Epigenetics Research Lab

Publications

Methyl-CpG-binding domain proteins: readers of the epigenome
Du, Q.
; Luu, P. L.
; Stirzaker, C.
; Clark, S. J.;
Epigenomics :1-23, 2015
Interplay between progesterone and prolactin in mammary development and implications for breast cancer.
Lee, H.J.; Ormandy, C.J.
MOLECULAR AND CELLULAR ENDOCRINOLOGY 357(1-2):101-107, 2012
Enduring epigenetic landmarks define the cancer microenvironment
Pidsley, R.; Lawrence, M. G.; Zotenko, E.; Niranjan, B.; Statham, A.; Song, J.; Chabanon, R. M.; Qu, W.; Wang, H.; Richards, M.; Nair, S. S.; Armstrong, N. J.; Nim, H. T.; Papargiris, M.; Balanathan, P.; French, H.; Peters, T.; Norden, S.; Ryan, A.; Pedersen, J.; Kench, J.; Daly, R. J.; Horvath, L. G.; Stricker, P.; Frydenberg, M.; Taylor, R. A.; Stirzaker, C.; Risbridger, G. P.; Clark, S. J.
GENOME RESEARCH 28(5):625-638, 2018
Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements
Peters, T. J.; French, H. J.; Bradford, S. T.; Pidsley, R.; Stirzaker, C.; Varinli, H.; Nair, S.; Qu, W.; Song, J.; Giles, K. A.; Statham, A. L.; Speirs, H.; Speed, T. P.; Clark, S. J.
Bioinformatics 35(4):560-570, 2019
Epigenome remodelling in breast cancer: insights from an early in vitro model of carcinogenesis
Locke, W. J.; Clark, S. J.;
BREAST CANCER RES 14(6):215, 2012
Multiple links between 5-methylcytosine content of mRNA and translation
Schumann, U.; Zhang, H. N.; Sibbritt, T.; Pan, A.; Horvath, A.; Gross, S.; Clark, S. J.; Yang, L.; Preiss, T.
BMC Biology 18(1):40, 2020
Methylomic profiling of human brain tissue supports a neurodevelopmental origin for schizophrenia
Pidsley, R.
; Viana, J.
; Hannon, E.
; Spiers, H. H.
; Troakes, C.
; Al-Saraj, S.
; Mechawar, N.
; Turecki, G.
; Schalkwyk, L. C.
; Bray, N. J.
; Mill, J.;
GENOME BIOL 15(10):483, 2014
Lineage specific methylation of the Elf5 promoter in mammary epithelial cells.
Lee, H.J.; Hinshelwood, R.A.; Bouras, T.; Gallego-Ortega, D.; Valdes-Mora, F.; Blazek, K.; Visvader, J.E.; Clark, S.J.; Ormandy, C.J.
STEM CELLS 29(10):1611-9, 2011
Machine learning annotation of human branchpoints
Signal, B.; Gloss, B. S.; Dinger, M. E.; Mercer, T. R.
Bioinformatics 34(6):920-927, 2018
MethPanel: a parallel pipeline and interactive analysis tool for multiplex bisulphite PCR sequencing to assess DNA methylation biomarker panels for disease detection
Luu, P. L.; Ong, P. T.; Loc, T. T. H.; Lam, D.; Pidsley, R.; Stirzaker, C.; Clark, S. J.
Bioinformatics :btaa1060., 2020
Copy-number-aware differential analysis of quantitative DNA sequencing data
Robinson, M. D.; Strbenac, D.; Stirzaker, C.; Statham, A. L.; Song, J. Z.; Speed, T. P.; Clark, S. J.;
GENOME RESEARCH 22(12):2489-96, 2012
MicroRNA-196a is regulated by ER and is a prognostic biomarker in ER+ breast cancer
Milevskiy, M. J. G.; Gujral, U.; Del Lama Marques, C.; Stone, A.; Northwood, K.; Burke, L. J.; Gee, J. M. W.; Nephew, K.; Clark, S.; Brown, M. A.
