Susan J Clark

ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 27

Top Venues

The Journal of pathology

Nature structural & molecular biology

Nucleic acids research

Nature communications

University of Adelaide Faculty of Sciences (PHD)

This page only lists publications with an associated author ORCID identifier.

Education History

University of Adelaide Faculty of Sciences

Australia

PHD :: Biochemistry

Australian National University

Australia

BSC :: Biochemistry

Publications

Braydon Meyer, Clare Stirzaker, Sonny Ramkomuth, Kate Harvey, Belinda Chan, Cheok Soon Lee, Rooshdiya Karim, Niantao Deng, Kelly A Avery-Kiejda, Rodney J Scott, Sunil Lakhani, Stephen Fox, Elizabeth Robbins, Joo-Shik Shin, Jane Beith, Anthony Gill, Loretta Sioson, Charles Chan, Mrudula Krishnaswamy, Caroline Cooper, Sanjay Warrier, Cindy Mak, John Ej Rasko, Charles G Bailey, Alexander Swarbrick, Susan J Clark, Sandra O'Toole, Ruth Pidsley
Detailed DNA methylation characterisation of phyllodes tumours identifies a signature of malignancy and distinguishes phyllodes from metaplastic breast carcinoma. The Journal of pathology (2024)
Joanna Achinger-Kawecka, Clare Stirzaker, Neil Portman, Elyssa Campbell, Kee-Ming Chia, Qian Du, Geraldine Laven-Law, Shalima S Nair, Aliza Yong, Ashleigh Wilkinson, Samuel Clifton, Heloisa H Milioli, Sarah Alexandrou, C Elizabeth Caldon, Jenny Song, Amanda Khoury, Braydon Meyer, Wenhan Chen, Ruth Pidsley, Wenjia Qu, Julia M W Gee, Anthony Schmitt, Emily S Wong, Theresa E Hickey, Elgene Lim, Susan J Clark
The potential of epigenetic therapy to target the 3D epigenome in endocrine-resistant breast cancer. Nature structural & molecular biology (2024)
Joanna Achinger-Kawecka, Clare Stirzaker, Neil Portman, Elyssa Campbell, Kee-Ming Chia, Qian Du, Geraldine Laven-Law, Shalima S Nair, Aliza Yong, Ashleigh Wilkinson, Samuel Clifton, Heloisa H Milioli, Sarah Alexandrou, C Elizabeth Caldon, Jenny Song, Amanda Khoury, Braydon Meyer, Wenhan Chen, Ruth Pidsley, Wenjia Qu, Julia M W Gee, Anthony Schmitt, Emily S Wong, Theresa E Hickey, Elgene Lim, Susan J Clark
The potential of epigenetic therapy to target the 3D epigenome in endocrine-resistant breast cancer. Nature structural & molecular biology 31 (3) (2024)
Wenhan Chen, Yi Cheng Zeng, Joanna Achinger-Kawecka, Elyssa Campbell, Alicia K Jones, Alastair G Stewart, Amanda Khoury, Susan J Clark
Machine learning enables pan-cancer identification of mutational hotspots at persistent CTCF binding sites. Nucleic acids research (2024)
Braydon Meyer, Clare Stirzaker, Sonny Ramkomuth, Kate Harvey, Belinda Chan, Cheok Soon Lee, Rooshdiya Karim, Niantao Deng, Kelly A Avery-Kiejda, Rodney J Scott, Sunil Lakhani, Stephen Fox, Elizabeth Robbins, Joo-Shik Shin, Jane Beith, Anthony Gill, Loretta Sioson, Charles Chan, Mrudula Krishnaswamy, Caroline Cooper, Sanjay Warrier, Cindy Mak, John Ej Rasko, Charles G Bailey, Alexander Swarbrick, Susan J Clark, Sandra O'Toole, Ruth Pidsley
