Publications

50 items matching your search terms.

Identification of DNA methylation biomarkers with potential to predict response to neoadjuvant chemotherapy in triple-negative breast cancer

Meyer, B.; Clifton, S.; Locke, W.; Luu, P. L.; Du, Q.; Lam, D.; Armstrong, N. J.; Kumar, B.; Deng, N.; Harvey, K.; Swarbrick, A.; Ganju, V.; Clark, S. J.; Pidsley, R.; Stirzaker, C.

Clinical Epigenetics 13 (1) :226, 2021 10.1186/s13148-021-01210-6

DNA methylation is required to maintain both DNA replication timing precision and 3D genome organization integrity

Du, Q.; Smith, G. C.; Luu, P. L.; Ferguson, J. M.; Armstrong, N. J.; Caldon, C. E.; Campbell, E. M.; Nair, S. S.; Zotenko, E.; Gould, C. M.; Buckley, M.; Chia, K. M.; Portman, N.; Lim, E.; Kaczorowski, D.; Chan, C. L.; Barton, K.; Deveson, I. W.; Smith, M. A.; Powell, J. E.; Skvortsova, K.; Stirzaker, C.; Achinger-Kawecka, J.; Clark, S. J.

Cell Reports 36 (12) :109722, 2021 10.1016/j.celrep.2021.109722

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 10.1007/s00018-020-03552-5

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 10.1093/bioinformatics/btaa1060

Advances in Prognostic Methylation Biomarkers for Prostate Cancer

Lam, D.; Clark, S.; Stirzaker, C.; Pidsley, R.

Cancers 12 (10) :2993, 2020 10.3390/cancers12102993

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 10.1186/s13148-020-00880-y

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 10.1186/s13148-020-00836-2

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 10.1038/s41467-019-14098-x

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 10.1038/s41467-019-13753-7

The DNA methylation landscape in cancer

Skvortsova, K.; Stirzaker, C.; Taberlay, P.

Essays in Biochemistry 63 (6) :797-811, 2019 10.1042/EBC20190037

Cancer Methylation Biomarkers in circulating cell-free DNA.

Pidsley R, Stirzaker C

Clinical Epigenetics :217-245, 2019 10.1007/978-981-13-8958-0_10

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 10.1038/s41598-019-45777-w

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 10.1093/bioinformatics/bty675

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 10.1186/s13072-019-0258-9

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 10.1016/j.ccell.2019.01.004

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 10.1038/s41467-019-08302-1