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2017 Journal Article Corrigendum: Whole-genome landscape of pancreatic neuroendocrine tumoursScarpa, Aldo, Chang, David K., Nones, Katia, Corbo, Vincenzo, Patch, Ann-Marie, Bailey, Peter, Lawlor, Rita T., Johns, Amber L., Miller, David K., Mafficini, Andrea, Rusev, Borislav, Scardoni, Maria, Antonello, Davide, Barbi, Stefano, Sikora, Katarzyna O., Cingarlini, Sara, Vicentini, Caterina, McKay, Skye, Quinn, Michael C J, Bruxner, Timothy J C, Christ, Angelika N., Harliwong, Ivon, Idrisoglu, Senel, McLean, Suzanne, Nourse, Craig, Nourbakhsh, Ehsan, Wilson, Peter J., Anderson, Matthew J., Fink, J Lynn ... Grimmond, Sean M (2017). Corrigendum: Whole-genome landscape of pancreatic neuroendocrine tumours. Nature, 550 (7677), 548-548. doi: 10.1038/nature24026 |
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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 Whole-genome landscapes of major melanoma subtypesHayward, Nicholas K., Wilmott, James S., Waddell, Nicola, Johansson, Peter A., Field, Matthew A., Nones, Katia, Patch, Ann-Marie, Kakavand, Hojabr, Alexandrov, Ludmil B., Burke, Hazel, Jakrot, Valerie, Kazakoff, Stephen, Holmes, Oliver, Leonard, Conrad, Sabarinathan, Radhakrishnan, Mularoni, Loris, Wood, Scott, Xu, Qinying, Waddell, Nick, Tembe, Varsha, Pupo, Gulietta M., De Paoli-Iseppi, Ricardo, Vilain, Ricardo E., Shang, Ping, Lau, Loretta M. S., Dagg, Rebecca A., Schramm, Sarah-Jane, Pritchard, Antonia, Dutton-Regester, Ken ... Mann, Graham J. (2017). Whole-genome landscapes of major melanoma subtypes. Nature, 545 (7653), 175-180. doi: 10.1038/nature22071 |
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2017 Journal Article Lost in translation: returning germline genetic results in genome-scale cancer researchJohns, Amber L., McKay, Skye H., Humphris, Jeremy L., Pinese, Mark, Chantrill, Lorraine A., Mead, R. Scott, Tucker, Katherine, Andrews, Lesley, Goodwin, Annabel, Leonard, Conrad, High, Hilda A., Nones, Katia, Patch, Ann-Marie, Merrett, Neil D., Pavlakis, Nick, Kassahn, Karin S., Samra, Jaswinder S., Miller, David K., Chang, David K., Pajic, Marina, Pearson, John V., Grimmond, Sean M., Waddell N., Waddell, Nicola, Zeps, Nikolajs, Gill, Anthony J., Biankin, Andrew V., Johns, Amber L., Gill, Anthony J. ... Jamieson, Nigel B. (2017). Lost in translation: returning germline genetic results in genome-scale cancer research. Genome Medicine, 9 (1) 41. doi: 10.1186/s13073-017-0430-4 |
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2017 Journal Article Whole-genome landscape of pancreatic neuroendocrine tumoursScarpa, Aldo, Chang, David K., Nones, Katia, Corbo, Vincenzo, Patch, Ann-Marie, Bailey, Peter, Lawlor, Rita T., Johns, Amber L., Miller, David K., Mafficini, Andrea, Rusev, Borislav, Scardoni, Maria, Antonello, Davide, Barbi, Stefano, Sikora, Katarzyna O., Cingarlini, Sara, Vicentini, Caterina, McKay, Skye, Quinn, Michael C.J., Bruxner, Timothy J.C., Christ, Angelika N., Harliwong, Ivon, Idrisoglu, Senel, McLean, Suzanne, Nourse, Craig, Nourbakhsh, Ehsan, Wilson, Peter J., Anderson, Matthew J., Fink, J. Lynn ... Grimmond, Sean M. (2017). Whole-genome landscape of pancreatic neuroendocrine tumours. Nature, 543 (7643), 65-71. doi: 10.1038/nature21063 |
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2017 Journal Article DNA methylation in schizophrenia in different patient-derived cell typesVitale, Alejandra M., Matigian, Nicholas A., Cristino, Alexandre S., Nones, Katia, Ravishankar, Sugandha, Bellette, Bernadette, Fan, Yongjun, Wood, Stephen A., Wolvetang, Ernst and Mackay-Sim, Alan (2017). DNA methylation in schizophrenia in different patient-derived cell types. Schizophrenia, 3 (1) 6, 1-11. doi: 10.1038/s41537-016-0006-0 |
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2017 Journal Article Hypermutation in pancreatic cancerHumphris, Jeremy L., Patch, Ann-Marie, Nones, Katia, Bailey, Peter J., Johns, Amber L., McKay, Skye, Chang, David K., Miller, David K., Pajic, Marina, Kassahn, Karin S., Quinn, Michael C. J., Bruxner, Timothy J. C., Christ, Angelika N., Harliwong, Ivon, Idrisoglu, Senel, Manning, Suzanne, Nourse, Craig, Nourbakhsh, Ehsan, Stone, Andrew, Wilson, Peter J., Anderson, Matthew, Fink, J. Lynn, Holmes, Oliver, Kazakoff, Stephen, Leonard, Conrad, Newell, Felicity, Waddell, Nick, Wood, Scott, Mead, Ronald S. ... Biankin, Andrew V. (2017). Hypermutation in pancreatic cancer. Gastroenterology, 152 (1), 68-74.e2. doi: 10.1053/j.gastro.2016.09.060 |
