Dr Peter Simpson

Senior Lecturer

UQ Centre for Clinical Research
Faculty of Medicine
p.simpson@uq.edu.au
+61 7 334 66051

Overview

Peter holds a BSc Honours degree and a PhD in Molecular Biology from the University of Liverpool in the UK. His first postdoctoral research position was at the Breakthrough Breast Cancer Research Centre at the Institute of Cancer Research, London UK. He moved to Australia in 2005 and helped Professor Lakhani establish the Molecular Breast Pathology group. He is a member of the International Cancer Genome Consortium (Breast Cancer group) and the Queensland Genomics Health Alliance; he is a Fellow of the Faculty of Science in the Royal College of Pathologists of Australasia. He holds a joint teaching and research position at UQ, teaching for the Discipline of Pathology on the Faculty of Medicine MD Program and is a Research Group Leader at the UQCCR.

Research Impacts

Cancer is a very heterogeneous disease, making morphological classification and management of patients a significant challenge. Despite great advances it remains difficult to predict which patients are at risk of their disease returning (recurrence), spreading (metastasis) or which patients will gain most benefit to specific therapies. There has therefore been a concerted effort to supplement the morphological classification of disease with molecular parameters that can provide a clearer appreciation for this complexity and better predict tumour behaviour. This ideology has driven significant advancements in the field of molecular pathology research.

Peter's research program embraces these advances in technology to help better understand mechanisms of disease development and progression and help improve the molecular aspects of diagnosis and patient management. Themes of research involve 1) invasive lobular carcinoma of the breast, 2) familial breast cancer, and 3) lung cancer.

Invasive Lobular Carcinoma (ILC) is the most commonly diagnosed ‘special’ morphological type of breast cancer, comprising up to 15% of all cases. They exhibit a very characteristic set of clinical, pathological and biological properties, including a progressive decline in survival, an infiltrative pattern of growth and down regulation of cell adhesion molecule, E-cadherin. Morphological variants exist that are associated with a worse outcome compared to the classic type. A large component of Peter's research focuses on aspects of this specific disease subtype, including understanding molecular determinants that predict tumour behaviour, and mechanisms of invasion and metastasis.

Family history is a significant risk factor for the development of breast cancer. For some individuals and their families, the genetic component of this risk is well understood and attributed to pathogenic germline variants in moderate-high risk genes (e.g. BRCA1, BRCA2, PALB2, TP53, ATM, CHEK2). For most individuals the underlying genetic risk is unknown. We have been using whole genome sequencing of germline and matched tumour DNA to characterise somatic mutation signatures present in tumours from high risk individuals. These approaches are providing insight into the mechanisms driving tumourigenesis in familial breast cancers and also therapeutic strategies.

Endobronchial ultrasound transbronchial needle aspiration (EBUS-TBNA) sampling of lymph nodes is an important procedure to make a diagnosis of Lung cancer, particulalry in patients presenting with advanced, inoperable disease. Next generation sequencing is an important component of diagnostic practice and therapeutic decision making for lung cancer patients. Our program of work is focused on optimising sequencing approaches from small diagnostic aspirate samples yielded by EBUS TBNA.

Qualifications

  • Doctor of Philosophy, University of Liverpool

Publications

  • Joo, Jihoon E., Dowty, James G., Milne, Roger L., Wong, Ee Ming, Dugué, Pierre-Antoine, English, Dallas, Hopper, John L., Goldgar, David E., Giles, Graham G., Southey, Melissa C., kConFab, Sexton, Adrienne, Christian, Alice, Trainer, Alison, Spigelman, Allan, Fellows, Andrew, Shelling, Andrew, De Fazio, Anna, Blackburn, Anneke, Crook, Ashley, Meiser, Bettina, Patterson, Briony, Clarke, Christine, Saunders, Christobel, Hunt, Clare, Scott, Clare, Amor, David, Marsh, Deborah, Edkins, Edward, Salisbury, Elizabeth, Haan, Eric, Neidermayr, Eveline, Macrae, Finlay, Farshid, Gelareh, Lindeman, Geoff, Chenevix-Trench, Georgia, Mann, Graham, Gill, Grantley, Thorne, Heather, Campbell, Ian, Hickie, Ian, Winship, Ingrid, Goldblatt, Jack, Flanagan, James, Kollias, James, Visvader, Jane, Stone, Jennifer, Taylor, Jessica, Burke, Jo, Saunus, Jodi, Forbes, John, Beesley, Jonathan, Kirk, Judy, French, Juliet, Tucker, Kathy, Wu, Kathy, Phillips, Kelly, Lipton, Lara, Andrews, Leslie, Lobb, Elizabeth, Walker, Logan, Kentwell, Maira, Spurdle, Amanda, Cummings, Margaret, Gleeson, Margaret, Harris, Marion, Jenkins, Mark, Young, Mary Anne, Delatycki, Martin, Wallis, Mathew, Burgess, Matthew, Price, Melanie, Brown, Melissa, Bogwitz, Michael, Field, Michael, Friedlander, Michael, Gattas, Michael, Saleh, Mona, Hayward, Nick, Pachter, Nick, Cohen, Paul, Duijf, Pascal, James, Paul, Butow, Phyllis, Simpson, Peter, Fong, Peter, Williams, Rachael, Kefford, Richard, Scott, Rodney, Balleine, Rosemary, Dawson, Sarah-Jane, Lok, Sheau, O'Connell, Shona, Greening, Sian, Nightingale, Sophie, Edwards, Stacey, Fox, Stephen, McLachlan, Sue-Anne, Lakhani, Sunil, Thomas, Susan and Antill, Yoland (2018) Heritable DNA methylation marks associated with susceptibility to breast cancer. Nature Communications, 9 1: . doi:10.1038/s41467-018-03058-6

  • Kutasovic, Jamie R, McCart Reed, Amy E, Males, Renique, Sim, Sarah, Saunus, Jodi M, Dalley, Andrew, McEvoy, Christopher R, Dedina, Liana, Miller, Gregory, Peyton, Stephen, Reid, Lynne, Lal, Samir, Niland, Colleen, Ferguson, Kaltin, Fellowes, Andrew P, Al-Ejeh, Fares, Lakhani, Sunil R, Cummings, Margaret C and Simpson, Peter T (2018) Breast cancer metastasis to gynaecological organs: a clinico-pathological and molecular profiling study : Breast cancer metastasis to gynaecological organs. The Journal of Pathology: Clinical Research, . doi:10.1002/cjp2.118

  • McCart Reed, Amy Ellen, Kalaw, Emarene, Nones, Katia, Bettington, Mark, Lim, Malcolm, Bennett, James, Johnstone, Kate, Kutasovic, Jamie Rose, Saunus, Jodi Marie, Kazakoff, Stephen, Xu, Qinying, Wood, Scott, Holmes, Oliver, Leonard, Conrad, Reid, Lynne Estelle, Black, Debra, Niland, Colleen, Ferguson, Kaltin, Gresshoff, Irma, Raghavendra, Ashwini, Harvey, Kate, Cooper, Caroline, Liu, Cheng, Kalinowski, Lauren, Reid, Andrew Scott, Davidson, Morgan, Pearson, John V, Pathmanathan, Nirmala, Tse, Gary, Papadimos, David, Pathmanathan, Rajadurai, Harris, Gavin, Yamaguchi, Rin, Tan, Puay Hoon, Fox, Stephen, O'Toole, Sandra A., Simpson, Peter Thomas, Waddell, Nicola and Lakhani, Sunil R. (2018) Phenotypic and molecular dissection of Metaplastic Breast Cancer and the prognostic implications. Journal of Pathology, . doi:10.1002/path.5184

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Supervision

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Publications

Book Chapter

  • Sim, Sarah Yen Mi, Simpson, Peter T., Cummings, Margaret C. and Lakhani, Sunil R. (2016). Future role of molecular profiling in small breast samples and personalized medicine. In Sandra J. Shin (Ed.), A comprehensive guide to core needle biopsies of the breast (pp. 803-817) Cham, Switzerland: Springer. doi:10.1007/978-3-319-26291-8

  • Schnitt, S., Collins, L., Lakhani, S. R. and Simpson, P. T. (2012). Flat epithelial atypia. In WHO Classification of Tumours of the Breast 4th ed. (pp. 87-87) Lyon, France: IARC Press.

  • Lakhani, S. R., Rakha, E. and Simpson, P. T. (2012). Invasive lobular carcinoma. In WHO classification of tumours of the breast 4th ed. (pp. 40-42) Lyon, France: IARC Press.

  • Lakhani, S. R., Schnitt, S., O’Malley, F., van de Vijver, M., Simpson, P. T. and Palacios, J. (2012). Lobular neoplasia. In WHO classification of tumours of the breast 4th ed. (pp. 77-80) Lyon, France: IARC Press.

  • Smart, Chanel, Simpson, Peter T., Vargas, Ana Cristina and Lakhani, Sunil R. (2011). Genetic alterations in normal and malignant breast tissue. In Tot, Tibor (Ed.), Breast cancer, a lobar disease 1st Edition ed. (pp. 53-66) London, United Kingdom: Springer. doi:10.1007/978-1-84996-314-5_4

  • Da Silva, Leonard, Simpson, Peter T. and Lakhani, Sunil R. (2010). Lobular carcinoma in situ. In Ismail Jatoi and M. Kaufmann (Ed.), Management of breast diseases (pp. 181-199) Heidelberg: Springer. doi:10.1007/978-3-540-69743-5_11

  • Simpson, Peter T., Reis-Filho, Jorge S. and Lakhani, Sunil R. (2010). Lobular carcinoma in situ : Biology and pathology. In Jay R. Harris, Marc E. Lippman, C. Kent Osborne and Monica Morrow (Ed.), Diseases of the breast 4th ed. (pp. 333-340) Philadelphia: Lippencott, Williams & Wilkins.

