Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing

by Wederell, E., Bilenky, M., Cullum, R., Thiessen, N., Dagpinar, M., Delaney, A., Varhol, Richard, Zhao, Y., Zeng, T., Bernier, B., Ingham, M., Hirst, M., Robertson, G., Marra, M., Jones, S., Hoodless, P.
Published 2008

System-level analysis of neuroblastoma tumor-initiating cells implicates AURKB as a novel drug target for neuroblastoma

by Morozova, O., Vojvodic, M., Grinshtein, N., Hansford, L., Blakely, K., Maslova, A., Hirst, M., Cezard, T., Morin, R., Moore, R., Smith, K., Miller, F., Taylor, P., Thiessen, N., Varhol, Richard, Zhao, Y., Jones, S., Moffat, J., Kislinger, T., Moran, M., Kaplan, D., Marra, M.
Published 2010

Conserved role of intragenic DNA methylation in regulating alternative promoters

by Maunakea, A., Nagarajan, R., Bilenky, M., Ballinger, T., Dsouza, C., Fouse, S., Johnson, B., Hong, C., Nielsen, C., Zhao, Y., Turecki, G., Delaney, A., Varhol, Richard, Thiessen, N., Shchors, K., Heine, V., Rowitch, D., Xing, X., Fiore, C., Schillebeeckx, M., Jones, S., Haussler, D., Marra, M., Hirst, M., Wang, T., Costello, J.
Published 2010

De novo assembly and analysis of RNA-seq data

by Robertson, G., Schein, J., Chiu, R., Corbett, R., Field, M., Jackman, S., Mungall, K., Lee, S., Okada, H., Qian, J., Griffith, M., Raymond, A., Thiessen, N., Cezard, T., Butterfield, Y., Newsome, R., Chan, S., She, R., Varhol, Richard, Kamoh, B., Prabhu, A., Tam, A., Zhao, Y., Moore, R., Hirst, M., Marra, M., Jones, S., Hoodless, P., Birol, I.
Published 2010

Barnacle: Detecting and characterizing tandem duplications and fusions in transcriptome assemblies

by Swanson, L., Robertson, G., Mungall, K., Butterfield, Y., Chiu, R., Corbett, R., Docking, T., Hogge, D., Jackman, S., Moore, R., Mungall, A., Nip, K., Parker, J., Qian, J., Raymond, A., Sung, S., Tam, A., Thiessen, N., Varhol, Richard, Wang, S., Yorukoglu, D., Zhao, Y., Hoodless, P., Sahinalp, S., Karsan, A., Birol, I.
Published 2013

Complete genomic landscape of a recurring sporadic parathyroid carcinoma

by Kasaian, K., Wiseman, S., Thiessen, N., Mungall, K., Corbett, R., Qian, J., Nip, K., He, A., Tse, K., Chuah, E., Varhol, Richard, Pandoh, P., McDonald, H., Zeng, T., Tam, A., Schein, J., Birol, I., Mungall, A., Moore, R., Zhao, Y., Hirst, M., Marra, M., Walker, B., Jones, S.
Published 2013

Concurrent CIC mutations, IDH mutations, and 1p/19q loss distinguish oligodendrogliomas from other cancers

by Yip, S., Butterfield, Y., Morozova, O., Chittaranjan, S., Blough, M., An, J., Birol, I., Chesnelong, C., Chiu, R., Chuah, E., Corbett, R., Docking, R., Firme, M., Hirst, M., Jackman, S., Karsan, A., Li, H., Louis, D., Maslova, A., Moore, R., Moradian, A., Mungall, K., Perizzolo, M., Qian, J., Roldan, G., Smith, E., Tamura-Wells, J., Thiessen, N., Varhol, Richard, Weiss, S., Wu, W., Young, S., Zhao, Y., Mungall, A., Jones, S., Morin, G., Chan, J., Cairncross, J., Marra, M.
Published 2012

The cancer genome atlas pan-cancer analysis project

by Weinstein, J., Collisson, E., Mills, G., Shaw, K., Ozenberger, B., Ellrott, K., Sander, C., Stuart, J., Chang, K., Creighton, C., Davis, C., Donehower, L., Drummond, J., Wheeler, D., Ally, A., Balasundaram, M., Birol, I., Butterfield, Y., Chu, A., Chuah, E., Chun, H., Dhalla, N., Guin, R., Hirst, M., Hirst, C., Holt, R., Jones, S., Lee, D., Li, H., Marra, M., Mayo, M., Moore, R., Mungall, A., Robertson, A., Schein, J., Sipahimalani, P., Tam, A., Thiessen, N., Varhol, Richard, Beroukhim, R., Bhatt, A., Brooks, A., Cherniack, A., Freeman, S., Gabriel, S., Helman, E., Jung, J., Meyerson, M., Ojesina, A., Pedamallu, C., Saksena, G., Schumacher, S., Tabak, B., Zack, T., Lander, E., Bristow, C., Hadjipanayis, A., Haseley, P., Kucherlapati, R., Lee, S., Lee, E., Luquette, L., Mahadeshwar, H., Pantazi, A., Parfenov, M., Park, P., Protopopov, A., Ren, X., Santoso, N., Seidman, J., Seth, S., Song, X., Tang, J., Xi, R., Xu, A., Yang, L., Zeng, D., Auman, J., Balu, S., Buda, E.
Published 2013

