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2018

Journal Article

Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas

Way, Gregory P., Sanchez-Vega, Francisco, La, Konnor, Armenia, Joshua, Chatila, Walid K., Luna, Augustin, Sander, Chris, Cherniack, Andrew D., Mina, Marco, Ciriello, Giovanni, Schultz, Nikolaus, Sanchez, Yolanda, Greene, Casey S., The Cancer Genome Atlas Research Network and Yang, Ian (2018). Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas. Cell Reports, 23 (1), 172-180.e3. doi: 10.1016/j.celrep.2018.03.046

Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas

2018

Journal Article

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Chiu, Hua-Sheng, Somvanshi, Sonal, Patel, Ektaben, Chen, Ting-Wen, Singh, Vivek P., Zorman, Barry, Patil, Sagar L., Pan, Yinghong, Chatterjee, Sujash S., Sood, Anil K., Gunaratne, Preethi H., Sumazin, Pavel, The Cancer Genome Atlas Research Network and Yang, Ian (2018). Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context. Cell Reports, 23 (1), 297-312.e12. doi: 10.1016/j.celrep.2018.03.064

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

2018

Journal Article

Systematic Analysis of Splice-Site-Creating Mutations in Cancer

Jayasinghe, Reyka G., Cao, Song, Gao, Qingsong, Wendl, Michael C., Vo, Nam Sy, Reynolds, Sheila M., Zhao, Yanyan, Climente-Gonzalez, Hector, Chai, Shengjie, Wang, Fang, Varghese, Rajees, Huang, Mo, Liang, Wen-Wei, Wyczalkowski, Matthew A., Sengupta, Sohini, Li, Zhi, Payne, Samuel H., Fenyo, David, Miner, Jeffrey H., Walter, Matthew J., Vincent, Benjamin, Eyras, Eduardo, Chen, Ken, Shmulevich, Ilya, Chen, Feng, Ding, Li, The Cancer Genome Atlas Research Network and Yang, Ian (2018). Systematic Analysis of Splice-Site-Creating Mutations in Cancer. Cell Reports, 23 (1), 270-281.e3. doi: 10.1016/j.celrep.2018.03.052

Systematic Analysis of Splice-Site-Creating Mutations in Cancer

2018

Journal Article

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

Campbell, Joshua D., Yau, Christina, Bowlby, Reanne, Liu, Yuexin, Brennan, Kevin, Fan, Huihui, Taylor, Alison M., Wang, Chen, Walter, Vonn, Akbani, Rehan, Byers, Lauren Averett, Creighton, Chad J., Coarfa, Cristian, Shih, Juliann, Cherniack, Andrew D., Gevaert, Olivier, Prunello, Marcos, Shen, Hui, Anur, Pavana, Chen, Jianhong, Cheng, Hui, Hayes, D. Neil, Bullman, Susan, Pedamallu, Chandra Sekhar, Ojesina, Akinyemi I., Sadeghi, Sara, Mungall, Karen L., Robertson, A. Gordon, Benz, Christopher ... Yang, Ian (2018). Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas. Cell Reports, 23 (1), 194-212.e6. doi: 10.1016/j.celrep.2018.03.063

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

2018

Journal Article

The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma

Ricketts, Christopher J., de Cubas, Aguirre A., Fan, Huihui, Smith, Christof C., Lang, Martin, Reznik, Ed, Bowlby, Reanne, Gibb, Ewan A., Akbani, Rehan, Beroukhim, Rameen, Bottaro, Donald P., Choueiri, Toni K., Gibbs, Richard A., Godwin, Andrew K., Haake, Scott, Hakimi, A. Ari, Henske, Elizabeth P., Hsieh, James J., Ho, Thai H., Kanchi, Rupa S., Krishnan, Bhavani, Kwaitkowski, David J., Lui, Wembin, Merino, Maria J., Mills, Gordon B., Myers, Jerome, Nickerson, Michael L., Reuter, Victor E., Schmidt, Laura S. ... Yang, Ian (2018). The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma. Cell Reports, 23 (1), 313-326.e5. doi: 10.1016/j.celrep.2018.03.075

The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma

2018

Journal Article

Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines

Ellrott, Kyle, Bailey, Matthew H., Saksena, Gordon, Covington, Kyle R., Kandoth, Cyriac, Stewart, Chip, Hess, Julian, Ma, Singer, Chiotti, Kami E., McLellan, Michael, Sofia, Heidi J., Hutter, Carolyn, Getz, Gad, Wheeler, David, Ding, Li, The Cancer Genome Atlas Research Network and Yang, Ian (2018). Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines. Cell Systems, 6 (3), 271-281.e7. doi: 10.1016/j.cels.2018.03.002

Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines

2018

Journal Article

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Schaub, Franz X., Dhankani, Varsha, Berger, Ashton C., Trivedi, Mihir, Richardson, Anne B., Shaw, Reid, Zhao, Wei, Zhang, Xiaoyang, Ventura, Andrea, Liu, Yuexin, Ayer, Donald E., Hurlin, Peter J., Cherniack, Andrew D., Eisenman, Robert N., Bernard, Brady, Grandori, Carla, The Cancer Genome Atlas Network and Yang, Ian (2018). Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas. Cell Systems, 6 (3), 282-300.e2. doi: 10.1016/j.cels.2018.03.003

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

2018

Journal Article

Editorial on PanCan study

Marshall, Henry M., Yang, Ian A., Bowman, Rayleen V. and Fong, Kwun M. (2018). Editorial on PanCan study. Translational Lung Cancer Research, 7 (Suppl 1), S57-S59. doi: 10.21037/tlcr.2018.01.17

Editorial on PanCan study

2018

Conference Publication

Management of acute COPD exacerbations: Do we follow the guidelines?

Cousins, J., Wood-Baker, R., Wark, P., Yang, I., Hutchinson, A., Sajkov, D., Gibson, P. and Mcdonald, V. (2018). Management of acute COPD exacerbations: Do we follow the guidelines?. The Australia & New Zealand Society of Respiratory Science and The Thoracic Society of Australia and New Zealand (ANZSRS/TSANZ) Annual Scientific Meeting, Adelaide, Australia, 23–27 March 2018. Hoboken, NJ United States: Wiley.

Management of acute COPD exacerbations: Do we follow the guidelines?

2018

Journal Article

The contribution of respiratory microbiome analysis to a treatable traits model of care

Taylor, Steven L., O'Farrell, Hannah E., Simpson, Jodie L., Yang, Ian A. and Rogers, Geraint B. (2018). The contribution of respiratory microbiome analysis to a treatable traits model of care. Respirology, 24 (1), 19-28. doi: 10.1111/resp.13411

The contribution of respiratory microbiome analysis to a treatable traits model of care

2018

Conference Publication

Primary human bronchial epithelial cell responses to diesel and novel biodiesel emissions

Vaughan, Annalicia, Stevanovic, Svetlana, Jafari, Mohammad, Bowman, Rayleen, Fong, Kwun, Ristovski, Zoran and Yang, Ian (2018). Primary human bronchial epithelial cell responses to diesel and novel biodiesel emissions. 28th International Congress of the European Respiratory Society (ERS), Paris, France, 15-19 September 2018. Lausanne, Switzerland: European Respiratory Society. doi: 10.1183/13993003.congress-2018.PA4243

Primary human bronchial epithelial cell responses to diesel and novel biodiesel emissions

2018

Conference Publication

Association between bacterial load and inflammatory gene expression in COPD exacerbations

O'Farrell, Hannah, Shaw, Janet, Bowman, Rayleen, Fong, Kwun and Yang, Ian (2018). Association between bacterial load and inflammatory gene expression in COPD exacerbations. 28th International Congress of the European-Respiratory-Society (ERS), Paris, France, 15-19 September 2018. Lausanne, Switzerland: European Respiratory Society. doi: 10.1183/13993003.congress-2018.PA3864

Association between bacterial load and inflammatory gene expression in COPD exacerbations

2018

Conference Publication

Sputum biospecimen quality and suitability for microbiome characterisation in COPD

Shaw, Janet, O'Farrell, Hannah, Ferry, Olivia, Fung, Pamela, Courtney, Deborah, Bowman, Rayleen, Fong, Kwun and Yang, Ian (2018). Sputum biospecimen quality and suitability for microbiome characterisation in COPD. 28th International Congress of the European-Respiratory-Society (ERS), Paris, France, 15-19 September 2018. Lausanne, Switzerland: European Respiratory Society. doi: 10.1183/13993003.congress-2018.PA5304

Sputum biospecimen quality and suitability for microbiome characterisation in COPD

2017

Journal Article

COPD-X australian and New Zealand guidelines for the diagnosis and management of chronic obstructive pulmonary disease: 2017 update