British Journal of Cancer 120(6):621-632, 2019
Widespread Aberrant Alternative Splicing despite Molecular Remission in Chronic Myeloid Leukaemia Patients
Schmitz, U.; Shah, J. S.; Dhungel, B. P.; Monteuuis, G.; Luu, P. L.; Petrova, V.; Metierre, C.; Nair, S. S.; Bailey, C. G.; Saunders, V. A.; Turhan, A. G.; White, D. L.; Branford, S.; Clark, S. J.; Hughes, T. P.; Wong, J. J.; Rasko, J. E. J.
Cancers 12(12):3738, 2020
Testing at scale during the COVID-19 pandemic
Mercer, T. R.; Salit, M.
NATURE REVIEWS GENETICS 22(7):415-426, 2021
Constitutively bound CTCF sites maintain 3D chromatin architecture and long-range epigenetically regulated domains
Khoury, A.; Achinger-Kawecka, J.; Bert, S. A.; Smith, G. C.; French, H. J.; Luu, P. L.; Peters, T. J.; Du, Q.; Parry, A. J.; Valdes-Mora, F.; Taberlay, P. C.; Stirzaker, C.; Statham, A. L.; Clark, S. J.
Nature Communications 11(1):54, 2020
Schizophrenia-associated methylomic variation: molecular signatures of disease and polygenic risk burden across multiple brain regions
Viana, J.; Hannon, E.; Dempster, E.; Pidsley, R.; Macdonald, R.; Knox, O.; Spiers, H.; Troakes, C.; Al-Saraj, S.; Turecki, G.; Schalkwyk, L. C.; Mill, J.
HUMAN MOLECULAR GENETICS 26(1):210-225, 2017
Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions
Gong, B.; Li, D.; Kusko, R.; Novoradovskaya, N.; Zhang, Y.; Wang, S.; Pabon-Pena, C.; Zhang, Z.; Lai, K.; Cai, W.; LoCoco, J. S.; Lader, E.; Richmond, T. A.; Mittal, V. K.; Liu, L. C.; Johann, D. J., Jr.; Willey, J. C.; Bushel, P. R.; Yu, Y.; Xu, C.; Chen, G.; Burgess, D.; Cawley, S.; Giorda, K.; Haseley, N.; Qiu, F.; Wilkins, K.; Arib, H.; Attwooll, C.; Babson, K.; Bao, L.; Bao, W.; Lucas, A. B.; Best, H.; Bhandari, A.; Bisgin, H.; Blackburn, J.; Blomquist, T. M.; Boardman, L.; Burgher, B.; Butler, D. J.; Chang, C. J.; Chaubey, A.; Chen, T.; Chierici, M.; Chin, C. R.; Close, D.; Conroy, J.; Coleman, J. C.; Craig, D. J.; Crawford, E.; Del Pozo, A.; Deveson, I. W.; Duncan, D.; Eterovic, A. K.; Fan, X.; Foox, J.; Furlanello, C.; Ghosal, A.; Glenn, S.; Guan, M.; Haag, C.; Hang, X.; Happe, S.; Hennigan, B.; Hipp, J.; Hong, H.; Horvath, K.; Hu, J.; Hung, L. Y.; Jarosz, M.; Kerkhof, J.; Kipp, B.; Kreil, D. P.; Labaj, P.; Lapunzina, P.; Li, P.; Li, Q. Z.; Li, W.; Li, Z.; Liang, Y.; Liu, S.; Liu, Z.; Ma, C.; Marella, N.; Martin-Arenas, R.; Megherbi, D. B.; Meng, Q.; Mieczkowski, P. A.; Morrison, T.; Muzny, D.; Ning, B.; Parsons, B. L.; Paweletz, C. P.; Pirooznia, M.; Qu, W.; Raymond, A.; Rindler, P.; Ringler, R.; Sadikovic, B.; Scherer, A.; Schulze, E.; Sebra, R.; Shaknovich, R.; Shi, Q.; Shi, T.; Silla-Castro, J. C.; Smith, M.; Lopez, M. S.; Song, P.; Stetson, D.; Strahl, M.; Stuart, A.; Supplee, J.; Szankasi, P.; Tan, H.; Tang, L. Y.; Tao, Y.; Thakkar, S.; Thierry-Mieg, D.; Thierry-Mieg, J.; Thodima, V. J.; Thomas, D.; Tichy, B.; Tom, N.; Garcia, E. V.; Verma, S.; Walker, K.; Wang, C.; Wang, J.; Wang, Y.; Wen, Z.; Wirta, V.; Wu, L.; Xiao, C.; Xiao, W.; Xu, S.; Yang, M.; Ying, J.; Yip, S. H.; Zhang, G.; Zhang, S.; Zhao, M.; Zheng, Y.; Zhou, X.; Mason, C. E.; Mercer, T.; Tong, W.; Shi, L.; Jones, W.; Xu, J.
