ORegAnno: an open access database and curation system for literature-derived promoters, transcription factor binding sites and regulatory variation von Montgomery, S. B., Griffith, O. L., Sleumer, M. C., Bergman, C. M., Bilenky, M., Pleasance, E. D., Prychyna, Y., Zhang, X., Jones, S. J. M.

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cisRED: a database system for genome-scale computational discovery of regulatory elements von Robertson, G., Bilenky, M., Lin, K., He, A., Yuen, W., Dagpinar, M., Varhol, R., Teague, K., Griffith, O. L., Zhang, X., Pan, Y., Hassel, M., Sleumer, M. C., Pan, W., Pleasance, E. D., Chuang, M., Hao, H., Li, Y. Y., Robertson, N., Fjell, C., Li, B., Montgomery, S. B., Astakhova, T., Zhou, J., Sander, J., Siddiqui, A. S., Jones, S. J. M.

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A SAGE Approach to Discovery of Genes Involved in Autophagic Cell Death von Gorski, Sharon M., Chittaranjan, Suganthi, Pleasance, Erin D., Freeman, J.D., Anderson, Carrie L., Varhol, Richard J., Coughlin, Shaun M., Zuyderduyn, Scott D., Jones, Steven J.M., Marra, Marco A.

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Assessment of SAGE in transcript identification von Pleasance, Erin D, Marra, Marco A, Jones, Steven J M

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Assessment and integration of publicly available SAGE, cDNA microarray, and oligonucleotide microarray expression data for global coexpression analyses von Griffith, Obi L., Pleasance, Erin D., Fulton, Debra L., Oveisi, Mehrdad, Ester, Martin, Siddiqui, Asim S., Jones, Steven J.M.

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Data processing system for high-throughput motif discovery, clustering, co-occurrence, annotation and performance assessment von G. Robertson, M. Bilenky, K. Lin, A. He, W. Yuen, M. Dagpinar, R. Varhol, K. Teague, O. L. Griffith, X. Zhang, Y. Pan, M. Hassel, M. C. Sleumer, W. Pan, E. D. Pleasance, M. Chuang, H. Hao, Y. Y. Li, N. Robertson, C. Fjell, B. Li, S. B. Montgomery, T. Astakhova, J. Zhou, J. Sander, A. S. Siddiqui, S. J. M. Jones

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Database contents and high-level links, from a web user perspective, as of cisRED human v1 von G. Robertson, M. Bilenky, K. Lin, A. He, W. Yuen, M. Dagpinar, R. Varhol, K. Teague, O. L. Griffith, X. Zhang, Y. Pan, M. Hassel, M. C. Sleumer, W. Pan, E. D. Pleasance, M. Chuang, H. Hao, Y. Y. Li, N. Robertson, C. Fjell, B. Li, S. B. Montgomery, T. Astakhova, J. Zhou, J. Sander, A. S. Siddiqui, S. J. M. Jones

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Subsegmental pulmonary embolism diagnosed by computed tomography: incidence and clinical implications. A systematic review and meta‐analysis of the management outcome studies von CARRIER, M., RIGHINI, M., WELLS, P. S., PERRIER, A., ANDERSON, D. R., RODGER, M. A., PLEASANCE, S., LE GAL, G.

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Aspirin or Rivaroxaban for VTE Prophylaxis after Hip or Knee Arthroplasty von Anderson, David R, Dunbar, Michael, Murnaghan, John, Kahn, Susan R, Gross, Peter, Forsythe, Michael, Pelet, Stephane, Fisher, William, Belzile, Etienne, Dolan, Sean, Crowther, Mark, Bohm, Eric, MacDonald, Steven J, Gofton, Wade, Kim, Paul, Zukor, David, Pleasance, Susan, Andreou, Pantelis, Doucette, Steve, Theriault, Chris, Abianui, Abongnwen, Carrier, Marc, Kovacs, Michael J, Rodger, Marc A, Coyle, Doug, Wells, Philip S, Vendittoli, Pascal-Andre