Comprehensive genomic characterization of squamous cell lung cancers

by Hammerman, P., Voet, D., Lawrence, M., Voet, D., Jing, R., Cibulskis, K., Sivachenko, A., Stojanov, P., McKenna, A., Lander, E., Gabriel, S., Getz, G., Imielinski, M., Helman, E., Hernandez, B., Pho, N., Meyerson, M., Chu, A., Hye-Chun, J., Mungall, A., Pleasance, E., Robertson, A., Sipahimalani, P., Stoll, D., Balasundaram, M., Birol, I., Butterfield, Y., Chuah, E., Coope, R., Corbett, R., Dhalla, N., Guin, R., He, A., Hirst, C., Hirst, M., Holt, R., Lee, D., Li, H., Mayo, M., Moore, R., Mungall, K., Nip, K., Olshen, A., Schein, J., Slobodan, J., Tam, A., Thiessen, N., Varhol, Richard, Zeng, T., Zhao, Y., Jones, S., Marra, M., Saksena, G., Cherniack, A., Schumacher, S., Tabak, B., Carter, S., Nguyen, H., Onofrio, R., Crenshaw, A., Ardlie, K., Beroukhim, R., Winckler, W., Protopopov, A., Zhang, J., Hadjipanayis, A., Lee, S., Xi, R., Yang, L., Ren, X., Zhang, H., Shukla, S., Chen, P., Haseley, P., Lee, E., Chin, L.
Published 2012

Comprehensive molecular characterization of human colon and rectal cancer

by Muzny, D., Bainbridge, M., Chang, K., Dinh, H., Drummond, J., Fowler, G., Kovar, C., Lewis, L., Morgan, M., Newsham, I., Reid, J., Santibanez, J., Shinbrot, E., Trevino, L., Wu, Y., Wang, M., Gunaratne, P., Donehower, L., Creighton, C., Wheeler, D., Gibbs, R., Lawrence, M., Voet, D., Jing, R., Cibulskis, K., Sivachenko, A., Stojanov, P., McKenna, A., Lander, E., Gabriel, S., Ding, L., Fulton, R., Koboldt, D., Wylie, T., Walker, J., Dooling, D., Fulton, L., Delehaunty, K., Fronick, C., Demeter, R., Mardis, E., Wilson, R., Chu, A., Chun, H., Mungall, A., Pleasance, E., Gordon Robertson, A., Stoll, D., Balasundaram, M., Birol, I., Butterfield, Y., Chuah, E., Coope, R., Dhalla, N., Guin, R., Hirst, C., Hirst, M., Holt, R., Lee, D., Li, H., Mayo, M., Moore, R., Schein, J., Slobodan, J., Tam, A., Thiessen, N., Varhol, Richard, Zeng, T., Zhao, Y., Jones, S., Marra, M., Bass, A., Ramos, A., Saksena, G., Cherniack, A., Schumacher, S., Tabak, B., Carter, S., Pho, N., Nguyen, H., Onofrio, R., Crenshaw, A., Ardlie, K.
Published 2012

Comprehensive molecular portraits of human breast tumours

by Koboldt, D., Fulton, R., McLellan, M., Schmidt, H., Kalicki-Veizer, J., McMichael, J., Fulton, L., Dooling, D., Ding, L., Mardis, E., Wilson, R., Ally, A., Balasundaram, M., Butterfield, Y., Carlsen, R., Carter, C., Chu, A., Chuah, E., Chun, H., Coope, R., Dhalla, N., Guin, R., Hirst, C., Hirst, M., Holt, R., Lee, D., Li, H., Mayo, M., Moore, R., Mungall, A., Pleasance, E., Robertson, A., Schein, J., Shafiei, A., Sipahimalani, P., Slobodan, J., Stoll, D., Tam, A., Thiessen, N., Varhol, Richard, Wye, N., Zeng, T., Zhao, Y., Birol, I., Jones, S., Marra, M., Cherniack, A., Saksena, G., Onofrio, R., Pho, N., Carter, S., Schumacher, S., Tabak, B., Hernandez, B., Gentry, J., Nguyen, H., Crenshaw, A., Ardlie, K., Beroukhim, R., Winckler, W., Getz, G., Gabriel, S., Meyerson, M., Chin, L., Kucherlapati, R., Hoadley, K., Auman, J., Fan, C., Turman, Y., Shi, Y., Li, L., Topal, M., He, X., Chao, H., Prat, A., Silva, G., Iglesia, M.
Published 2012