GENOME BIOLOGY 22(1):109, 2021
Alterations in the methylome of the stromal tumour microenvironment signal the presence and severity of prostate cancer
Lawrence, M. G.; Pidsley, R.; Niranjan, B.; Papargiris, M.; Pereira, B. A.; Richards, M.; Teng, L.; Norden, S.; Ryan, A.; Frydenberg, M.; Stirzaker, C.; Taylor, R. A.; Risbridger, G. P.; Clark, S. J.
Clinical Epigenetics 12(1):48, 2020
Integrated epigenomic analysis stratifies chromatin remodellers into distinct functional groups
Giles, K. A.; Gould, C. M.; Du, Q.; Skvortsova, K.; Song, J. Z.; Maddugoda, M. P.; Achinger-Kawecka, J.; Stirzaker, C.; Clark, S. J.; Taberlay, P. C.
Epigenetics & Chromatin 12(1):12, 2019
Action at a distance: epigenetic silencing of large chromosomal regions in carcinogenesis
Clark, S. J. :
HUMAN MOLECULAR GENETICS 16 Spec No 1:R88-95, 2007
The Assessment of Clinical Usage and Prognostic Value of YKL-40 Serum Levels in Patients With Rectal Cancer Without Distant Metastasis
Fuksiewicz, M.; Kotowicz, B.; Rutkowski, A.; Achinger-Kawecka, J.; Wagrodzki, M.; Kowalska, M. M.
TECHNOLOGY IN CANCER RESEARCH & TREATMENT 17:1533033818765209, 2018
A Read/Write Mechanism Connects p300 Bromodomain Function to H2A.Z Acetylation
Colino-Sanguino, Y.; Cornett, E. M.; Moulder, D.; Smith, G. C.; Hrit, J.; Cordeiro-Spinetti, E.; Vaughan, R. M.; Krajewski, K.; Rothbart, S. B.; Clark, S. J.; Valdes-Mora, F.
iScience 21:773-788, 2019
What's wrong with the Nobel Prize?
Lee, H.
Australian Medical Student Journal (AMSJ) 1(1):65-67, 2010
Methylome and transcriptome maps of human visceral and subcutaneous adipocytes reveal key epigenetic differences at developmental genes
Bradford, S. T.; Nair, S. S.; Statham, A. L.; van Dijk, S. J.; Peters, T. J.; Anwar, F.; French, H. J.; von Martels, J. Z. H.; Sutcliffe, B.; Maddugoda, M. P.; Peranec, M.; Varinli, H.; Arnoldy, R.; Buckley, M.; Ross, J. P.; Zotenko, E.; Song, J. Z.; Stirzaker, C.; Bauer, D. C.; Qu, W.; Swarbrick, M. M.; Lutgers, H. L.; Lord, R. V.; Samaras, K.; Molloy, P. L.; Clark, S. J.
Scientific Reports 9(1):9511, 2019
Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling
Pidsley, R.
; Zotenko, E.
; Peters, T. J.
; Lawrence, M. G.
