

Whitfeld PL; Tyndall C; Stirzaker SC; Bellamy AR; Both GW, 1987, 'Location of sequences within rotavirus SA11 glycoprotein VP7 which direct it to the endoplasmic reticulum.', Molecular and cellular biology, vol. 7, pp. 2491 - 2497, http://dx.doi.org/10.1128/MCB.7.7.2491

Luu P-L; Ong P-T; Loc TTH; Lam D; Pidsley R; Stirzaker C; Clark SJ, 2020, MethPanel: a parallel pipeline and interactive analysis tool for multiplex bisulphite PCR sequencing to assess DNA methylation biomarker panels for disease detection, http://dx.doi.org/10.1101/2020.02.09.941013

Stirzaker C; Chia KM; Portman N; Milioli HH; Clifton S; Achinger-Kawecka J; Nair S; Lim E; Clark S, 2019, 'DNA demethylation agents as a therapeutic approach in endocrine-resistant breast cancer', in Oncolabs, presented at 7th PacRim Breast & Prostate Cancer Meeting, http://dx.doi.org/10.1530/oncolabs.1.P049

Blazevski A; Pidsley R; Qu W; Korbie D; Luu L; Chang J; Yuen B; Scheltema MJ; Masand N; Haynes A-M; Quoc N; Stirzaker C; Song J; Stricker P; Clark S, 2018, 'When Focal Therapy Fails for Localised Prostate Cancer - Can Epigenetics Predict Which Patients Fail and Improve Patient Selection?', in ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY, WILEY, Vol. 14, pp. 33 - 33, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000437670700023&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Cole AJ; Dickson K-A; Liddle C; Stirzaker C; Clifton-Bligh R; Marsh DJ, 2018, 'Abstract A06: Cisplatin-induced DNA damage modifies the chromatin landscape of histone H2B monoubiquitination in a p53-dependent manner', in Clinical Cancer Research, American Association for Cancer Research (AACR), pp. A06 - A06, presented at Abstracts: AACR Special Conference: Addressing Critical Questions in Ovarian Cancer Research and Treatment; October 1-4, 2017; Pittsburgh, PA, http://dx.doi.org/10.1158/1557-3265.ovca17-a06

Du Q; Bert SA; Armstrong NJ; Caldon CE; Song JZ; Nair SS; Gould CM; Luu PL; Khoury A; Qu W; Zotenko E; Stirzaker C; Clark SJ, 2018, Replication timing shapes the cancer epigenome and the nature of chromosomal rearrangements, http://dx.doi.org/10.1101/251280

Mathe A; Wong-Brown M; Morten BC; Braye SG; Locke WJ; Stirzaker C; Clark SJ; Scott R; Avery-Kiejda KA, 2018, 'Defining the Key Mediators of Breast Cancer Progression and Treatment Resistance in the triple Negative Subtype', in ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY, WILEY, Vol. 14, pp. 9 - 9, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000446654600003&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Cole AJ; Dickson K-A; Liddle C; Stirzaker C; Clifton-Bligh R; Marsh DJ, 2017, 'Cisplatin-induced DNA damage modifies the chromatin landscape of histone H2B monoubiquitination in a p53-dependent manner.', in CLINICAL CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, PA, Pittsburgh, Vol. 24, pp. 40 - 41, presented at AACR Special Conference on Addressing Critical Questions in Ovarian Cancer Research and Treatment, PA, Pittsburgh, 01 October 2017 - 04 October 2017, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000440823600042&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Lawrence MG; Pidsley R; Zotenko E; Niranjan B; Statham A; Song J; Armstrong N; Pedersen J; Frydenberg M; Taylor R; Stirzaker C; Risbridger G; Clark S, 2017, 'Abstract 1997: Charting the DNA methylation landscape of prostate cancer associated fibroblasts', in Cancer Research, American Association for Cancer Research (AACR), pp. 1997 - 1997, presented at Proceedings: AACR Annual Meeting 2017; April 1-5, 2017; Washington, DC, http://dx.doi.org/10.1158/1538-7445.am2017-1997

Mathe A; Wong-Brown M; Locke W; Stirzaker C; Braye S; Forbes J; Clark S; Avery-Kiejda K; Scott R, 2016, 'DNA METHYLATION PROFILE OF TRIPLE NEGATIVE BREAST CANCER-SPECIFIC GENES COMPARING LYMPH NODE POSITIVE PATIENTS TO LYMPH NODE NEGATIVE PATIENTS', in ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY, WILEY-BLACKWELL, Vol. 12, pp. 27 - 27, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000387772400056&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Riebler A; Menigatti M; Song JZ; Statham AL; Stirzaker C; Mahmud N; Mein CA; Clark SJ; Robinson MD, 2013, BayMeth: Improved DNA methylation quantification for affinity capture sequencing data using a flexible Bayesian approach, http://dx.doi.org/10.48550/arxiv.1312.3115

Stirzaker C; Song JZ; Statham AL; Robinson M; Lacaze P; Coolen M; Moreno CS; Warren K; Clark SJ, 2009, 'CONSOLIDATION OF THE CANCER EPIGENOME TO REGIONS OF UNIFORM CHROMATIN', in CELLULAR ONCOLOGY, IOS PRESS, SCOTLAND, Edinburgh, pp. 136 - 136, presented at 3rd Marie Curie-Genome Architecture in Relation to Disease Meeting (MC-GARD), SCOTLAND, Edinburgh, 01 April 2009 - 05 April 2009, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000265635300098&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Stirzaker C; Song JZ; Statham AL; Robinson M; Lacaze P; Coolen M; Moreno CS; Warren K; Clark SJ, 2009, 'CONSOLIDATION OF THE CANCER EPIGENOME TO REGIONS OF UNIFORM CHROMATIN', in CELLULAR ONCOLOGY, SPRINGER, SCOTLAND, Edinburgh, pp. 101 - 101, presented at 3rd Marie Curie-Genome Architecture in Relation to Disease Meeting (MC-GARD), SCOTLAND, Edinburgh, 01 April 2009 - 05 April 2009, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000265635300028&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Coolen M; Song J; Statham AL; Lacaze P; Moreno CS; Kaplan W; Stirzaker C; Clark SJ, 2008, 'Long range epigenetic silencing (LRES): A common phenomenon in prostate cancer', in CELLULAR ONCOLOGY, IOS PRESS, SPAIN, Madrid, pp. 225 - 225, presented at 2nd Marie Curie-Genome Architecture in Relation to Disease Meeting (MC-GARD), SPAIN, Madrid, 04 May 2008 - 07 May 2008, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000255341800005&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Frigola J; Song JZ; Stirzaker C; Peinado MA; Clark SJ, 2006, 'Epigenetic Silent Neighborhoods in Cancer Cells', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000454606204232&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1