  • Jones, Chris, Simpson, Peter, Mackay, Alan and Lakhani, Sunil R. (2006). Expression profiling using cDNA microarrays. In Susan A. Brooks and Adrian Harris (Ed.), Breast cancer research protocols (pp. 403-414) Totowa, NJ, U.S.A.: Humana Press. doi:10.1385/1-59259-969-9:403

  • Simpson, Peter, Jones, Chris, Mackay, Alan and Lakhani, Sunil R. (2006). Gene expression analysis using filter cDNA microarrays. In Susan A. Brooks and Adrian Harris (Ed.), Breast cancer research protocols (pp. 415-424) Totowa, USA: Humana Press.

Journal Article

  • Joo, Jihoon E., Dowty, James G., Milne, Roger L., Wong, Ee Ming, Dugué, Pierre-Antoine, English, Dallas, Hopper, John L., Goldgar, David E., Giles, Graham G., Southey, Melissa C., kConFab, Sexton, Adrienne, Christian, Alice, Trainer, Alison, Spigelman, Allan, Fellows, Andrew, Shelling, Andrew, De Fazio, Anna, Blackburn, Anneke, Crook, Ashley, Meiser, Bettina, Patterson, Briony, Clarke, Christine, Saunders, Christobel, Hunt, Clare, Scott, Clare, Amor, David, Marsh, Deborah, Edkins, Edward, Salisbury, Elizabeth, Haan, Eric, Neidermayr, Eveline, Macrae, Finlay, Farshid, Gelareh, Lindeman, Geoff, Chenevix-Trench, Georgia, Mann, Graham, Gill, Grantley, Thorne, Heather, Campbell, Ian, Hickie, Ian, Winship, Ingrid, Goldblatt, Jack, Flanagan, James, Kollias, James, Visvader, Jane, Stone, Jennifer, Taylor, Jessica, Burke, Jo, Saunus, Jodi, Forbes, John, Beesley, Jonathan, Kirk, Judy, French, Juliet, Tucker, Kathy, Wu, Kathy, Phillips, Kelly, Lipton, Lara, Andrews, Leslie, Lobb, Elizabeth, Walker, Logan, Kentwell, Maira, Spurdle, Amanda, Cummings, Margaret, Gleeson, Margaret, Harris, Marion, Jenkins, Mark, Young, Mary Anne, Delatycki, Martin, Wallis, Mathew, Burgess, Matthew, Price, Melanie, Brown, Melissa, Bogwitz, Michael, Field, Michael, Friedlander, Michael, Gattas, Michael, Saleh, Mona, Hayward, Nick, Pachter, Nick, Cohen, Paul, Duijf, Pascal, James, Paul, Butow, Phyllis, Simpson, Peter, Fong, Peter, Williams, Rachael, Kefford, Richard, Scott, Rodney, Balleine, Rosemary, Dawson, Sarah-Jane, Lok, Sheau, O'Connell, Shona, Greening, Sian, Nightingale, Sophie, Edwards, Stacey, Fox, Stephen, McLachlan, Sue-Anne, Lakhani, Sunil, Thomas, Susan and Antill, Yoland (2018) Heritable DNA methylation marks associated with susceptibility to breast cancer. Nature Communications, 9 1: . doi:10.1038/s41467-018-03058-6

  • Kutasovic, Jamie R, McCart Reed, Amy E, Males, Renique, Sim, Sarah, Saunus, Jodi M, Dalley, Andrew, McEvoy, Christopher R, Dedina, Liana, Miller, Gregory, Peyton, Stephen, Reid, Lynne, Lal, Samir, Niland, Colleen, Ferguson, Kaltin, Fellowes, Andrew P, Al-Ejeh, Fares, Lakhani, Sunil R, Cummings, Margaret C and Simpson, Peter T (2018) Breast cancer metastasis to gynaecological organs: a clinico-pathological and molecular profiling study : Breast cancer metastasis to gynaecological organs. The Journal of Pathology: Clinical Research, . doi:10.1002/cjp2.118

  • McCart Reed, Amy Ellen, Kalaw, Emarene, Nones, Katia, Bettington, Mark, Lim, Malcolm, Bennett, James, Johnstone, Kate, Kutasovic, Jamie Rose, Saunus, Jodi Marie, Kazakoff, Stephen, Xu, Qinying, Wood, Scott, Holmes, Oliver, Leonard, Conrad, Reid, Lynne Estelle, Black, Debra, Niland, Colleen, Ferguson, Kaltin, Gresshoff, Irma, Raghavendra, Ashwini, Harvey, Kate, Cooper, Caroline, Liu, Cheng, Kalinowski, Lauren, Reid, Andrew Scott, Davidson, Morgan, Pearson, John V, Pathmanathan, Nirmala, Tse, Gary, Papadimos, David, Pathmanathan, Rajadurai, Harris, Gavin, Yamaguchi, Rin, Tan, Puay Hoon, Fox, Stephen, O'Toole, Sandra A., Simpson, Peter Thomas, Waddell, Nicola and Lakhani, Sunil R. (2018) Phenotypic and molecular dissection of Metaplastic Breast Cancer and the prognostic implications. Journal of Pathology, . doi:10.1002/path.5184

  • Miligy, Islam M., Gorringe, Kylie L., Toss, Michael S., Al-Kawaz, Abdulbaqi A., Simpson, Peter, Diez-Rodriguez, Maria, Nolan, Christopher C., Ellis, Ian O., Green, Andrew R. and Rakha, Emad A. (2018) Thioredoxin-interacting protein is an independent risk stratifier for breast ductal carcinoma in situ. Modern Pathology, 1-9. doi:10.1038/s41379-018-0086-7

  • McCart Reed, Amy E., Kutasovic, Jamie R., Nones, Katia, Saunus, Jodi M., Da Silva, Leonard, Newell, Felicity, Kazakoff, Stephen, Melville, Lewis, Jayanthan, Janani, Vargas, Ana Cristina, Reid, Lynne E., Beesley, Jonathan, Chen, Xiao Qing, Patch, Anne Marie, David Clouston, D., Porter, Alan, Evans, Elizabeth, Pearson, John V., Chenevix-Trench, Georgia, Cummings, Margaret C., Waddell, Nic, Lakhani, Sunil R. and Simpson, Peter T. (2018) Mixed ductal-lobular carcinomas: evidence for progression from ductal to lobular morphology. The Journal of Pathology, 244 4: 460-468. doi:10.1002/path.5040

  • Johnson, Julie, Bessette, Darrell C., Saunus, Jodi M., Smart, Chanel E., Song, Sarah, Johnston, Rebecca L., Cocciardi, Sibylle, Rozali, Esdy N., Johnstone, Cameron N., Vargas, Ana Christina, Kazakoff, Stephen H., BioBank, Victorian Cancer, Khanna, Kum Kum, Lakhani, Sunil R., Chenevix-Trench, Georgia, Simpson, Peter T., Nones, Katia, Waddell, Nicola and Al-Ejeh, Fares (2018) Characterization of a novel breast cancer cell line derived from a metastatic bone lesion of a breast cancer patient. Breast Cancer Research and Treatment, 170 1: 179-188. doi:10.1007/s10549-018-4719-9

  • Raghavendra, Ashwini, Kalita-de Croft, Priyakshi, Vargas, Ana Cristina, Smart, Chanel E., Simpson, Peter T., Saunus, Jodi M. and Lakhani, Sunil R. (2018) Expression of MAGE-A and NY-ESO-1 cancer-testis antigens is enriched in triple-negative invasive breast cancers. Histopathology, 73 1: 68-80. doi:10.1111/his.13498

  • McCart Reed, Amy E., Saunus, Jodi M., Ferguson, Kaltin, Niland, Colleen, Simpson, Peter T. and Lakhani, Sunil R. (2018) The Brisbane Breast Bank. Open Journal of Bioresources, 5 5: . doi:10.5334/ojb.33

  • Lal, Samir, McCart Reed, Amy E., de Luca, Xavier M. and Simpson, Peter T. (2017) Molecular signatures in breast cancer. Methods, 131 135-146. doi:10.1016/j.ymeth.2017.06.032

  • Saunus, Jodi M., Smart, Chanel E., Kutasovic, Jamie R., Johnston, Rebecca L., Kalita-de Croft, Priyakshi, Miranda, Mariska, Rozali, Esdy N., Vargas, Ana Cristina, Reid, Lynne E., Lorsy, Eva, Cocciardi, Sibylle, Seidens, Tatjana, McCart Reed, Amy E., Dalley, Andrew J., Wockner, Leesa F., Johnson, Julie, Sarkar, Debina, Askarian-Amiri, Marjan E., Simpson, Peter T., Khanna, Kum Kum, Chenevix-Trench, Georgia, Al-Ejeh, Fares and Lakhani, Sunil R. (2017) Multidimensional phenotyping of breast cancer cell lines to guide preclinical research. Breast Cancer Research and Treatment, 167 1: 1-13. doi:10.1007/s10549-017-4496-x