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Whole genome and transcriptome analysis enhances precision cancer treatment options von Pleasance, E., Bohm, A., Williamson, L.M., Nelson, J.M.T., Shen, Y., Bonakdar, M., Titmuss, E., Csizmok, V., Wee, K., Hosseinzadeh, S., Grisdale, C.J., Reisle, C., Taylor, G.A., Lewis, E., Jones, M.R., Bleile, D., Sadeghi, S., Zhang, W., Davies, A., Pellegrini, B., Wong, T., Bowlby, R., Chan, S.K., Mungall, K.L., Chuah, E., Mungall, A.J., Moore, R.A., Zhao, Y., Deol, B., Fisic, A., Fok, A., Regier, D.A., Weymann, D., Schaeffer, D.F., Young, S., Yip, S., Schrader, K., Levasseur, N., Taylor, S.K., Feng, X., Tinker, A., Savage, K.J., Chia, S., Gelmon, K., Sun, S., Lim, H., Renouf, D.J., Jones, S.J.M., Marra, M.A., Laskin, J.

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Identification of somatically acquired rearrangements in cancer using genome-wide massively parallel paired-end sequencing von Edkins, Sarah, Santarius, Thomas, Goodhead, Ian, Edwards, Paul A W, Menzies, Andrew, Bignell, Graham R, Pleasance, Erin D, Stephens, Philip J, O'Meara, Sarah, Stebbings, Lucy A, Hardy, Claire, Brown, Clive, Li, Heng, Turner, Daniel J, Cox, Antony, Campbell, Peter J, Quail, Michael A, Teague, Jon W, Leroy, Catherine, Durbin, Richard, Clee, Christopher M, Futreal, P Andrew, Stratton, Michael R, Hurles, Matthew E

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Comprehensive assignment of roles for Salmonella typhimurium genes in intestinal colonization of food-producing animals von Chaudhuri, Roy R, Morgan, Eirwen, Peters, Sarah E, Pleasance, Stephen J, Hudson, Debra L, Davies, Holly M, Wang, Jinhong, van Diemen, Pauline M, Buckley, Anthony M, Bowen, Alison J, Pullinger, Gillian D, Turner, Daniel J, Langridge, Gemma C, Turner, A Keith, Parkhill, Julian, Charles, Ian G, Maskell, Duncan J, Stevens, Mark P

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Successful targeting of the NRG1 pathway indicates novel treatment strategy for metastatic cancer von Jones, M.R., Lim, H., Shen, Y., Pleasance, E., Ch'ng, C., Reisle, C., Leelakumari, S., Zhao, C., Yip, S., Ho, J., Zhong, E., Ng, T., Ionescu, D., Schaeffer, D.F., Mungall, A.J., Mungall, K.L., Zhao, Y., Moore, R.A., Ma, Y., Chia, S., Ho, C., Renouf, D.J., Gelmon, K., Jones, S.J.M., Marra, M.A., Laskin, J.

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A small-cell lung cancer genome with complex signatures of tobacco exposure von Campbell, Peter J, Pleasance, Erin D, Stephens, Philip J, O'Meara, Sarah, McBride, David J, Meynert, Alison, Jones, David, Lin, Meng-Lay, Beare, David, Lau, King Wai, Greenman, Chris, Varela, Ignacio, Nik-Zainal, Serena, Davies, Helen R, Ordoñez, Gonzalo R, Mudie, Laura J, Latimer, Calli, Edkins, Sarah, Stebbings, Lucy, Chen, Lina, Jia, Mingming, Leroy, Catherine, Marshall, John, Menzies, Andrew, Butler, Adam, Teague, Jon W, Mangion, Jonathon, Sun, Yongming A, McLaughlin, Stephen F, Peckham, Heather E, Tsung, Eric F, Costa, Gina L, Lee, Clarence C, Minna, John D, Gazdar, Adi, Birney, Ewan, Rhodes, Michael D, McKernan, Kevin J, Stratton, Michael R, Futreal, P. Andrew