; Risbridger, G. P.
; Molloy, P.
; Van Djik, S.
; Muhlhausler, B.
; Stirzaker, C.
; Clark, S. J.;
GENOME BIOL 17(1):208, 2016
Monozygotic twins and triplets discordant for amyotrophic lateral sclerosis display differential methylation and gene expression
Tarr, I. S.; McCann, E. P.; Benyamin, B.; Peters, T. J.; Twine, N. A.; Zhang, K. Y.; Zhao, Q.; Zhang, Z. H.; Rowe, D. B.; Nicholson, G. A.; Bauer, D.; Clark, S. J.; Blair, I. P.; Williams, K. L.
Scientific Reports 9(1):8254, 2019
Guidelines for whole genome bisulphite sequencing of intact and FFPET DNA on the Illumina HiSeq X Ten
Nair, S. S.; Luu, P. L.; Qu, W.; Maddugoda, M.; Huschtscha, L.; Reddel, R.; Chenevix-Trench, G.; Toso, M.; Kench, J. G.; Horvath, L. G.; Hayes, V. M.; Stricker, P. D.; Hughes, T. P.; White, D. L.; Rasko, J. E. J.; Wong, J. J.; Clark, S. J.
Epigenetics & Chromatin 11(1):24, 2018
Elf5, hormones and cell fate.
Lee, H.J.; Ormandy, C.J.
TRENDS IN ENDOCRINOLOGY AND METABOLISM 23(6):292-298, 2012
Genome-wide discovery of human splicing branchpoints
Mercer, T. R.
; Clark, M. B.
; Andersen, S. B.
; Brunck, M. E.
; Haerty, W.
; Crawford, J.
; Taft, R. J.
; Nielsen, L. K.
; Dinger, M. E.
; Mattick, J. S.;
GENOME RESEARCH 25(2):290-303, 2015
Diagnosis of fusion genes using targeted RNA sequencing
Heyer, E. E.; Deveson, I. W.; Wooi, D.; Selinger, C. I.; Lyons, R. J.; Hayes, V. M.; O'Toole, S. A.; Ballinger, M. L.; Gill, D.; Thomas, D. M.; Mercer, T. R.; Blackburn, J.
Nature Communications 10(1):1388, 2019
Representing genetic variation with synthetic DNA standards
Deveson, I. W.
; Chen, W. Y.
; Wong, T.
; Hardwick, S. A.
; Andersen, S. B.
; Nielsen, L. K.
; Mattick, J. S.
; Mercer, T. R.;
NATURE METHODS 13(9):784-91, 2016
Androgen receptor expression predicts breast cancer survival: the role of genetic and epigenetic events.
Peters, K.M.; Edwards, S.L.; Nair, S.S.; French, J.D.; Bailey, P.J.; Salkield, K.; Stein, S.; Wagner, S.; Francis, G.D.; Clark, S.J.; Brown, M.A.;
BMC Cancer 12:132, 2012
Bisulphite Sequencing of Chromatin Immunoprecipitated DNA (BisChIP-seq)
Stirzaker, C.; Song, J. Z.; Statham, A. L.; Clark, S. J.
Methods in Molecular Biology 1708:285-302, 2018
Advances in Prognostic Methylation Biomarkers for Prostate Cancer
Lam, D.; Clark, S.; Stirzaker, C.; Pidsley, R.
Cancers 12(10):2993, 2020
A universal and independent synthetic DNA ladder for the quantitative measurement of genomic features
Reis, Andre L. M.; Deveson, Ira W.; Wong, Ted; Madala, Bindu Swapna; Barker, Chris; Blackburn, James; Marcellin, Esteban; Mercer, Tim R.
Nature Communications 11(1):3609, 2020
Targeted sequencing for gene discovery and quantification using RNA CaptureSeq
Mercer, T. R.
; Clark, M. B.
; Crawford, J.
; Brunck, M. E.
; Gerhardt, D. J.
; Taft, R. J.
; Nielsen, L. K.