  • Fielding, David, Dalley, Andrew J., Bashirzadeh, Farzad, Singh, Mahendra, Nandakumar, Lakshmy, Reed, Amy E. McCart, Black, Debra, Kazakoff, Stephen, Nones, Katia, Pearson, John, Waddell, Nic, Lakhani, Sunil R. and Simpson, Peter T. (2017) Next-generation sequencing of endobronchial ultrasound transbronchial needle aspiration specimens in lung cancer. American Journal of Respiratory and Critical Care Medicine, 196 3: 388-391. doi:10.1164/rccm.201609-1935LE

  • Lal, Samir, Reed, Amy E. McCart, de Luca, Xavier M. and Simpson, Peter T. (2017) Molecular signatures in breast cancer. Methods, 131 135-146. doi:10.1016/j.ymeth.2017.06.032

  • Davies, Helen, Glodzik, Dominik, Morganella, Sandro, Yates, Lucy R., Staaf, Johan, Zou, Xueqing, Ramakrishna, Manasa, Martin, Sancha, Boyault, Sandrine, Sieuwerts, Anieta M., Simpson, Peter T., King, Tari A., Raine, Keiran, Eyfjord, Jorunn E., Kong, Gu, Borg, Åke, Birney, Ewan, Stunnenberg, Hendrik G., Van De Vijver, Marc J., Borresen-Dale, Anne-Lise, Martens, John W. M., Span, Paul N., Lakhani, Sunil R., Vincent-Salomon, Anne, Sotiriou, Christos, Tutt, Andrew, Thompson, Alastair M., Van Laere, Steven, Richardson, Andrea L., Viari, Alain, Campbell, Peter J., Stratton, Michael R. and Nik-Zainal, Serena (2017) HRDetect is a predictor of BRCA1 and BRCA2 deficiency based on mutational signatures. Nature Medicine, 23 4: 517-525. doi:10.1038/nm.4292

  • Koteeswaran, Rajasekaran, Simpson, Peter, Bartle, Emma, Smith, Deborah, Bhutada, Ekta, Ayre, Julie and Lakhani, Sunil R. (2017) Flipping pathology: our experience at an Australian medical school. Medical Science Educator, . doi:10.1007/s40670-017-0406-4

  • Glodzik, Dominik, Morganella, Sandro, Davies, Helen, Simpson, Peter T., Li, Yilong, Zou, Xueqing, Diez-Perez, Javier, Staaf, Johan, Alexandrov, Ludmil B., Smid, Marcel, Brinkman, Arie B., Rye, Inga Hansine, Russnes, Hege, Raine, Keiran, Purdie, Colin A., Lakhani, Sunil R., Thompson, Alastair M., Birney, Ewan, Stunnenberg, Hendrik G., Van De Vijver, Marc J., Martens, John W. M., Borresen-Dale, Anne-Lise, Richardson, Andrea L., Kong, Gu, Viari, Alain, Easton, Douglas, Evan, Gerard, Campbell, Peter J., Stratton, Michael R. and Nik-Zainal, Serena (2017) A somatic-mutational process recurrently duplicates germline susceptibility loci and tissue-specific super-enhancers in breast cancers. Nature Genetics, 49 3: 341-348. doi:10.1038/ng.3771

  • Smid, Marcel, Rodriguez-Gonzalez, F. German, Sieuwerts, Anieta M., Salgado, Roberto, Prager-Van Der Smissen, Wendy J. C., van der Vlugt-Daane, Michelle, Van Galen, Anne, Nik-Zainal, Serena, Staaf, Johan, Brinkman, Arie B., Van De Vijver, Marc J., Richardson, Andrea L., Fatima, Aquila, Berentsen, Kim, Butler, Adam, Martin, Sancha, Davies, Helen R., Debets, Reno, Meijer-Van Gelder, Marion E., Van Deurzen, Carolien H. M., Macgrogan, Gaeetan, Van Den Eynden, Gert G. G. M., Purdie, Colin, Thompson, Alastair M., Caldas, Carlos, Span, Paul N., Simpson, Peter T., Lakhani, Sunil R., Van Laere, Steven, Desmedt, Christine, Ringner, Markus, Tommasi, Stefania, Eyford, Jorunn, Broeks, Annegien, Vincent-Salomon, Anne, Futreal, P. Andrew, Knappskog, Stian, King, Tari, Thomas, Gilles, Viari, Alain, Langerod, Anita, Borresen-Dale, Anne-Lise, Birney, Ewan, Stunnenberg, Hendrik G., Stratton, Mike, Foekens, John A. and Martens, John W. M. (2016) Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltration. Nature Communications, 7 12910.1-12910.9. doi:10.1038/ncomms12910

  • Liu, Chao, Rohart, Florian, Simpson, Peter T., Khanna, Kum Kum, Ragan, Mark A. and Le Cao, Kim-Anh (2016) Integrating multi-omics data to dissect mechanisms of DNA repair dysregulation in breast cancer. Scientific Reports, 6 34000.1-34000.11. doi:10.1038/srep34000

  • Nik-Zainal, Serena, Davies, Helen, Staaf, Johan, Ramakrishna, Manasa, Glodzik, Dominik, Zou, Xueqing, Martincorena, Inigo, Alexandrov, Ludmil B., Martin, Sancha, Wedge, David C., Van Loo, Peter, Ju, Young Seok, Smid, Marcel, Brinkman, Arie B., Morganella, Sandro, Aure, Miriam R., Lingjaerde, Ole Christian, Langerod, Anita, Ringner, Markus, Ahn, Sung-Min, Boyault, Sandrine, Brock, Jane E., Broeks, Annegien, Butler, Adam, Desmedt, Christine, Dirix, Luc, Dronov, Serge, Fatima, Aquila, Foekens, John A., Gerstung, Moritz, Hooijer, Gerrit K. J., Jang, Se Jin, Jones, David R., Kim, Hyung-Yong, King, Tari A., Krishnamurthy, Savitri, Lee, Hee Jin, Lee, Jeong-Yeon, Li, Yilong, McLaren, Stuart, Menzies, Andrew, Mustonen, Ville, O'Meara, Sarah, Pauporte, Iris, Pivot, Xavier, Purdie, Colin A., Raine, Keiran, Ramakrishnan, Kamna, Rodriguez-Gonzalez, F. German, Romieu, Gilles, Sieuwerts, Anieta M., Simpson, Peter T., Shepherd, Rebecca, Stebbings, Lucy, Stefansson, Olafur A., Teague, Jon, Tommasi, Stefania, Treilleux, Isabelle, Van den Eynden, Gert G., Vermeulen, Peter, Vincent-Salomon, Anne, Yates, Lucy, Caldas, Carlos, van't Veer, Laura, Tutt, Andrew, Knappskog, Stian, Tan, Benita Kiat Tee, Jonkers, Jos, Borg, Ake, Ueno, Naoto T., Sotiriou, Christos, Viari, Alain, Futreal, P. Andrew, Campbell, Peter J., Span, Paul N., Van Laere, Steven, Lakhani, Sunil R., Eyfjord, Jorunn E., Thompson, Alastair M., Birney, Ewan, Stunnenberg, Hendrik G., van de Vijver, Marc J., Martens, John W. M., Borresen-Dale, Anne-Lise, Richardson, Andrea L., Kong, Gu, Thomas, Gilles and Stratton, Michael R. (2016) Landscape of somatic mutations in 560 breast cancer whole-genome sequences. Nature, 534 7605: 47-+. doi:10.1038/nature17676

  • Li, Jun, Woods, Susan L., Healey, Sue, Beesley, Jonathan, Chen, Xiaoqing, Lee, Jason S., Sivakumaran, Haran, Wayte, Nicci, Nones, Katia, Waterfall, Joshua J., Pearson, John, Patch, Anne-Marie, Senz, Janine, Ferreira, Manuel A., Kaurah, Pardeep, Mackenzie, Robertson, Heravi-Moussavi, Alireza, Hansford, Samantha, Lannagan, Tamsin R. M., Spurdle, Amanda B., Simpson, Peter T., da Silva, Leonard, Lakhani, Sunil R., Clouston, Andrew D., Bettington, Mark, Grimpen, Florian, Busuttil, Rita A., Di Costanzo, Natasha, Boussioutas, Alex, Jeanjean, Marie, Chong, George, Fabre, Aurelie, Olschwang, Sylviane, Faulkner, Geoffrey J., Bellos, Evangelos, Coin, Lachlan, Rioux, Kevin, Bathe, Oliver F., Wen, Xiaogang, Martin, Hilary C., Neklason, Deborah W., Davis, Sean R., Walker, Robert L., Calzone, Kathleen A., Avital, Itzhak, Heller, Theo, Koh, Christopher, Pineda, Marbin, Rudloff, Udo, Quezado, Martha, Pichurin Pavel N., Hulick, Peter J., Weissman, Scott M., Newlin, Anna, Rubinstein, Wendy S., Sampson, Jone E., Hamman, Kelly, Goldgar, David, Poplawski, Nicola, Phillips, Kerry, Schofield, Lyn, Armstrong, Jacqueline, Kiraly-Borri, Cathy, Suthers, Graeme K., Huntsman, David G., Foulkes, William D., Carneiro, Fatima, Lindor, Noralane M., Edwards, Stacey L., French, Juliet D., Waddell, Nicola, Meltzer, Paul S., Worthley, Daniel L., Schrader, Kasmintan A. and Chenevix-Trench, Georgia (2016) Point mutations in Exon 1B of APC reveal gastric adenocarcinoma and proximal polyposis of the stomach as a familial adenomatous polyposis variant. American Journal of Human Genetics, 98 5: 830-842. doi:10.1016/j.ajhg.2016.03.001