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2016 Journal Article Identification of the CIMP-like subtype and aberrant methylation of members of the chromosomal segregation and spindle assembly pathways in esophageal adenocarcinomaKrause, Lutz, Nones, Katia , Loffler, Kelly A., Nancarrow, Derek, Oey, Harald , Tang, Yue Hang, Wayte, Nicola J., Patch, Ann Marie, Patel, Kalpana , Brosda, Sandra, Manning, Suzanne, Lampe, Guy, Clouston, Andrew, Thomas, Janine, Stoye, Jens, Hussey, Damian J., Watson, David I., Lord, Reginald V., Phillips, Wayne A., Gotley, David, Smithers, B. Mark, Whiteman, David C., Hayward, Nicholas K., Grimmond, Sean M., Waddell, Nicola and Barbour, Andrew P. (2016). Identification of the CIMP-like subtype and aberrant methylation of members of the chromosomal segregation and spindle assembly pathways in esophageal adenocarcinoma. Carcinogenesis, 37 (4), 356-365. doi: 10.1093/carcin/bgw018 |
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2016 Journal Article Mutational signatures in esophageal adenocarcinoma define etiologically distinct subgroups with therapeutic relevanceSecrier, Maria, Li, Xiaodun, De Silva, Nadeera, Eldridge, Matthew D., Contino, Gianmarco, Bornschein, Jan, Macrae, Shona, Grehan, Nicola, O'Donovan, Maria, Miremadi, Ahmad, Yang, Tsun-Po, Bower, Lawrence, Chettouh, Hamza, Crawte, Jason, Galeano-Dalmau, Núria, Grabowska, Anna, Saunders, John, Underwood, Tim, Waddell, Nicola, Barbour, Andrew P., Nutzinger, Barbara, Achilleos, Achilleas, Edwards, Paul A. W., Lynch, Andy G., Tavare, Simon, Fitzgerald, Rebecca C., Noorani, Ayesha, Elliott, Rachael Fels, Weaver, Jamie ... Grimmond, Sean M. (2016). Mutational signatures in esophageal adenocarcinoma define etiologically distinct subgroups with therapeutic relevance. Nature Genetics, 48 (10), 1131-1141. doi: 10.1038/ng.3659 |
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2016 Journal Article Point mutations in Exon 1B of APC Reveal Gastric Adenocarcinoma and Proximal Polyposis of the Stomach as a Familial Adenomatous Polyposis VariantLi, 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 ... 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 |
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2016 Journal Article Quantitative trait loci with sex-specific effects for internal organs weights and hematocrit value in a broiler-layer crossMoura, A. S. A. M. T., Ledur, M. C., Boschiero, C., Nones, K., Pinto, L. F. B., Jaenisch, F. R. F., Burt, D. W. and Coutinho, L. L. (2016). Quantitative trait loci with sex-specific effects for internal organs weights and hematocrit value in a broiler-layer cross. Journal of Applied Genetics, 57 (2), 215-224. doi: 10.1007/s13353-015-0325-2 |
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2016 Journal Article Genomic analyses identify molecular subtypes of pancreatic cancerBaile, Peter, Chang, David K., Nones, Katia, Johns, Amber L., Patch, Ann-Marie, Gingras, Marie-Claude, Miller, David K., Christ, Angelika N., Bruxner, Tim J. C., Quinn, Michael C., Nourse, Craig, Murtaugh, L. Charles, Harliwong, Ivon, Idrisoglu, Senel, Manning, Suzanne, Nourbakhsh, Ehsan, Wani, Shivangi, Fink, Lynn, Holmes, Oliver, Chin, Vencssa, Anderson, Matthew J., Kazakoff, Stephen, Leonard, Conrad, Newell, Felicity, Waddell, Nick, Wood, Scott, Xu, Qinying, Wilson, Peter J., Cloonan, Nicole ... Grimmond, Sean M. (2016). Genomic analyses identify molecular subtypes of pancreatic cancer. Nature, 531 (7592), 47-52. doi: 10.1038/nature16965 |
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2015 Journal Article Corrigendum: Whole-genome characterization of chemoresistant ovarian cancerPatch, Ann-Marie, Christie, Elizabeth L., Etemadmoghadam, Dariush, Garsed, Dale W., George, Joshy, Fereday, Sian, Nones, Katia, Cowin, Prue, Alsop, Kathryn, Bailey, Peter J., Kassahn, Karin S., Newell, Felicity, Quinn, Michael C. J., Kazakoff, Stephen, Quek, Kelly, Wilhelm-Benartzi, Charlotte, Curry, Ed, Leong, Huei San, Australian Ovarian Cancer Study Group, Hamilton, Anne, Mileshkin, Linda, Au-Yeung, George, Kennedy, Catherine, Hung, Jillian, Chiew, Yoke-Eng, Harnett, Paul, Friedlander, Michael, Quinn, Michael, Pyman, Jan ... Bowtell, David D. L. (2015). Corrigendum: Whole-genome characterization of chemoresistant ovarian cancer. Nature, 527 (7578), 398-398. doi: 10.1038/nature15716 |