Detailed DNA methylation characterisation of phyllodes tumours identifies a signature of malignancy and distinguishes phyllodes from metaplastic breast carcinoma. The Journal of pathology (2024)
Wenhan Chen, Yi Cheng Zeng, Joanna Achinger-Kawecka, Elyssa Campbell, Alicia K Jones, Alastair G Stewart, Amanda Khoury, Susan J Clark
Machine learning enables pan-cancer identification of mutational hotspots at persistent CTCF binding sites. Nucleic acids research 52 (14) (2024)
Braydon Meyer, Clare Stirzaker, Sonny Ramkomuth, Kate Harvey, Belinda Chan, Cheok Soon Lee, Rooshdiya Karim, Niantao Deng, Kelly A Avery-Kiejda, Rodney J Scott, Sunil Lakhani, Stephen Fox, Elizabeth Robbins, Joo-Shik Shin, Jane Beith, Anthony Gill, Loretta Sioson, Charles Chan, Mrudula Krishnaswamy, Caroline Cooper, Sanjay Warrier, Cindy Mak, John Ej Rasko, Charles G Bailey, Alexander Swarbrick, Susan J Clark, Sandra O'Toole, Ruth Pidsley
Detailed DNA methylation characterisation of phyllodes tumours identifies a signature of malignancy and distinguishes phyllodes from metaplastic breast carcinoma. The Journal of pathology 262 (4) (2024)
Wenhan Chen, Yi Cheng Zeng, Joanna Achinger-Kawecka, Elyssa Campbell, Alicia K Jones, Alastair G Stewart, Amanda Khoury, Susan J Clark
Machine learning enables pan-cancer identification of mutational hotspots at persistent CTCF binding sites. Nucleic acids research 52 (14) (2024)
Braydon Meyer, Clare Stirzaker, Sonny Ramkomuth, Kate Harvey, Belinda Chan, Cheok Soon Lee, Rooshdiya Karim, Niantao Deng, Kelly A Avery-Kiejda, Rodney J Scott, Sunil Lakhani, Stephen Fox, Elizabeth Robbins, Joo-Shik Shin, Jane Beith, Anthony Gill, Loretta Sioson, Charles Chan, Mrudula Krishnaswamy, Caroline Cooper, Sanjay Warrier, Cindy Mak, John Ej Rasko, Charles G Bailey, Alexander Swarbrick, Susan J Clark, Sandra O'Toole, Ruth Pidsley
Detailed DNA methylation characterisation of phyllodes tumours identifies a signature of malignancy and distinguishes phyllodes from metaplastic breast carcinoma. The Journal of pathology 262 (4) (2024)
Joanna Achinger-Kawecka, Clare Stirzaker, Neil Portman, Elyssa Campbell, Kee-Ming Chia, Qian Du, Geraldine Laven-Law, Shalima S Nair, Aliza Yong, Ashleigh Wilkinson, Samuel Clifton, Heloisa H Milioli, Sarah Alexandrou, C Elizabeth Caldon, Jenny Song, Amanda Khoury, Braydon Meyer, Wenhan Chen, Ruth Pidsley, Wenjia Qu, Julia M W Gee, Anthony Schmitt, Emily S Wong, Theresa E Hickey, Elgene Lim, Susan J Clark
The potential of epigenetic therapy to target the 3D epigenome in endocrine-resistant breast cancer. Nature structural & molecular biology 31 (3) (2024)
Wenhan Chen, Yi Cheng Zeng, Joanna Achinger-Kawecka, Elyssa Campbell, Alicia K Jones, Alastair G Stewart, Amanda Khoury, Susan J Clark
Machine learning enables pan-cancer identification of mutational hotspots at persistent CTCF binding sites. Nucleic acids research 52 (14) (2024)