  • Field, Sarah, Uyttenhove, Catherine, Stroobant, Vincent, Cheou, Paméla, Coutelier, Jean-Paul, Simpson, Peter T., Cummings, Margaret C., Saunus, Jodi M., Reid, Lynne E., Kutasovic, Jamie R., McNicol, Anne Marie, Kim, Ba Reun, Kim, Jae Ho, Lakhani, Sunil R., Neville, A. Munro, Van Snick, Jacques and Jat, Parmjit S. (2016) Novel highly specific anti-periostin antibodies uncover the functional importance of the fascilin 1-1 domain and highlight preferential expression of periostin in aggressive breast cancer. International Journal of Cancer, 138 8: 1959-1970. doi:10.1002/ijc.29946

  • Srihari, Sriganesh, Kalimutho, Murugan, Lal, Samir, Singla, Jitin, Patel, Dhaval, Simpson, Peter T., Khanna, Kum Kum and Ragan, Mark A. (2016) Understanding the functional impact of copy number alterations in breast cancer using a network modeling approach. Molecular Biosystems, 12 3: 963-972. doi:10.1039/C5MB00655D

  • McCart Reed, Amy E., Kutasovic, Jamie R., Vargas, Ana Cristina, Jayanthan, Janani, Al-Murrani, Amel, Reid, Lynne E., Chambers, Rachael, Da Silva, Leonard, Melville, Lewis, Evans, Elizabeth, Porter, Alan, Papadimos, David, Thompson, Erik W., Lakhani, Sunil R. and Simpson, Peter T. (2016) An epithelial to mesenchymal transition programme does not usually drive the phenotype of invasive lobular carcinomas. Journal of Pathology, 238 4: 489-494. doi:10.1002/path.4668

  • Pelttari, Liisa M., Khan, Sofia, Vuorela, Mikko, Kiiski, Johanna I., Vilske, Sara, Nevanlinna, Viivi, Ranta, Salla, Schleutker, Johanna, Winqvist, Robert, Kallioniemi, Anne, Dörk, Thilo, Bogdanova, Natalia V., Figueroa, Jonine, Pharoah, Paul D. P., Schmidt, Marjanka K., Dunning, Alison M., García-Closas, Montserrat, Bolla, Manjeet K., Dennis, Joe, Michailidou, Kyriaki, Wang, Qin, Hopper, John L., Southey, Melissa C., Rosenberg, Efraim H., Fasching, Peter A., Beckmann, Matthias W., Peto, Julian, Dos-Santos-silva, Isabel, Sawyer, Elinor J., Tomlinson, Ian, Burwinkel, Barbara, Surowy, Harald, Guénel, Pascal, Truong, Thérèse, Bojesen, Stig E., Nordestgaard, Børge G., Benitez, Javier, González-Neira, Anna, Neuhausen, Susan L., Anton-Culver, Hoda, Brenner, Hermann, Arndt, Volker, Meindl, Alfons, Schmutzler, Rita K., Brauch, Hiltrud, Brüning, Thomas, Lindblom, Annika, Margolin, Sara, Mannermaa, Arto, Hartikainen, Jaana M., Chenevix-Trench, Georgia, Van Dyck, Laurien, Janssen, Hilde, Chang-Claude, Jenny, Rudolph, Anja, Radice, Paolo, Peterlongo, Paolo, Hallberg, Emily, Olson, Janet E., Giles, Graham G., Milne, Roger L., Haiman, Christopher A., Schumacher, Fredrick, Simard, Jacques, Dumont, Martine, Kristensen, Vessela, Borresen-Dale, Anne-Lise, Zheng, Wei, Beeghly-Fadiel, Alicia, Grip, Mervi, Andrulis, Irene L., Glendon, Gord, Devilee, Peter, Seynaeve, Caroline, Hooning, Maartje J., Collée, Margriet, Cox, Angela, Cross, Simon S., Shah, Mitul, Luben, Robert N., Hamann, Ute, Torres, Diana, Jakubowska, Anna, Lubinski, Jan, Couch, Fergus J., Yannoukakos, Drakoulis, Orr, Nick, Swerdlow, Anthony, Darabi, Hatef, Li, Jingmei, Czene, Kamila, Hall, Per, Easton, Douglas F., Mattson, Johanna, Blomqvist, Carl, Aittomäki, Kristiina, Nevanlinna, Heli, Aghmesheh, Morteza, Amor, David, Andrews, Lesley, Antill, Yoland, Armitage, Shane, Arnold, Leanne, Balleine, Rosemary, Bankier, Agnes, Bastick, Patti, Beesley, Jonathan, Beilby, John, Bennett, Barbara, Bennett, Ian, Berry, Geoffrey, Blackburn, Anneke, Bogwitz, Michael, Brennan, Meagan, Brown, Melissa, Buckley, Michael, Burgess, Matthew, Burke, Jo, Butow, Phyllis, Byron, Keith, Callen, David, Campbell, Ian, Chauhan, Deepa, Christian, Alice, Clarke, Christine, Colley, Alison, Cotton, Dick, Crook, Ashley, Cui, James, Culling, Bronwyn, Cummings, Margaret, Dawson, Sarah-Jane, DeFazio, Anna, Delatycki, Martin, Dickson, Rebecca, Dixon, Joanne, Dobrovic, Alexander, Dudding, Tracy, Edkins, Ted, Edwards, Stacey, Eisenbruch, Maurice, Farshid, Gelareh, Fawcett, Susan, Fellows, Andrew, Fenton, Georgina, Field, Michael, Firgaira, Frank, Flanagan, James, Fleming, Jean, Fong, Peter, Forbes, John, Fox, Stephen, French, Juliet, Friedlander, Michael, Gaff, Clara, Gardner, Mac, Gattas, Mike, George, Peter, Giles, Graham, Gill, Grantley, Goldblatt, Jack, Greening, Sian, Grist, Scott, Haan, Eric, Hardie, Kate, Harris, Marion, Hart, Stewart, Hayward, Nick, Healey, Sue, Heiniger, Louise, Hopper, John, Humphrey, Evelyn, Hunt, Clare, James, Paul, Jenkins, Mark, Jones, Alison, Kefford, Rick, Kidd, Alexa, Kiely, Belinda, Kirk, Judy, Koehler, Jessica, Kollias, James, Kovalenko, Serguei, Lakhani, Sunil, Leaming, Amanda, Leary, Jennifer, Lim, Jacqueline, Lindeman, Geoff, Lipton, Lara, Lobb, Liz, Mann, Graham, Marsh, Deborah, McLachlan, Sue Anne, Meiser, Bettina, Meldrum, Cliff, Milne, Roger, Mitchell, Gillian, Newman, Beth, Nightingale, Sophie, O'Connell, Shona, O'Loughlin, Imeldao, Osborne, Richard, Pachter, Nick, Patterson, Briony, Peters, Lester, Phillips, Kelly, Price, Melanie, Purser, Lynne, Reeve, Tony, Reeve, Jeanne, Richards, Robert, Rickard, Edwina, Robinson, Bridget, Rudzki, Barney, Saleh, Mona, Salisbury, Elizabeth, Sambrook, Joe, Saunders, Christobel, Saunus, Jodi, Sayer, Robyn, Scott, Elizabeth, Scott, Rodney, Scott, Clare, Seshadri, Ram, Sexton, Adrienne, Sharma, Raghwa, Shelling, Andrew, Simpson, Peter, Southey, Melissa, Spurdle, Amanda, Suthers, Graeme, Sykes, Pamela, Taylor, Donna, Taylor, Jessica, Thierry, Benjamin, Thompson, Ella, Thorne, Heather, Townshend, Sharron, Trainer, Alison, Tran, Lan, Tucker, Kathy, Tyler, Janet, Visvader, Jane, Walker, Logan, Walpole, Ian, Ward, Robin, Waring, Paul, Warner, Bev, Warren, Graham, Williams, Rachael, Wilson, Judy, Winship, Ingrid, Wu, Kathy, Young, Mary Ann, Stuart-Harris, R., Kirsten, F., Rutovitz, J., Clingan, P., Glasgow, A., Proietto, A., Braye, S., Otton, G., Shannon, J., Bonaventura, T., Stewart, J., Begbie, S., Bell, D., Baron-Hay, S., Ferrier, A., Gard, G., Nevell, D., Pavlakis, N., Valmadre, S., Young, B., Camaris, C., Crouch, R., Edwards, L., Hacker, N., Marsden, D., Robertson, G., Beale, P., Beith, J., Carter, J., Dalrymple, C., Houghton, R., Russell, P., Anderson, L., Links, M., Grygiel, J., Hill, J., Brand, A., Byth, K., Jaworski, R., Harnett, P., Wain, G., Purdie, D., Whiteman, D., Ward, B., Papadimos, D., Crandon, A., Horwood, K., Obermair, A., Perrin, L., Wyld, D., Nicklin, J., Davy, S. A.M., Oehler, M. K., Hall, C., Dodd, T., Healy, T., Pittman, K., Henderson, D., Miller, J., Pierdes, J., Achan, A., Blomfield, P., Challis, D., McIntosh, R., Parker, A., Brown, B., Rome, R., Allen, D., Grant, P., Hyde, S., Laurie, R., Robbie, M., Healy, D., Jobling, T., Manolitsas, T., McNealage, J., Rogers, P., Susil, B., Sumithran, E., Simpson, I., Haviv, I., Phillips, K., Rischin, D., Fox, S., Johnson, D., Lade, S., Loughrey, M., O'Callaghan, N., Murray, B., Mileshkin, L., Allan, P., Billson, V., Pyman, J., Neesham, D., Quinn, M., Hamilton, A., McNally, O., Underhill, C., Bell, R., Ng, L. F., Blum, R., Ganju, V., Hammond, I., Leung, Y., McCartney, A., Stewart, C. and Zeps, N. (2016) RAD51B in familial breast cancer. PLoS One, 11 5: e0153788. doi:10.1371/journal.pone.0153788