; Dinger, M. E.
; Mattick, J. S.;
Nature Protocols 9(5):989-1009, 2014
DNA Hypermethylation Encroachment at CpG Island Borders in Cancer Is Predisposed by H3K4 Monomethylation Patterns
Skvortsova, K.; Masle-Farquhar, E.; Luu, P. L.; Song, J. Z.; Qu, W.; Zotenko, E.; Gould, C. M.; Du, Q.; Peters, T. J.; Colino-Sanguino, Y.; Pidsley, R.; Nair, S. S.; Khoury, A.; Smith, G. C.; Miosge, L. A.; Reed, J. H.; Kench, J. G.; Rubin, M. A.; Horvath, L.; Bogdanovic, O.; Lim, S. M.; Polo, J. M.; Goodnow, C. C.; Stirzaker, C.; Clark, S. J.
CANCER CELL 35(2):297-314 e8, 2019
Intergenic disease-associated regions are abundant in novel transcripts
Bartonicek, N.; Clark, M. B.; Quek, X. C.; Torpy, J. R.; Pritchard, A. L.; Maag, J. L. V.; Gloss, B. S.; Crawford, J.; Taft, R. J.; Hayward, N. K.; Montgomery, G. W.; Mattick, J. S.; Mercer, T. R.; Dinger, M. E.
GENOME BIOLOGY 18(1):241, 2017
Comprehensive evaluation of targeted multiplex bisulphite PCR sequencing for validation of DNA methylation biomarker panels
Lam, D.; Luu, P. L.; Song, J. Z.; Qu, W.; Risbridger, G. P.; Lawrence, M. G.; Lu, J.; Trau, M.; Korbie, D.; Clark, S. J.; Pidsley, R.; Stirzaker, C.
Clinical Epigenetics 12(1):90, 2020
Epigenetic reprogramming at estrogen-receptor binding sites alters 3D chromatin landscape in endocrine-resistant breast cancer
Achinger-Kawecka, J.; Valdes-Mora, F.; Luu, P. L.; Giles, K. A.; Caldon, C. E.; Qu, W.; Nair, S.; Soto, S.; Locke, W. J.; Yeo-Teh, N. S.; Gould, C. M.; Du, Q.; Smith, G. C.; Ramos, I. R.; Fernandez, K. F.; Hoon, D. S.; Gee, J. M. W.; Stirzaker, C.; Clark, S. J.
Nature Communications 11(1):320, 2020
ANAQUIN: a software toolkit for the analysis of spike-in controls for next generation sequencing
Wong, T.; Deveson, I. W.; Hardwick, S. A.; Mercer, T. R.
Bioinformatics 33(11):1723-1724, 2017
Alterations in Three-Dimensional Organization of the Cancer Genome and Epigenome
Achinger-Kawecka, J.; Taberlay, P. C.; Clark, S. J.
Cold Spring Harb Symp Quant Biol 81:41-51, 2017
Chiral DNA sequences as commutable controls for clinical genomics
Deveson, Ira W.; Madala, Bindu Swapna; Blackburn, James; Barker, Chris; Wong, Ted; Barton, Kirston M.; Smith, Martin A.; Watkins, D. Neil; Mercer, Tim R.
Nature Communications 10(1):1342, 2019
Smoke-Induced Changes to the Epigenome Provide Fertile Ground for Oncogenic Mutation
Clark, S. J.; Molloy, P. L.
CANCER CELL 32(3):278-280, 2017
Synthetic microbe communities provide internal reference standards for metagenome sequencing and analysis
Hardwick, S. A.; Chen, W. Y.; Wong, T.; Kanakamedala, B. S.; Deveson, I. W.; Ongley, S. E.; Santini, N. S.; Marcellin, E.; Smith, M. A.; Nielsen, L. K.; Lovelock, C. E.; Neilan, B. A.; Mercer, T. R.