Braydon Meyer, Clare Stirzaker, Sonny Ramkomuth, Kate Harvey, Belinda Chan, Cheok Soon Lee, Rooshdiya Karim, Niantao Deng, Kelly A Avery-Kiejda, Rodney J Scott, Sunil Lakhani, Stephen Fox, Elizabeth Robbins, Joo-Shik Shin, Jane Beith, Anthony Gill, Loretta Sioson, Charles Chan, Mrudula Krishnaswamy, Caroline Cooper, Sanjay Warrier, Cindy Mak, John Ej Rasko, Charles G Bailey, Alexander Swarbrick, Susan J Clark, Sandra O'Toole, Ruth Pidsley
Detailed DNA methylation characterisation of phyllodes tumours identifies a signature of malignancy and distinguishes phyllodes from metaplastic breast carcinoma. The Journal of pathology 262 (4) (2024)
Joanna Achinger-Kawecka, Clare Stirzaker, Neil Portman, Elyssa Campbell, Kee-Ming Chia, Qian Du, Geraldine Laven-Law, Shalima S Nair, Aliza Yong, Ashleigh Wilkinson, Samuel Clifton, Heloisa H Milioli, Sarah Alexandrou, C Elizabeth Caldon, Jenny Song, Amanda Khoury, Braydon Meyer, Wenhan Chen, Ruth Pidsley, Wenjia Qu, Julia M W Gee, Anthony Schmitt, Emily S Wong, Theresa E Hickey, Elgene Lim, Susan J Clark
The potential of epigenetic therapy to target the 3D epigenome in endocrine-resistant breast cancer. Nature structural & molecular biology 31 (3) (2024)
Joanna Achinger-Kawecka, Clare Stirzaker, Neil Portman, Elyssa Campbell, Kee-Ming Chia, Qian Du, Geraldine Laven-Law, Shalima S Nair, Aliza Yong, Ashleigh Wilkinson, Samuel Clifton, Heloisa H Milioli, Sarah Alexandrou, C Elizabeth Caldon, Jenny Song, Amanda Khoury, Braydon Meyer, Wenhan Chen, Ruth Pidsley, Wenjia Qu, Julia M W Gee, Anthony Schmitt, Emily S Wong, Theresa E Hickey, Elgene Lim, Susan J Clark
The potential of epigenetic therapy to target the 3D epigenome in endocrine-resistant breast cancer. Nature structural & molecular biology 31 (3) (2024)
Ruth Pidsley, Dilys Lam, Wenjia Qu, Timothy J Peters, Phuc-Loi Luu, Darren Korbie, Clare Stirzaker, Roger J Daly, Phillip Stricker, James G Kench, Lisa G Horvath, Susan J Clark
Comprehensive methylome sequencing reveals prognostic epigenetic biomarkers for prostate cancer mortality. Clinical and translational medicine 12 (10) (2022)
Susan J Clark, Peter L Molloy
Early Insights into Cancer Epigenetics: Gene Promoter Hypermethylation Emerges as a Potential Biomarker for Cancer Detection. Cancer research 82 (8) (2022)
Toshikazu Ushijima, Susan J Clark, Patrick Boon-Ooi Tan
Mapping genomic and epigenomic evolution in cancer ecosystems. Science (New York, N.Y.) 373 (6562) (2021)
Timothy J Peters, Michael J Buckley, Yunshun Chen, Gordon K Smyth, Christopher C Goodnow, Susan J Clark
Calling differentially methylated regions from whole genome bisulphite sequencing with DMRcate. Nucleic acids research 49 (19) (2021)
Ulf Schmitz, Jaynish S Shah, Bijay P Dhungel, Geoffray Monteuuis, Phuc-Loi Luu, Veronika Petrova, Cynthia Metierre, Shalima S Nair, Charles G Bailey, Verity A Saunders, Ali G Turhan, Deborah L White, Susan Branford, Susan J Clark, Timothy P Hughes, Justin J-L Wong, John E J Rasko
Widespread Aberrant Alternative Splicing despite Molecular Remission in Chronic Myeloid Leukaemia Patients. Cancers 12 (12) (2020)