  • Chen, Chenfeng, Zhao, Kong-Nan, Masci, Paul P., Lakhani, Sunil R., Antonsson, Annika, Simpson, Peter T. and Vitetta, Luis (2015) TGFβ isoforms and receptors mRNA expression in breast tumours: Prognostic value and clinical implications. BMC Cancer, 15 1010: . doi:10.1186/s12885-015-1993-3

  • Saunus, Jodi M., Quinn, MIchael C. J., Patch, Ann-Marie, Pearson, John V., Bailey, Peter J., Nones, Katia, McCart Reed, Amy E., Miller, David, Peter J. Wilson, Al-Ejeh, Fares, Mariasegaram, Mythily, Lau, Queenie, Withers, Teresa, Jeffree, Rosalind L., Reid, Lynne E., Da Silva, Leonard, Matsika, Admire, Niland, Colleen M., Cummings, Margaret C., Bruxner, Timothy J. C., Christ, Angelika N., Harliwong, Ivon, Idrisoglu, Senel, Manning, Suzanne, Nourse, Craig, Nourbakhsh, Ehsan, Wani, Shivangi, Anderson, Matthew J., Fink, J. Lynn, Holmes, Oliver, Kazakoff, Stephen, Leonard, Conrad, Newell, Felicity, Taylor, Darrin, Wood, Scott, Xu, Qinying, Kassahn, Karin S., Narayanan, Vairavan, Taib, Nur Aishah, Teo, Soo-Hwang, Chow, Yock Ping, kConFab, Jat, Parmjit S., Brandner, Sebastian, Flanagan, Adrienne M., Khanna, KumKum, Chenevix-Trench, Georgia, Grimmond, Sean M., Simpson, Peter T., Waddell, Nicola and Lakhani, Sunil R. (2015) Integrated genomic and transcriptomic analysis of human brain metastases identifies recurrently altered pathways of potential clinical significance. Journal of Pathology, 237 3: 363-378. doi:10.1002/path.4583

  • Liu, Chao, Srihari, Sriganesh, Lal, Samir, Gautier, Benoit, Simpson, Peter T., Khanna, Kum Kum, Ragan, Mark A. and LeCao, Kim-Anh (2015) Personalised pathway analysis reveals association between DNA repair pathway dysregulation and chromosomal instability in sporadic breast cancer. Molecular Oncology, 10 1: 179-193. doi:10.1016/j.molonc.2015.09.007

  • Bessette, Darrell C., Tilch, Erik, Seidens, Tatjana, Quinn, Michael C. J., Wiegmans, Adrian P., Shi, Wei, Cocciardi, Sibylle, McCart-Reed, Amy, Saunus, Jodi M., Simpson, Peter T., Grimmond, Sean M., Lakhani, Sunil R., Khanna, Kum Kum, Waddell, Nic, Al-Ejeh, Fares and Chevenvix-Trench, Georgia (2015) Using the MCF10A/MCF10CA1a Breast Cancer Progression Cell Line Model to Investigate the Effect of Active, Mutant Forms of EGFR in Breast Cancer Development and Treatment Using Gefitinib. PLoS One, 10 5: e0125232-e0125232. doi:10.1371/journal.pone.0125232

  • Ju, Young Seok, Tubio, Jose M.C, Mifsud, William, Fu, Beiyuan, Davies, Helen R, Ramakrishna, Manasa, Li, Yilong, Yates, Lucy, Gundem, Gunes, Tarpey, Patrick S, Behjati, Sam, Papaemmanuil, Elli, Martin, Sancha, Fullam, Anthony, Gerstung, Moritz, Nangalia, Jyoti, Green, Anthony R, Caldas, Carlos, Borg, Ake, Tutt, Andrew, Michael Lee, Ming Ta, Van'T Veer, Laura J, Tan, Benita K.T, Aparicio, Samuel, Span, Paul N, Martens, John W.M, Knappskog, Stian, Vincent-Salomon, Ann, Borresen-Dale, Anne-Lise, Eyfjord, Jorunn Erla, Flanagan, Adrienne M, Foster, Christopher, Neal, David E, Cooper, Colin, Eeles, Rosalind, Lakhani, Sunil R, Desmedt, Christine, Thomas, Gilles, Richardson, Andrea L, Purdie, Colin A, Thompson, Alastair M, McDermott, Ultan, Yang, Fengtang, Nik-Zainal, Serena, Campbell, Peter J, Stratton, Michael R, ICGC Prostate Cancer Working Group, ICGC Bone Cancer Working Group, ICGC Breast Cancer Working Group and Simpson, Peter (2015) Frequent somatic transfer of mitochondrial DNA into the nuclear genome of human cancer cells. Genome Research, 25 6: 814-824. doi:10.1101/gr.190470.115

  • Momeny, Majid, Saunus, Jodi M., Marturana, Flavia, McCart Reed, Amy E., Black, Debra, Sala, Gianluca, Iacobelli, Stefano, Holland, Jane D., Yu, Dihua, Da Silva, Leonard, Simpson, Peter T., Khanna, Kum Kum, Chenevix-Trench, Georgia and Lakhani, Sunil R. (2015) Heregulin-HER3-HER2 signaling promotes matrix metalloproteinase-dependent blood-brain-barrier transendothelial migration of human breast cancer cell lines. Oncotarget, 6 6: 3932-3946. doi:10.18632/oncotarget.2846

  • McCart Reed, Amy E., Kutasovic, Jamie R., Lakhani, Sunil R. and Simpson, Peter T. (2015) Invasive lobular carcinoma of the breast: morphology, biomarkers and 'omics. Breast Cancer Research, 17 12: 1-11. doi:10.1186/s13058-015-0519-x

  • Junankar, Simon, Baker, Laura A., Roden, Daniel L., Nair, Radhika, Elsworth, Ben, Gallego-Ortega, David, Lacaze, Paul, Cazet, Aurelie, Nikolic, Iva, Teo, Wee Siang, Yang, Jessica, McFarland, Andrea, Harvey, Kate, Naylor, Matthew J., Lakhani, Sunil R., Simpson, Peter T., Raghavendra, Ashwini, Saunus, Jodi, Madore, Jason, Kaplan, Warren, Ormandy, Christopher, Millar, Ewan K. A., O'Toole, Sandra, Yun, Kyuson and Swarbrick, Alexander (2015) ID4 controls mammary stem cells and marks breast cancers with a stem cell-like phenotype. Nature Communications, 6 1: 6548.1-6548.12. doi:10.1038/ncomms7548

  • Srihari, Sriganesh, Madhamshettiwar, Piyush B., Song, Sarah, Liu, Chao, Simpson, Peter T., Khanna, Kumkum and Ragan, Mark A. (2014) Complex-based analysis of dysregulated cellular processes in cancer. BMC Systems Biology, 8 Supplement 4: . doi:10.1186/1752-0509-8-S4-S1

  • Nones, Katia, Waddell, Nicola, Wayte, Nicci, Patch, Ann-Marie, Bailey, Peter, Newell, Felicity, Holmes, Oliver, Fink, J. Lynn, Quinn, Michael C. J., Tang, Yue Hang, Lampe, Guy, Quek, Kelly, Loffler, Kelly A., Manning, Suzanne, Idrisoglu, Senel, Miller, David, Xu, Qinying, Waddell, Nick, Wilson, Peter J., Bruxner, Timothy J. C., Christ, Angelika N., Harliwong, Ivon, Nourse, Craig, Nourbakhsh, Ehsan, Anderson, Matthew, Kazakoff, Stephen, Leonard, Conrad, Wood, Scott, Simpson, Peter T., Reid, Lynne E., Krause, Lutz, Hussey, Damian J., Watson, David I., Lord, Reginald V., Nancarrow, Derek, Phillips, Wayne A., Gotely, David, Smithers, B. Mark, Whiteman, David C., Hayward, Nicholas K., Campbell, Peter J., Pearson, John V., Grimmond, Sean M. and Barbour, Andrew P. (2014) Genomic catastrophes frequently arise in esophageal adenocarcinoma and drive tumorigenesis. Nature Communications, 5 1: 5224.1-5224.9. doi:10.1038/ncomms6224

  • Owens, Thomas W., Rogers, Renee L., Best, Sarah A., Ledger, Anita, Mooney, Anne-Marie, Ferguson, Alison, Shore, Paul, Swarbrick, Alexander, Ormandy, Christopher J., Simpson, Peter T., Carroll, Jason S., Visvader, Jane E. and Naylor, Matthew J. (2014) Runx2 is a novel regulator of mammary epithelial cell fate in development and breast cancer. Cancer Research, 74 18: 5277-5286. doi:10.1158/0008-5472.CAN-14-0053