Nature Communications 9(1):3096, 2018
Long range epigenetic silencing in 2q14.2 affects most human colorectal cancers and may have application as a non-invasive biomarker of disease
Mayor, R.; Casadome, L.; Azuara, D.; Moreno, V.; Clark, S.J.; Capella, G.; Peinado, M.A.
British Journal of Cancer 100(10):1534-1539, 2009
Macrophage development and activation involve coordinated intron retention in key inflammatory regulators
Green, I. D.; Pinello, N.; Song, R.; Lee, Q.; Halstead, J. M.; Kwok, C. T.; Wong, A. C. H.; Nair, S. S.; Clark, S. J.; Roediger, B.; Schmitz, U.; Larance, M.; Hayashi, R.; Rasko, J. E. J.; Wong, J. J.
NUCLEIC ACIDS RESEARCH 48(12):6513-6529, 2020
A novel signature predicts recurrence risk and therapeutic response in breast cancer patients
Tran, Q. H.; Than, V. T.; Luu, P. L.; Clarke, D.; Lam, H. N.; Nguyen, T. T.; Nguyen, D. T.; Duy, P. Q.; Phung, D.; Nguyen, M. N.
INTERNATIONAL JOURNAL OF CANCER 148(11):2848-2856, 2021
Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer
Du, Q.; Bert, S. A.; Armstrong, N. J.; Caldon, C. E.; Song, J. Z.; Nair, S. S.; Gould, C. M.; Luu, P. L.; Peters, T.; Khoury, A.; Qu, W.; Zotenko, E.; Stirzaker, C.; Clark, S. J.
Nature Communications 10(1):416, 2019
Crizotinib and Surgery for Long-Term Disease Control in Children and Adolescents With ALK-Positive Inflammatory Myofibroblastic Tumors
Trahair T, Gifford AJ, Fordham A, Mayoh C, Fadia M, Lukeis R, Wood AC, Santosh V, Walker RD, Blackburn J, Heyer EE, Mercer TR, Barbaric D, Marshall GM, MacKenzie KL.
JCO Precision Oncology 2019
Mother-child transmission of epigenetic information by tunable polymorphic imprinting
Carpenter, B. L.; Zhou, W.; Madaj, Z.; DeWitt, A. K.; Ross, J. P.; Gronbaek, K.; Liang, G.; Clark, S. J.; Molloy, P. L.; Jones, P. A.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA :1-8, 2018
Comprehensive evaluation of genome-wide 5-hydroxymethylcytosine profiling approaches in human DNA
Skvortsova, K.; Zotenko, E.; Luu, P. L.; Gould, C. M.; Nair, S. S.; Clark, S. J.; Stirzaker, C.
Epigenetics & Chromatin 10:16, 2017
Disruption of the 3D cancer genome blueprint
Achinger-Kawecka, J.; Clark, S. J.
Epigenomics 9(1):47-55, 2017
DNA methylation: bisulphite modification and analysis.
Clark, S. J.;Statham, A.;Stirzaker, C.;Molloy, P. L.;Frommer, M. :
Nature Protocols 1(5):2353-2364, 2007
Serum Free Methylated Glutathione S-transferase 1 DNA Levels, Survival, and Response to Docetaxel in Metastatic, Castration-resistant Prostate Cancer: Post Hoc Analyses of Data from a Phase 3 Trial
Mahon, K. L.; Qu, W.; Lin, H. M.; Spielman, C.; Cain, D.; Jacobs, C.; Stockler, M. R.; Higano, C. S.; de Bono, J. S.; Chi, K. N.; Clark, S. J.; Horvath, L. G.
EUROPEAN UROLOGY 76(3):306-312, 2019
Differential methylation pattern of xenobiotic metabolizing genes and susceptibility to Balkan endemic nephropathy, in a cohort of Romanian patients
Ivan, A.; Lam, D.; Cristea, M. I.; Telea, A.; Gruia, A. T.; Oprean, C.; Margineanu, F.; Bojin, F. M.; Saffery, R.; Paunescu, V.; Tatu, C. A.