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Complex landscapes of somatic rearrangement in human breast cancer genomes von Lau, King Wai, Mudie, Laura J, Churcher, Carol, Stratton, Michael R, Silver, Daniel P, van 't Veer, Laura, Børresen-Dale, Anne-Lise, Stebbings, Lucy A, McBride, David J, Martens, John W. M, Simpson, Jared T, Leroy, Catherine, Russnes, Hege E. G, Latimer, Calli, Jia, Mingming, Edkins, Sarah, Natrajan, Rachael, Reis-Filho, Jorge S, Varela, Ignacio, Swerdlow, Harold, Lin, Meng-Lay, Richardson, Andrea L, Pleasance, Erin D, Sieuwerts, Anieta M, Stephens, Philip J, Futreal, P. Andrew, Greenman, Chris D, Burton, John, Langerød, Anita, Quail, Michael A, Foekens, John A, Campbell, Peter J, Teague, Jon W

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A comprehensive catalogue of somatic mutations from a human cancer genome von Teague, Jon, Menzies, Andrew, Ye, Kai, Bauer, Markus J, Mudie, Laura J, Alipaz, Julie, Chen, Lina, Stratton, Michael R, Stebbings, Lucy A, McBride, David J, Gormley, Niall A, Ordóñez, Gonzalo R, Haudenschild, Christian D, Royce, Tom, Carter, Richard J, Schulz-Trieglaff, Ole B, Hims, Matthew M, Kokko-Gonzales, Paula I, Leroy, Catherine, Bentley, David R, Spiridou, Anastassia, Beare, David, Jia, Mingming, Williamson, David, Edkins, Sarah, Grocock, Russell J, Varela, Ignacio, Bignell, Graham R, Lin, Meng-Lay, Pleasance, Erin D, Stephens, Philip J, Szajkowski, Lukasz, Futreal, P. Andrew, Marshall, John, Chin, Lynda, Cox, Anthony J, James, Terena, Greenman, Chris D, Butler, Adam, Ross, Mark T, Campbell, Peter J, Ning, Zemin, Humphray, Sean J, Kingsbury, Zoya, Cheetham, R. Keira

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Removing orbital debris with lasers von Phipps, Claude R., Baker, Kevin L., Libby, Stephen B., Liedahl, Duane A., Olivier, Scot S., Pleasance, Lyn D., Rubenchik, Alexander, Trebes, James E., Victor George, E., Marcovici, Bogdan, Reilly, James P., Valley, Michael T.

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Genome-Wide Profiles of Extra-cranial Malignant Rhabdoid Tumors Reveal Heterogeneity and Dysregulated Developmental Pathways von Chun, Hye-Jung E., Lim, Emilia L., Heravi-Moussavi, Alireza, Saberi, Saeed, Mungall, Karen L., Bilenky, Mikhail, Carles, Annaick, Tse, Kane, Shlafman, Inna, Zhu, Kelsey, Qian, Jenny Q., Palmquist, Diana L., He, An, Long, William, Goya, Rodrigo, Ng, Michelle, LeBlanc, Veronique G., Pleasance, Erin, Thiessen, Nina, Wong, Tina, Chuah, Eric, Zhao, Yong-Jun, Schein, Jacquie E., Gerhard, Daniela S., Taylor, Michael D., Mungall, Andrew J., Moore, Richard A., Ma, Yussanne, Jones, Steven J.M., Perlman, Elizabeth J., Hirst, Martin, Marra, Marco A.

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Comprehensive genomic characterization of squamous cell lung cancers

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Clinical response to nivolumab in an INI1-deficient pediatric chordoma correlates with immunogenic recognition of brachyury von Williamson, Laura M., Rive, Craig M., Di Francesco, Daniela, Titmuss, Emma, Chun, Hye-Jung E., Brown, Scott D., Milne, Katy, Pleasance, Erin, Lee, Anna F., Yip, Stephen, Rosenbaum, Daniel G., Hasselblatt, Martin, Johann, Pascal D., Kool, Marcel, Harvey, Melissa, Dix, David, Renouf, Daniel J., Holt, Robert A., Nelson, Brad H., Hirst, Martin, Jones, Steven J. M., Laskin, Janessa, Rassekh, Shahrad R., Deyell, Rebecca J., Marra, Marco A.

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