Yang, Ian A., Brown, Juliet L., George, Johnson, Jenkins, Sue, McDonald, Christine F., McDonald, Vanessa M., Phillips, Kirsten, Smith, Brian J., Zwar, Nicholas A. and Dabscheck, Eli (2017). COPD-X australian and New Zealand guidelines for the diagnosis and management of chronic obstructive pulmonary disease: 2017 update. Medical Journal of Australia, 207 (10), 436-442. doi: 10.5694/mja17.00686

COPD-X australian and New Zealand guidelines for the diagnosis and management of chronic obstructive pulmonary disease: 2017 update

2017

Journal Article

The effect of different radiological models on diagnostic accuracy and lung cancer screening performance

Marshall, Henry M., Zhao, Henry, Bowman, Rayleen V., Passmore, Linda H., McCaul, Elizabeth M., Yang, Ian A. and Fong, Kwun M. (2017). The effect of different radiological models on diagnostic accuracy and lung cancer screening performance. Thorax, 72 (12), 1147-1150. doi: 10.1136/thoraxjnl-2016-209624

The effect of different radiological models on diagnostic accuracy and lung cancer screening performance

2017

Journal Article

Ultrafine particle transport and deposition in a large scale 17-generation lung model

Islam, Mohammad S., Saha, Suvash C., Sauret, Emilie, Gemci, Tevfik, Yang, Ian A. and Gu, Y. T. (2017). Ultrafine particle transport and deposition in a large scale 17-generation lung model. Journal of Biomechanics, 64, 16-25. doi: 10.1016/j.jbiomech.2017.08.028

Ultrafine particle transport and deposition in a large scale 17-generation lung model

2017

Journal Article

Is Digital Tomosynthesis on Par With Computed Tomography for the Detection and Measurement of Pulmonary Nodules?

Lee, Xiang Wen, Marshall, Henry M., Leong, Steven C., O'Rourke, Rachael L., Steinke, Karin, Mirjalili, Negar, Bowman, Rayleen V., Yang, Ian A. and Fong, Kwun M. (2017). Is Digital Tomosynthesis on Par With Computed Tomography for the Detection and Measurement of Pulmonary Nodules?. Journal of Thoracic Imaging, 32 (6), W67-W68. doi: 10.1097/RTI.0000000000000298

Is Digital Tomosynthesis on Par With Computed Tomography for the Detection and Measurement of Pulmonary Nodules?

2017

Journal Article

RE: Proportion of Never-Smoker Non-Small Cell Lung Cancer Patients at Three Diverse Institutions

Page, Barbara J, Bowman, Rayleen V, Yang, Ian A and Fong, Kwun M (2017). RE: Proportion of Never-Smoker Non-Small Cell Lung Cancer Patients at Three Diverse Institutions. Journal of the National Cancer Institute, 110 (4), 432-432. doi: 10.1093/jnci/djx216

RE: Proportion of Never-Smoker Non-Small Cell Lung Cancer Patients at Three Diverse Institutions

2017

Journal Article

Ist eine thrombophilie-untersuchung bei patienten mit venöser thromboembolie notwendig?

Kudo, M., Lee, H. L., Yang, I. A. and Masel, P. J. (2017). Ist eine thrombophilie-untersuchung bei patienten mit venöser thromboembolie notwendig?. Vasomed, 29 (5).

Ist eine thrombophilie-untersuchung bei patienten mit venöser thromboembolie notwendig?

2017

Journal Article

Effect of azithromycin on asthma exacerbations and quality of life in adults with persistent uncontrolled asthma (AMAZES): a randomised, double-blind, placebo-controlled trial

Gibson, Peter G., Yang, Ian A., Upham, John W., Reynolds, Paul N., Hodge, Sandra, James, Alan L., Jenkins, Christine, Peters, Matthew J., Marks, Guy B., Baraket, Melissa, Powell, Heather, Taylor, Steven L., Leong, Lex E. X., Rogers, Geraint B. and Simpson, Jodie L. (2017). Effect of azithromycin on asthma exacerbations and quality of life in adults with persistent uncontrolled asthma (AMAZES): a randomised, double-blind, placebo-controlled trial. The Lancet, 390 (10095), 659-668. doi: 10.1016/S0140-6736(17)31281-3

Effect of azithromycin on asthma exacerbations and quality of life in adults with persistent uncontrolled asthma (AMAZES): a randomised, double-blind, placebo-controlled trial