JOURNAL OF NEPHROLOGY 33(1):91-100, 2020
Transient exposure to miR-203 enhances the differentiation capacity of established pluripotent stem cells
Salazar-Roa, M.; Trakala, M.; Alvarez-Fernandez, M.; Valdes-Mora, F.; Zhong, C.; Munoz, J.; Yu, Y.; Peters, T. J.; Grana-Castro, O.; Serrano, R.; Zapatero-Solana, E.; Abad, M.; Bueno, M. J.; Gomez de Cedron, M.; Fernandez-Piqueras, J.; Serrano, M.; Blasco, M. A.; Wang, D. Z.; Clark, S. J.; Izpisua-Belmonte, J. C.; Ortega, S.; Malumbres, M.
EMBO JOURNAL 39(16):e104324, 2020
Methyl-CpG-binding protein MBD2 plays a key role in maintenance and spread of DNA methylation at CpG islands and shores in cancer
Stirzaker, C.; Song, J. Z.; Ng, W.; Du, Q.; Armstrong, N. J.; Locke, W. J.; Statham, A. L.; French, H.; Pidsley, R.; Valdes-Mora, F.; Zotenko, E.; Clark, S. J.
ONCOGENE 36(10):1328-1338, 2017
Cancer Methylation Biomarkers in circulating cell-free DNA.
Pidsley R, Stirzaker C
Clinical Epigenetics :217-245, 2019
Mining cancer methylomes: prospects and challenges
Stirzaker, C.
; Taberlay, P. C.
; Statham, A. L.
; Clark, S. J.;
TRENDS IN GENETICS 30(2):75-84, 2014
DNA methylation: bisulphite modification and analysis
Clark, S. J.;Statham, A.;Stirzaker, C.;Molloy, P. L.;Frommer, M. :
Nature Protocols 1(5):2353-64, 2006
Universal Alternative Splicing of Noncoding Exons
Deveson, I. W.; Brunck, M. E.; Blackburn, J.; Tseng, E.; Hon, T.; Clark, T. A.; Clark, M. B.; Crawford, J.; Dinger, M. E.; Nielsen, L. K.; Mattick, J. S.; Mercer, T. R.
Cell Systems 6(2):p245-255, 2018
Ubiquitin chromatin remodelling after DNA damage is associated with the expression of key cancer genes and pathways
Cole, A. J.; Dickson, K. A.; Liddle, C.; Stirzaker, C.; Shah, J. S.; Clifton-Bligh, R.; Marsh, D. J.
CELLULAR AND MOLECULAR LIFE SCIENCES 78(3):1011-1027, 2021
Transient and Permanent Reconfiguration of Chromatin and Transcription Factor Occupancy Drive Reprogramming
Knaupp, A. S.; Buckberry, S.; Pflueger, J.; Lim, S. M.; Ford, E.; Larcombe, M. R.; Rossello, F. J.; de Mendoza, A.; Alaei, S.; Firas, J.; Holmes, M. L.; Nair, S. S.; Clark, S. J.; Nefzger, C. M.; Lister, R.; Polo, J. M.
Cell Stem Cell 21(6):834-845 e6, 2017
BRG1 knockdown inhibits proliferation through multiple cellular pathways in prostate cancer
Giles, K. A.; Gould, C. M.; Achinger-Kawecka, J.; Page, S. G.; Kafer, G. R.; Rogers, S.; Luu, P. L.; Cesare, A. J.; Clark, S. J.; Taberlay, P. C.
Clinical Epigenetics 13(1):37, 2021
Reference standards for next-generation sequencing
Hardwick, S. A.; Deveson, I. W.; Mercer, T. R.
NATURE REVIEWS GENETICS 18(8):473-484, 2017
Chiral DNA sequences as commutable controls for clinical genomics
Deveson, I. W.; Madala, B. S.; Blackburn, J.; Barker, C.; Wong, T.; Barton, K. M.; Smith, M. A.; Watkins, D. N.; Mercer, T. R.
Nature Communications 10(1):1342, 2019