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2019 Journal Article Diff-Quik cytology smears from endobronchial ultrasound transbronchial needle aspiration lymph node specimens as a source of DNA for next-generation sequencing instead of cell blocksFielding, David, Dalley, Andrew J., Bashirzadeh, Farzad, Singh, Mahendra, Nandakumar, Lakshmy, McCart Reed, Amy E., Black, Debra, Kazakoff, Stephen, Pearson, John V., Nones, Katia, Waddell, Nicola, Lakhani, Sunil R. and Simpson, Peter T. (2019). Diff-Quik cytology smears from endobronchial ultrasound transbronchial needle aspiration lymph node specimens as a source of DNA for next-generation sequencing instead of cell blocks. Respiration, 97 (6), 1-14. doi: 10.1159/000495661 |
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2019 Journal Article Phenotypic and molecular dissection of Metaplastic Breast Cancer and the prognostic implicationsMcCart 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 ... Lakhani, Sunil R. (2019). Phenotypic and molecular dissection of Metaplastic Breast Cancer and the prognostic implications. Journal of Pathology, 247 (2), 214-227. doi: 10.1002/path.5184 |
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2019 Journal Article Breast cancer metastasis to gynaecological organs: a clinico‐pathological and molecular profiling studyKutasovic, 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. (2019). Breast cancer metastasis to gynaecological organs: a clinico‐pathological and molecular profiling study. The Journal of Pathology: Clinical Research, 5 (1), 25-39. doi: 10.1002/cjp2.118 |
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2018 Journal Article Heritable DNA methylation marks associated with susceptibility to breast cancerJoo, 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 ... Antill, Yoland (2018). Heritable DNA methylation marks associated with susceptibility to breast cancer. Nature Communications, 9 (1) 867. doi: 10.1038/s41467-018-03058-6 |
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2018 Journal Article Mutational mechanisms of amplifications revealed by analysis of clustered rearrangements in breast cancersGłodzik, D, Purdie, C, Rye, I Hansine, Simpson, P, Staaf, J, Span, P N, Russnes, H and Nik-Zainal, S (2018). Mutational mechanisms of amplifications revealed by analysis of clustered rearrangements in breast cancers. Annals of Oncology, 29 (11), 2223-2231. doi: 10.1093/annonc/mdy404 |
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2018 Journal Article Thioredoxin-interacting protein is an independent risk stratifier for breast ductal carcinoma in situMiligy, 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, 31 (12), 1-9. doi: 10.1038/s41379-018-0086-7 |
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2018 Journal Article Mixed ductal-lobular carcinomas: evidence for progression from ductal to lobular morphologyMcCart 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 |
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2018 Journal Article Characterization of a novel breast cancer cell line derived from a metastatic bone lesion of a breast cancer patientJohnson, 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 |
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2018 Journal Article Expression of MAGE-A and NY-ESO-1 cancer-testis antigens is enriched in triple-negative invasive breast cancersRaghavendra, 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 |
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2018 Journal Article Corrigendum to "Molecular signatures in breast cancer" [Methods 131 (2017) 135-146]Lal, Samir, McCart Reed, Amy E., de Luca, Xavier M. and Simpson, Peter T. (2018). Corrigendum to "Molecular signatures in breast cancer" [Methods 131 (2017) 135-146]. Methods, 164-165, 120-120. doi: 10.1016/j.ymeth.2018.01.007 |
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2018 Journal Article The Brisbane Breast BankMcCart 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 |
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2017 Journal Article Molecular signatures in breast cancerLal, 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 |
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2017 Journal Article Multidimensional phenotyping of breast cancer cell lines to guide preclinical researchSaunus, 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 |
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2017 Journal Article Next-generation sequencing of endobronchial ultrasound transbronchial needle aspiration specimens in lung cancerFielding, 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 |
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2017 Journal Article HRDetect is a predictor of BRCA1 and BRCA2 deficiency based on mutational signaturesDavies, 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. ... 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 |
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2017 Journal Article Flipping pathology: our experience at an Australian medical schoolKoteeswaran, 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, 27 (2), 409-415. doi: 10.1007/s40670-017-0406-4 |
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2017 Journal Article A somatic-mutational process recurrently duplicates germline susceptibility loci and tissue-specific super-enhancers in breast cancersGlodzik, 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 |
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2016 Journal Article Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltrationSmid, 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 ... Martens, John W. M. (2016). Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltration. Nature Communications, 7 (1) 12910, 12910.1-12910.9. doi: 10.1038/ncomms12910 |
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2016 Journal Article Integrating multi-omics data to dissect mechanisms of DNA repair dysregulation in breast cancerLiu, 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 (1) 34000, 34000.1-34000.11. doi: 10.1038/srep34000 |
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2016 Journal Article Landscape of somatic mutations in 560 breast cancer whole-genome sequencesNik-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. ... Stratton, Michael R. (2016). Landscape of somatic mutations in 560 breast cancer whole-genome sequences. Nature, 534 (7605), 47-+. doi: 10.1038/nature17676 |