Joanna Achinger-Kawecka, Fatima Valdes Mora, Phuc-Loi Luu, Katherine A Giles, C Elizabeth Caldon, Wenjia Qu, Shalima Nair, Sebastian Soto, Warwick J Locke, Nicole S Yeo-Teh, Cathryn M Gould, Qian Du, Grady C Smith, Irene R Ramos, Kristine F Fernandez, Dave S B Hoon, Julia M W Gee, Clare Stirzaker, Susan J Clark
Epigenetic reprogramming at estrogen-receptor binding sites alters 3D chromatin landscape in endocrine-resistant breast cancer. Nature communications 11 (1) (2020)
Phuc-Loi Luu, Phuc-Thinh Ong, Thanh-Phuoc Dinh, Susan J Clark
Benchmark study comparing liftover tools for genome conversion of epigenome sequencing data. NAR genomics and bioinformatics 2 (3) (2020)
Amanda Khoury, Joanna Achinger-Kawecka, Saul A Bert, Grady C Smith, Hugh J French, Phuc-Loi Luu, Timothy J Peters, Qian Du, Aled J Parry, Fatima Valdes Mora, Phillippa C Taberlay, Clare Stirzaker, Aaron L Statham, Susan J Clark
Constitutively bound CTCF sites maintain 3D chromatin architecture and long-range epigenetically regulated domains. Nature communications 11 (1) (2020)
Stephen T Bradford, Shalima S Nair, Aaron L Statham, Susan J van Dijk, Timothy J Peters, Firoz Anwar, Hugh J French, Julius Z H von Martels, Brodie Sutcliffe, Madhavi P Maddugoda, Michelle Peranec, Hilal Varinli, Rosanna Arnoldy, Michael Buckley, Jason P Ross, Elena Zotenko, Jenny Z Song, Clare Stirzaker, Denis C Bauer, Wenjia Qu, Michael M Swarbrick, Helen L Lutgers, Reginald V Lord, Katherine Samaras, Peter L Molloy, Susan J Clark
Methylome and transcriptome maps of human visceral and subcutaneous adipocytes reveal key epigenetic differences at developmental genes. Scientific reports 9 (1) (2019)
Qian Du, Saul A Bert, Nicola J Armstrong, C Elizabeth Caldon, Jenny Z Song, Shalima S Nair, Cathryn M Gould, Phuc-Loi Luu, Timothy J Peters, Amanda Khoury, Wenjia Qu, Elena Zotenko, Clare Stirzaker, Susan J Clark
Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer. Nature communications 10 (1) (2019)
Ingrid S Tarr, Emily P McCann, Beben Benyamin, Timothy J Peters, Natalie A Twine, Katharine Y Zhang, Qiong-Yi Zhao, Zong-Hong Zhang, Dominic B Rowe, Garth A Nicholson, Denis Carolin Bauer, Susan J Clark, Ian P Blair, Kelly Louise Williams
Monozygotic twins and triplets discordant for amyotrophic lateral sclerosis display differential methylation and gene expression. Scientific reports 9 (1) (2019)
Shalima S Nair, Phuc-Loi Luu, Wenjia Qu, Madhavi Maddugoda, Lily Huschtscha, Roger Reddel, Georgia Chenevix-Trench, Martina Toso, James G Kench, Lisa G Horvath, Vanessa M Hayes, Phillip D Stricker, Timothy P Hughes, Deborah L White, John E J Rasko, Justin J-L Wong, Susan J Clark
Guidelines for whole genome bisulphite sequencing of intact and FFPET DNA on the Illumina HiSeq X Ten. Epigenetics & chromatin 11 (1) (2018)
Ksenia Skvortsova, Elena Zotenko, Phuc-Loi Luu, Cathryn M Gould, Shalima S Nair, Susan J Clark, Clare Stirzaker
Comprehensive evaluation of genome-wide 5-hydroxymethylcytosine profiling approaches in human DNA. Epigenetics & chromatin 10 (2017)

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Publication Activity (10 Years)

Top Topics

Top Venues

Susan J Clark