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2015 Journal Article Integrated genomic and transcriptomic analysis of human brain metastases identifies recurrently altered pathways of potential clinical significanceSaunus, 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 ... 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 |
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2015 Journal Article Whole-genome characterization of chemoresistant ovarian cancerPatch, Ann-Marie, Christie, Elizabeth L., Etemadmoghadam, Dariush, Garsed, Dale W., George, Joshy, Fereday, Sian, Nones, Katia, Cowin, Prue, Alsop, Kathryn, Bailey, Peter J., Kassahn, Karin S., Newell, Felicity, Quinn, Michael C. J., Kazakoff, Stephen, Quek, Kelly, Wilhelm-Benartzi, Charlotte, Curry, Ed, Leong, Huei San, The Australian Ovarian Cancer Study Group, Hamilton, Anne, Mileshkin, Linda, Au-Yeung, George, Kennedy, Catherine, Hung, Jillian, Chiew, Yoke-Eng, Harnett, Paul, Friedlander, Michael, Quinn, Michael, Pyman, Jan ... Bowtell, David D. L. (2015). Whole-genome characterization of chemoresistant ovarian cancer. Nature, 521 (7553), 489-494. doi: 10.1038/nature14410 |
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2015 Journal Article Recommendations for Accurate Resolution of Gene and Isoform Allele-Specific Expression in RNA-Seq DataWood, David L. A., Nones, Katia, Steptoe, Anita, Christ, Angelika, Harliwong, Ivon, Newell, Felicity, Bruxner, Timothy J. C., Miller, David, Cloonan, Nicole and Grimmond, Sean M. (2015). Recommendations for Accurate Resolution of Gene and Isoform Allele-Specific Expression in RNA-Seq Data. PLoS One, 10 (5) 0126911, e0126911-e0126911. doi: 10.1371/journal.pone.0126911 |
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2015 Journal Article PGTools: a software suite for proteogenomic data analysis and visualizationNagaraj, Shiv Hiriyur, Waddell, Nicola, Madugundu, Anil K., Wood, Scott, Jones, Alun, Mandyam, Ramya, Nones, Katia, Pearson, John and Grimmond, Sean M. (2015). PGTools: a software suite for proteogenomic data analysis and visualization. Journal of Proteome Research, 14 (5), 2255-2266. doi: 10.1021/acs.jproteome.5b00029 |
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2015 Journal Article Whole genomes redefine the mutational landscape of pancreatic cancerWaddell, Nicola, Pajic, Marina, Patch, Anne-Marie, Chang, David K, Kassahn, Karin S, Bailey, Peter, Johns, Amber L, Miller, David, Nones, Katia, Quek, Kelly, Quinn, Michael C. J, Robertson, Alan J, Fadlullah, Muhammad Z.H, Bruxner, Tim J.C, Christ, Angelika N, Harliwong, Ivon, Idrisoglu, Senel, Manning, Suzanne, Nourse, Craig, Nourbakhsh, Ehsan, Wani, Shivangi, Wilson, Peter J, Markham, Emma, Cloonan, Nicole, Anderson, Matthew J, Fink, J. Lynn, Holmes, Oliver, Kazakoff, Stephen H, Leonard, Conrad ... Grimmond, Sean M (2015). Whole genomes redefine the mutational landscape of pancreatic cancer. Nature, 518 (7540), 495-501. doi: 10.1038/nature14169 |
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2015 Journal Article Genetic parameters and mapping quantitative trait loci associated with tibia traits in broilersRagognetti, B.N.N., Stafuzza, N.B., da Silva, T.B.R., Chud, T.C.S., Grupioni, N.V., Cruz, V.A.R., Peixoto, J.O., Nones, K., Ledur, M.C. and Munari, D.P. (2015). Genetic parameters and mapping quantitative trait loci associated with tibia traits in broilers. Genetics and Molecular Research, 14 (4), 17544-17554. doi: 10.4238/2015.december.21.27 |
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2014 Journal Article Genomic catastrophes frequently arise in esophageal adenocarcinoma and drive tumorigenesisNones, 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. ... Barbour, Andrew P. (2014). Genomic catastrophes frequently arise in esophageal adenocarcinoma and drive tumorigenesis. Nature Communications, 5 (1) 6224, 5224.1-5224.9. doi: 10.1038/ncomms6224 |