  • Tubio, Jose M. C., Li, Yilong, Ju, Young S., Martincorena, Inigo, Cooke, Susanna L., Tojo, Marta, Gundem, Gunes, Pipinikas, Christodoulos P., Zamora, Jorge, Raine, Keiran, Menzies, Andrew, Roman-Garcia, Pablo, Fullam, Anthony, Gerstung, Moritz, Shlien, Adam, Tarpey, Patrick S., Papaemmanuil, Elli, Knappskog, Stian, Van Loo, Peter, Ramakrishna, Manasa, Davies, Helen R., Marshall, John, Wedge, David C., Teague, Jon W., Butler, Adam P., Nik-Zainal, Serena, Alexandrov, Ludmil, Behjati, Sam, Yates, Lucy R., Bolli, Niccolo, Mudie, Laura, Hardy, Claire, Martin, Sancha, McLaren, Stuart, O'Meara, Sarah, Anderson, Elizabeth, Maddison, Mark, Gamble, Stephen, Foster, Christopher, Warren, Anne Y., Whitaker, Hayley, Brewerm Daniel, Eeles, Rosalind, Cooper, Colin, Neal, David, Lynch, Andy G., Visakorpi, Tapio, Isaacs, William B., Van't Veer, Laura, Caldas, Carlos, Desmedt, Christine, Sotiriou, Christos, Aparicio, Sam, Foekensm, John A., Eyfjord, Jorunn Erla, Lakhani, Sunil R., Thomas, Gilles, Myklebost, Ola, Span, Paul N., Borresen-Dale, Anne-Lise, Richardson, Andrea L., Van De Vijver, Marc, Vincent-Salomon, Anne, Van den Eynden, Gert G., Flanagan, Adrienne M., Futreal, P. Andrew, Janes, Sam M., Bova, G. Steven, Stratton, Michael R., McDermott, Ultan, Campbell, Peter J., ICGC Breast Cancer Group, ICGC Bone Cancer Group, ICGC Prostate Cancer Group and Simpson, Peter (2014) Extensive transduction of nonrepetitive DNA mediated by L1 retrotransposition in cancer genomes. Science, 345 6196: 1251343.1-1251343.12. doi:10.1126/science.1251343

  • Kutasovic, Jamie R., Sim, Sarah Y. M., McCart Reed, Amy E., Cummings, Margaret C. and Simpson, Peter T. (2014) Intratumour heterogeneity in the progression to breast cancer metastasis. Cancer Forum, 38 2: 138-142.

  • Vuong, Darina, Simpson, Peter T., Green, Benjamin, Cummings, Margaret C. and Lakhani, Sunil R. (2014) Molecular classification of breast cancer. Virchows Archiv, 465 1: 1-14. doi:10.1007/s00428-014-1593-7

  • Liu, Chao, Srihari, Sriganesh, Le Cao, Kim-Anh, Chenevix-Trench, Georgia, Simpson, Peter T., Ragan, Mark A. and Khanna, Kum Kum (2014) A fine-scale dissection of the DNA double-strand break repair machinery and its implications for breast cancer therapy. Nucleic Acids Research, 42 10: 6106-6127. doi:10.1093/nar/gku284

  • Al-Ejeh, F., Simpson, P. T., Sanus, J. M., Klein, K., Kalimutho, M., Shi, W., Miranda, M., Kutasovic, J., Raghavendra, A., Madore, J., Reid, L., Krause, L., Chenevix-Trench, G., Lakhani, S. R. and Khanna, K. K. (2014) Meta-analysis of the global gene expression profile of triple-negative breast cancer identifies genes for the prognostication and treatment of aggressive breast cancer. Oncogenesis, 3 4: 1-12. doi:10.1038/oncsis.2014.14

  • Cooke, Susanna L., Shlien, Adam, Marshall, John, Pipinikas, Christodoulos P., Martincorena, Inigo, Tubio, Jose M. C., Li, Yilong, Menzies, Andrew, Mudie, Laura, Ramakrishna, Manasa, Yates, Lucy, Davies, Helen, Bolli, Niccolo, Bignell, Graham R., Tarpey, Patrick S., Behjati, Sam, Nik-Zainal, Serena, Papaemmanuil, Elli, Teixeira, Vitor H., Raine, Keiran, O'Meara, Sarah, Dodoran, Maryam S., Teague, Jon W., Butler, Adam P., Iacobuzio-Donahue, Christine, Santarius, Thomas, Grundy, Richard G., Malkin, David, Greaves, Mel, Munshi, Nikhil, Flanagan, Adrienne M., Bowtell, David, Martin, Sancha, Larsimont, Denis, Reis-Filho, Jorge S., Boussioutas, Alex, Taylor, Jack A., Hayes, D. Neil, Janes, Sam M., Futreal, P. Andrew, Stratton, Michael R., McDermott, Ultan, Campbell, Peter J., ICGC Breast Cancer Group, Simpson, Peter T. and Lakhani, Sunil R. (2014) Processed pseudogenes acquired somatically during cancer development. Nature Communications, 5 1: 3644.1-3644.9. doi:10.1038/ncomms4644

  • Al-Ejeh, Fares, Miranda, Mariska, Shi,Wei, Simpson, Peter T., Song, Sarah, Vargas, Ana Cristina, Saunus, Jodi M., Smart, Chanel E., Mariasegaram, Mythily, Wiegmans, Adrian P., Chenevix-Trench, Georgia, Lakhani, Sunil R. and Khanna, Kum Kum (2014) Kinome profiling reveals breast cancer heterogeneity and identifies targeted therapeutic opportunities for triple negative breast cancer. Oncotarget, 5 10: 3145-3158. doi:10.18632/oncotarget.1865

  • Cummings, Margaret C., Simpson, Peter T., Reid, Lynne E., Jayanthan, Janani, Skerman, Joanna, Song, Sarah, McCart Reed, Amy E., Kutasovic, Jamie R., Morey, Adrienne L., Marquart, Louise, O'Rourke, Peter and Lakhani, Sunil R. (2014) Metastatic progression of breast cancer: Insights from 50 years of autopsies. Journal of Pathology, 232 1: 23-31. doi:10.1002/path.4288

  • Tilch, E., Seidens, T., Cocciardi, S., Reid, L. E., Byrne, D., Simpson, P. T., Vargas, A. C., Cummings, M. C., Fox, S. B., Lakhani, S. R. and Chenevix Trench, G. (2014) Mutations in EGFR, BRAF and RAS are rare in triple-negative and basal-like breast cancers from Caucasian women. Breast Cancer Research and Treatment, 143 2: 385-392. doi:10.1007/s10549-013-2798-1

  • Wiegmans, Adrian P., Al-Ejeh, Fares, Chee, Nicole, Yap, Pei-Yi, Gorski, Julia J., Da Silva, Leonard, Bolderson, Emma, Chenevix-Trench, Georgia, Anderson, Robin, Simpson, Peter T., Lakhani, Sunil R. and Khanna, Kum Kum (2014) Rad51 supports triple negative breast cancer metastasis. Oncotarget, 5 10: 3261-3272. doi:10.18632/oncotarget.1923

  • Krishnan, Keerthana, Steptoe, Anita, Martin, Hilary, Pattabiraman, Diwakar R., Nones, Katia, Waddell, Nicola, Mariasegaram, Mythily, Simpson, Peter T., Lakhani, Sunil R., Vlassov, Alexander, Grimmond, Sean M. and Cloonan, Nicole (2013) miR-139-5p is a regulator of metastatic pathways in breast cancer. RNA, 19 12: 1767-1780. doi:10.1261/rna.042143.113

  • McCart Reed, Amy E., Song, Sarah, Kutasovic, Jamie R., Reid, Lynne E., Valle, Jordan M., Vargas, Ana Cristina, Smart, Chanel E. and Simpson, Peter T. (2013) Thrombospondin-4 expression is activated during the stromal response to invasive breast cancer. Virchows Archiv, 463 4: 535-545. doi:10.1007/s00428-013-1468-3

  • Porter, Alan J., Evans, Elizabeth B., Foxcroft, Loani M., Simpson, Peter T. and Lakhani, Sunil R. (2013) Mammographic and ultrasound features of invasive lobular carcinoma of the breast. Journal of Medical Imaging and Radiation Oncology, 58 1: 1-10. doi:10.1111/1754-9485.12080

  • Smart, Chanel E., Morrison, Brian J., Saunus, Jodi M., Vargas, Ana Cristina, Keith, Patricia, Reid, Lynne, Wockner, Leesa, Amiri, Marjan Askarian, Sarkar, Debina, Simpson, Peter T., Clarke, Catherine, Schmidt, Chris W., Reynolds, Brent A., Lakhani, Sunil R. and Lopez, J. Alejandro (2013) In vitro analysis of breast cancer cell line tumourspheres and primary human breast epithelia mammospheres demonstrates inter- and intrasphere heterogeneity. PloS One, 8 6: e64388. doi:10.1371/journal.pone.0064388