Comprehensive molecular profiling of lung adenocarcinoma: The cancer genome atlas research network

by Collisson, E., Campbell, J., Brooks, A., Berger, A., Lee, W., Chmielecki, J., Beer, D., Cope, L., Creighton, C., Danilova, L., Ding, L., Getz, G., Hammerman, P., Hayes, D., Hernandez, B., Herman, J., Heymach, J., Jurisica, I., Kucherlapati, R., Kwiatkowski, D., Ladanyi, M., Robertson, G., Schultz, N., Shen, R., Sinha, R., Sougnez, C., Tsao, M., Travis, W., Weinstein, J., Wigle, D., Wilkerson, M., Chu, A., Cherniack, A., Hadjipanayis, A., Rosenberg, M., Weisenberger, D., Laird, P., Radenbaugh, A., Ma, S., Stuart, J., Byers, L., Baylin, S., Govindan, R., Meyerson, M., Gabriel, S., Cibulskis, K., Kim, J., Stewart, C., Lichtenstein, L., Lander, E., Lawrence, M., Getz, E., Fulton, R., Fulton, L., McLellan, M., Wilson, R., Ye, K., Fronick, C., Maher, C., Miller, C., Wendl, M., Cabanski, C., Mardis, E., Wheeler, D., Balasundaram, M., Butterfield, Y., Carlsen, R., Chuah, E., Dhalla, N., Guin, R., Hirst, C., Lee, D., Li, H., Mayo, M., Moore, R., Mungall, A., Schein, J., Sipahimalani, P., Tam, A., Varhol, Richard, Robertson, A., Wye, N., Thiessen, N., Holt, R., Jones, S., Marra, M., Imielinski, M., Onofrio, R., Hodis, E., Zack, T., Helman, E.
Published 2014

Subgroup-specific structural variation across 1,000 medulloblastoma genomes

by Northcott, P., Shih, D., Peacock, J., Garzia, L., Sorana Morrissy, A., Zichner, T., Stútz, A., Korshunov, A., Reimand, J., Schumacher, S., Beroukhim, R., Ellison, D., Marshall, C., Lionel, A., MacK, S., Dubuc, A., Yao, Y., Ramaswamy, V., Luu, B., Rolider, A., Cavalli, F., Wang, X., Remke, M., Wu, X., Chiu, R., Chu, A., Chuah, E., Corbett, R., Hoad, G., Jackman, S., Li, Y., Lo, A., Mungall, K., Ming Nip, K., Qian, J., Raymond, A., Thiessen, N., Varhol, Richard, Birol, I., Moore, R., Mungall, A., Holt, R., Kawauchi, D., Roussel, M., Kool, M., Jones, D., Witt, H., Fernandez-L, A., Kenney, A., Wechsler-Reya, R., Dirks, P., Aviv, T., Grajkowska, W., Perek-Polnik, M., Haberler, C., Delattre, O., Reynaud, S., Doz, F., Pernet-Fattet, S., Cho, B., Kim, S., Wang, K., Scheurlen, W., Eberhart, C., Fèvre-Montange, M., Jouvet, A., Pollack, I., Fan, X., Muraszko, K., Yancey Gillespie, G., Di Rocco, C., Massimi, L., Michiels, E., Kloosterhof, N., French, P., Kros, J., Olson, J., Ellenbogen, R., Zitterbart, K., Kren, L., Thompson, R., Cooper, M.
Published 2012

Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia

by Ley, T., Miller, C., Ding, L., Raphael, B., Mungall, A., Robertson, G., Hoadley, K., Triche, T., Laird, P., Baty, J., Fulton, L., Fulton, R., Heath, S., Kalicki-Veizer, J., Kandoth, C., Klco, J., Koboldt, D., Kanchi, K., Kulkarni, S., Lamprecht, T., Larson, D., Lin, G., Lu, C., McLellan, M., McMichael, J., Payton, J., Schmidt, H., Spencer, D., Tomasson, M., Wallis, J., Wartman, L., Watson, M., Welch, J., Wendl, M., Ally, A., Balasundaram, M., Birol, I., Butterfield, Y., Chiu, R., Chu, A., Chuah, E., Chun, H., Corbett, R., Dhalla, N., Guin, R., He, A., Hirst, C., Hirst, M., Holt, R., Jones, S., Karsan, A., Lee, D., Li, H., Marra, M., Mayo, M., Moore, R., Mungall, K., Parker, J., Pleasance, E., Plettner, P., Schein, J., Stoll, D., Swanson, L., Tam, A., Thiessen, N., Varhol, Richard, Wye, N., Zhao, Y., Gabriel, S., Getz, G., Sougnez, C., Zou, L., Leiserson, M., Vandin, F., Wu, H., Applebaum, F., Baylin, S., Akbani, R., Broom, B., Chen, K., Motter, T., Nguyen, K., Weinstein, J., Zhang, N., Ferguson, M., Adams, C., Black, A., Bowen, J., Gastier-Foster, J., Grossman, T., Lichtenberg, T., Wise, L., Davidsen, T., Demchok, J., Mills Shaw, K., Sheth, M., Sofia, H., Yang, L., Downing, J., Eley, G.
Published 2013