  • Hosein, Abdel Nasser, Song, Sarah, McCart Reed, Amy E., Jayanthan, Janani, Reid, Lynne E., Kutasovic, Jamie R., Cummings, Margaret C., Waddell, Nic, Lakhani, Sunil R., Chenevix-Trench, Georgia and Simpson, Peter T. (2013) Evaluating the repair of DNA derived from formalin-fixed paraffin-embedded tissues prior to genomic profiling by SNP-CGH analysis. Laboratory Investigation, 93 6: 701-710. doi:10.1038/labinvest.2013.54

  • Al-Ejeh, Fares, Shi, Wei, Miranda, Mariska, Simpson, Peter T., Vargas, Ana Cristina, Song, Sarah, Wiegmans, Adrian P., Swarbrick, Alex, Welm, Alana L., Brown, Michael P., Chenevix-Trench, Georgia, Lakhani, Sunil R. and Khanna, Kum Kum (2013) Treatment of triple-negative breast cancer using anti-EGFR-directed radioimmunotherapy combined with radiosensitizing chemotherapy and PARP inhibitor. Journal of Nuclear Medicine, 54 6: 913-921. doi:10.2967/jnumed.112.111534

  • Krishnan, Keerthana, Steptoe, Anita L., Martin, Hilary C., Wani, Shivangi, Nones, Katia, Waddell, Nic, Mariasegaram, Mythily, Simpson, Peter T., Lakhani, Sunil R., Gabrielli, Brian, Vlassov, Alexander, Cloonan, Nicole and Grimmond, Sean M. (2013) MicroRNA-182-5-p targets a network of genes involved in DNA repair. RNA, 19 2: 230-242. doi:10.1261/rna.034926.112

  • Waldron, Levi, Ogino, Shuji, Hoshida, Yujin, Shima, Kaori, Reed, Amy E. McCart, Simpson, Peter T., Baba, Yoshifumi, Nosho, Katsuhiko, Segata, Nicola, Vargas, Ana Cristina, Cummings, Margaret C., Lakhani, Sunil R., Kirkner, Gregory J., Giovannucci, Edward, Quackenbush, John, Golub, Todd R., Fuchs, Charles S., Parmigiani, Giovanni and Huttenhower, Curtis (2012) Expression profiling of archival tumors for long-term health studies. Clinical Cancer Research, 18 22: 6136-6146. doi:10.1158/1078-0432.CCR-12-1915

  • Peters, Amelia A., Simpson, Peter T., Bassett, Johnathon J., Lee, Jane M., Da Silva, Leonard, Reid, Lynne E., Song, Sarah, Parat, Marie-Odile, Lakhani, Sunil R., Kenny, Paraic A., Roberts-Thomson, Sarah J. and Monteith, Gregory R. (2012) Calcium channel TRPV6 as a potential therapeutic target in estrogen receptor negative breast cancer. Molecular Cancer Therapeutics, 11 10: 2158-2168. doi:10.1158/1535-7163.MCT-11-0965

  • Smart, Chanel E., Askarian Amiri, Marjan E., Wronski, Ania, Dinger, Marcel E., Crawford, Joanna, Ovchinnikov, Dmitry A., Vargas, Ana Cristina, Reid, Lynne, Simpson, Peter T., Song, Sarah, Wiesner, Christiane, French, Juliet D., Dave, Richa K., da Silva, Leonard, Purdon, Amy, Andrew, Megan, Mattick, John S., Lakhani, Sunil R., Brown, Melissa A. and Kellie, Stuart (2012) Expression and function of the protein tyrosine phosphatase receptor J (PTPRJ) in normal mammary epithelial cells and breast tumors. PLoS One, 7 7: e40742.1-e40742.13. doi:10.1371/journal.pone.0040742

  • Waldron, Levi, Simpson, Peter, Parmigiani, Giovanni and Huttenhower, Curtis (2012) Report on emerging technologies for translational bioinformatics: A symposium on gene expression profiling for archival tissues. BMC Cancer, 12 124.1-124.4. doi:10.1186/1471-2407-12-124

  • McCart Reed, Amy E., Cummings, Margaret C., Lakhani, Sunil R. and Simpson, Peter T. (2012) Molecular pathology of pre-invasive breast disease in the screening setting: Application in diagnosis and management. Diagnostic Histopathology, 18 2: 64-69. doi:10.1016/j.mpdhp.2011.11.006

  • Vargas, Ana Cristina, McCart Reed, Amy E., Waddell, Nic, Lane, Annette, Reid, Lynne E., Smart, Chanel E., Cocciardi, Sibylle, da Silva, Leonard, Song, Sarah, Chenevix-Trench, Georgia, Simpson Peter T. and Lakhani, Sunil R. (2012) Gene expression profiling of tumour epithelial and stromal compartments during breast cancer progression. Breast Cancer Research and Treatment, 135 1: 153-165. doi:10.1007/s10549-012-2123-4

  • Da Silva, Leonard, James, Daniel, Simpson, Peter T., Walker, Daniel, Vargas, Ana Cristina, Jayanthan, Janani, Lakhani, Sunil R. and McNicol, Anne Marie (2011) Tumor heterogeneity in a follicular carcinoma of thyroid: a study by comparative genomic hybridization. Endocrine Pathology, 22 2: 103-107. doi:10.1007/s12022-011-9154-y

  • Simpson, Peter T., Vargas, Ana Christina, Al-Ejeh, Fares, Khanna, Kum Kum, Chenevix-Trench, Georgia and Lakhani, Sunil R. (2011) Application of molecular findings to the diagnosis and management of breast disease: Recent advances and challenges. Human Pathology, 42 2: 153-165. doi:10.1016/j.humpath.2010.07.008

  • Saunus, Jodi M., Momeny, Majid, Simpson, Peter T., Da Silva, Leonard and Lakhani, Sunil R. (2011) Molecular aspects of breast cancer metastasis to the brain. Genetics Research International, 2011 219189-1-219189-9. doi:10.4061/2011/219189

  • Cummings, Margaret C., Chambers, Rachael, Simpson, Peter T. and Lakhani, Sunil R. (2011) Molecular classification of breast cancer: Is it time to pack up our microscopes?. Pathology, 43 1: 1-8. doi:10.1097/PAT.0b013e328341e0b5

  • Waddell, N, Arnold, J, Cocciardi, S, da Silva, L, Marsh, A, Riley, J, Johnstone, CN, Orloff, M, Assie, G, Eng, C, Reid, L, Keith, P, Yan, M, Fox, S, Devilee, P, Godwin, AK, Hogervorst, FBL, Couch, F, Grimmond, S, Flanagan, JM, Khanna, K, Simpson, PT, Lakhani, SR, Chenevix-Trench, G and kConFab Investigators (2010) Subtypes of familial breast tumours revealed by expression and copy number profiling. Breast Cancer Research And Treatment, 123 3: 661-677. doi:10.1007/s10549-009-0653-1

  • Waddell, Nic, Cocciardi, Sibylle, Johnson, Julie, Healey, Sue, Marsh, Anna, Riley, Joan, da Silva, Leonard, Vargas, Ana Cristina, Reid, Lynne, Simpson, Peter T., Lakhani, Sunil R. and Chenevix-Trench, Georgia (2010) Gene expression profiling of formalin-fixed, paraffin-embedded familial breast tumours using the whole genome-DASL assay. Journal of Pathology, 221 4: 452-461. doi:10.1002/path.2728

  • Flanagan, James M., Cocciardi, Sibylle, Waddell, Nic, Johnstone, Cameron N., Marsh, Anna, Henderson, Stephen, Simpson, Peter, da Silva, Leonard, kConFab Investigators, Khanna, Kumkum, Lakhani, Sunil, Boshoff, Chris, Chenevix-Trench, Georgia, Brown, Melissa, Cummings, Margaret and Edwards, Stacey (2010) DNA methylome of familial breast cancer identifies distinct profiles defined by mutation status. American Journal of Human Genetics, 86 3: 420-433. doi:10.1016/j.ajhg.2010.02.008

  • Simpson, Peter T., Reis-Filho, Jorge S. and Lakhani, Sunil R. (2010) Breast pathology: Beyond morphology. Seminars in Diagnostic Pathology, 27 1: 91-96. doi:10.1053/j.semdp.2009.12.001

  • Da Silva, Leonard, Simpson, Peter T., Smart, Chanek E., Cocciardi, Sibylle, Waddell, Nic, Lane, Annette, Morrison, Brian J., Vargas, Ana Cristina, Healey, Sue, Beesley, Jonathan, Pakkiri, Pria, Parry, Suzanne, Kurniawan, Nyoman, Reid, Lynne, Keith, Patricia, Faria, Paulo, Pereira, Emilio, Skalova, Alena, Bilous, Michael, Balleine, Rosemary L., Do, Hongdo, Dobrovic, Alexander, Fox, Stephen, Franco, Marcello, Reynolds, Brent, Khanna, Kum Kum, Cummings, Margaret, Chenevix-Trench, Georgia and Lakhani, Sunil R. (2010) HER3 and downstream pathways are involved in colonization of brain metastases from breast cancer. Breast Cancer Research, 12 4: R46-1-R46-11. doi:10.1186/bcr2603

  • Shin, Sandra J., Simpson, Peter T., Da Silva, Leonard, Jayanthan, Janani, Reid, Lynne, Lakhani, Sunil R. and Rosen, Paul Peter (2009) Molecular evidence for progression of microglandular adenosis (MGA) to invasive carcinoma. The American Journal of Surgical Pathology, 33 4: 496-504. doi:10.1097/PAS.0b013e31818af361

  • Vargas, Ana-Cristina, Lakhani‌, Sunil R. and Simpson, Peter T. (2009) Pleomorphic Lobular Carcinoma of the Breast: molecular pathology and clinical impact. Future Oncology, 5 2: 233-243. doi:10.2217/14796694.5.2.233

  • Da Silva, Leonard, Buck, Lyndall, Simpson, Peter T., Reid, Lynne, McCallum, Naomi, Madigan, Barry J. and Lakhani, Sunil R. (2009) Molecular and morphological analysis of adenoid cystic carcinoma of the breast with synchronous tubular adenosis. Virchows Archiv, 454 1: 107-114. doi:10.1007/s00428-008-0700-z

  • Simpson, P. T., Reis-Filho, J. S., Lambros, M. B. K., Jones, C., Steele, D., Mackay, A., Iravani, M., Fenwick, K., Dexter, T., Jones, A., Reid, L., Da Silva, L., Shin, S. J., Hardisson, D., Ashworth, A., Schmitt, F. C., Palacios, J. and Lakhani, S.R. (2008) Molecular profiling pleomorphic lobular carcinomas of the breast: evidence for a common molecular genetic pathway with classic lobular carcinomas. Journal of Pathology, 215 3: 231-244. doi:10.1002/path.2358

  • DA Silva, L, Parry, S, Reid, L, Keith, P, Waddell, N, Kossai, M, Clarke, C, Lakhani, SR and Simpson, PT (2008) Aberrant expression of E-cadherin in lobular carcinomas of the breast. American Journal of Surgical Pathology, 32 5: 773-783. doi:10.1097/PAS.0b013e318158d6c5

  • Simpson, P.T., Da Silva, L. M and Lakhani, S.R. (2007) In situ carcinoma - can we predict which patient will come back with a recurrence?. Cancer Cell, 12 5: 409-411. doi:10.1016/j.ccr.2007.10.026

  • Pierga, J-Y., Reis-Filho, J. S., Cleator, S. J., Dexter, T., MacKay, A., Simpson, P., Fenwick, K., Iravani, M., Salter, J., Hills, M., Jones, C., Ashworth, A., Smith, I. E., Powles, T. and Dowsett, M. (2007) Microarray-based comparative genomic hybridisation of breast cancer patients receiving neoadjuvant chemotherapy. British Journal of Cancer, 96 2: 341-351. doi:10.1038/sj.bjc.6603483

  • Reis-Filho, Jorge Sergio, Simpson, Pete T., Turner, Nicholas C., Lambros, Maryou Ballo, Jones, Chris, Mackay, Alan, Grigoriadis, Anita, Sarrio, David, Savage, Kay, Dexter, Tim, Iravani, Marjan, Fenwick, Kerry, Weber, Barbara, Hardisson, David, Schmitt, Fernando Carlos, Palacios, Jose, Lakhani, Sunil R. and Ashworth, Alan (2006) FGFR1 emerges as a potential therapeutic target for lobular breast carcinomas. Clinical Cancer Research, 12 22: 6652-6662. doi:10.1158/1078-0432.CCR-06-1164

  • Reis-Filho, J. S., Pinheiro, C., Lambros, M. B. K., Milanezi, F., Carvalho, S., Savage, K., Simpson, P. T., Jones, C., Swift, S., Mackay, A., Reis, R. M., Hornick, J. L., Pereira, E. M., Baltazar, F., Fletcher, C. D. M., Ashworth, A., Lakhani, S. R. and Schmitt, F. C. (2006) EGFR amplification and lack of activating mutations in metaplastic breast carcinomas. Journal of Pathology, 209 4: 445-453. doi:10.1002/path.2004

  • Jones, Chris, Simpson, Peter, Mackay, Alan and Lakhani, Sunil R (2006) Expression profiling using cDNA microarrays. Methods in molecular medicine, 120 403-414.

  • Simpson, Peter, Jones, Chris, Mackay, Alan and Lakhani, Sunil R (2006) Gene expression analysis using filter cDNA microarrays. Methods in molecular medicine, 120 415-424.

  • Reis-Filho, J. S., Milanezi, F., Steele, D., Savage, K., Simpson, P. T., Nesland, J. M., Pereira, E. M., Lakhani, S. R. and Schmitt, F. C. (2006) Metaplastic breast carcinomas are basal-like tumours. Histopathology, 49 1: 10-21. doi:10.1111/j.1365-2559.2006.02467.x

  • Lambros, Maryou B. K., Simpson, Peter T., Jones, Chris, Natrajan, Rachael, Westbury, Charlotte, Steele, Dawn, Savage, Kay, Mackay, Alan, Schmitt, Fernando C., Ashworth, Alan and Reis-Filho, Jorge S. (2006) Unlocking pathology archives for molecular genetic studies: a reliable method to generate probes for chromogenic and fluorescent in situ hybridization. Laboratory Investigation, 86 4: 398-408. doi:10.1038/labinvest.3700390

  • Reis-Filho, Jorge S., Simpson, Peter T., Gale, Theodora and Lakhani, Sunil R. (2005) The molecular genetics of breast cancer: The contribution of comparative genomic hybridization. Pathology Research & Practice, 201 11: 713-725. doi:10.1016/j.prp.2005.05.013

  • Simpson, P. T., Gale, T., Reis-Filho, J. S., Jones, C., Parry, S., Sloane, J. P., Hanby, A., Pinder, S. E., Lee, A. H. S., Humphreys, S., Ellis, I. O. and Lakhani, S. R. (2005) Columnar cell lesions of the breast: The missing link in breast cancer progression? A morphological and molecular analysis. American Journal of Surgical Pathology, 29 6: 734-746. doi:10.1097/01.pas.0000157295.93914.3b

  • Reis-Filho, Jorge S., Milanezi, Fernanda, Carvalho, Silvia, Simpson, Peter T., Steele, Dawn, Savage, Kay, Lambros, Maryou B. K., Pereira, Emilio M., Nesland, John M., Lakhani, Sunil R. and Schmitt, Fernando C. (2005) Metaplastic breast carcinomas exhibit EGFR, but not HER2, gene amplification and overexpression: Immunohistochemical and chromogenic in situ hybridization analysis. Breast Cancer Research, 7 6: R1028-R1035. doi:10.1186/bcr1341

  • Simpson, P. T., Reis-Filho, J. S., Gale, T. and Lakhani, S. R. (2005) Molecular evolution of breast cancer. Journal of Pathology, 205 2: 248-254. doi:10.1002/path.1691

  • Reis-Filho, J. S., Simpson, P. T., Jones, C., Steele, D., Mackay, A., Iravani, M., Fenwick, K., Valgeirrson, H., Lambros, M., Ashworth, A., Palacios, J., Schmitt, F. and Lakhani, S. R. (2005) Pleomorphic lobular carcinoma of the breast: role of comprehensive molecular pathology in characterization of an entity. Journal of Pathology, 207 1: 1-13. doi:10.1002/path.1806

  • Simpson, Peter T., Gale, Theodora, Reis-Filho, Jorge S, Jones, Chris, Parry, Suzanne, Steele, Dawn, Cossu, Antonio, Budroni, Mario, Palmieri, Giuseppe and Lakhani, Sunil R (2004) Distribution and significance of 14-3-3 sigma, a novel myoepithelial marker, in normal, benign, and malignant breast tissue. Journal of Pathology, 202 3: 274-285. doi:10.1002/path.1530

  • Reis, J. S., Simpson, P. T., Martins, A., Preto, A., Gartner, F. and Schmitt, F. C. (2003) Distribution of p63, cytokeratins 5/6 and cytokeratin 14 in 51 normal and 400 neoplastic human tissue samples using TARP-4 multi-tumor tissue microarray. Virchows Archiv, 443 2: 122-132. doi:10.1007/s00428-003-0859-2

  • Simpson, PT, Shoker, BS, Barraclough, R, Halliwell, N, Rudland, PS, Sibson, DR and Davies, MPA (2003) Examination of tumour histopathology and gene expression in a neu/S100A4 transgenic model of metastatic breast cancer. International Journal of Experimental Pathology, 84 4: 173-183. doi:10.1046/j.1365-2613.2003.00350.x

  • Simpson, Peter T., Gale, Theodora, Fulford, Laura G., Reis-Filho, Jorge S. and Lakhani, Sunil R. (2003) Pathology of atypical lobular hyperplasia and lobular carcinoma in situ. Breast Cancer Research, 5 5: 258-262. doi:10.1186/bcr624

  • Mackay, A., Jones, C., Dexter, T., Silva, R. L. A., Bulmer, K., Jones, A., Simpson, P., Harris, R. A., Jat, P. S., Neville, A. M., Reis, L. F. L., Lakhani, S. R. and O'Hare, M. J. (2003) cDNA microarray analysis of genes associated with ERBB2 (HER2/neu) overexpression in human mammary luminal epithelial cells. Oncogene, 22 17: 2680-2688. doi:10.1038/sj.onc.1206349

  • Reis, Jorge S., Simpson, Pete T., Fulford, Laura G., Martins, Albino and Schmitt, Fernando C. (2003) p63-driven nuclear accumulation of beta-catenin is not a frequent event in human neoplasms. Pathology Research and Practice, 199 12: 785-793. doi:10.1078/0344-0338-00497

Conference Publication

Grants (Administered at UQ)

PhD and MPhil Supervision

Current Supervision

  • Doctor Philosophy — Principal Advisor

    Other advisors:

Completed Supervision