Serum microRNA biomarkers for detection of non-small cell lung cancer von Hennessey, Patrick T, Sanford, Tiffany, Choudhary, Ashish, Mydlarz, Wojciech W, Brown, David, Adai, Alex Tamas, Ochs, Michael F, Ahrendt, Steven A, Mambo, Elizabeth, Califano, Joseph A

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Enter the Matrix: Factorization Uncovers Knowledge from Omics von Stein-O’Brien, Genevieve L., Arora, Raman, Culhane, Aedin C., Favorov, Alexander V., Garmire, Lana X., Greene, Casey S., Goff, Loyal A., Li, Yifeng, Ngom, Aloune, Ochs, Michael F., Xu, Yanxun, Fertig, Elana J.

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Evaluating optimal therapy robustness by virtual expansion of a sample population, with a case study in cancer immunotherapy von Barish, Syndi, Ochs, Michael F., Sontag, Eduardo D., Gevertz, Jana L.

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Activation of the NOTCH Pathway in Head and Neck Cancer von WENYUE SUN, GAYKALOVA, Daria A, SUN AHN, FERTIG, Elana, SIDRANSKY, David, HOUGHTON, Jeffery, BUDDAVARAPU, Kalyan, SANFORD, Tiffany, CHOUDHARY, Ashish, DARDEN, Will, ADAI, Alex, LATHAM, Gary, OCHS, Michael F, BISHOP, Justin, SHARMA, Rajni, WESTRA, William H, HENNESSEY, Patrick, CHUNG, Christine H, CALIFANO, Joseph A, MAMBO, Elizabeth, ARNAOUTAKIS, Demetri, YAN LIU, LOYO, Myriam, AGRAWAL, Nishant, HOWARD, Jason, RYAN LI

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Novel insight into mutational landscape of head and neck squamous cell carcinoma von Gaykalova, Daria A, Mambo, Elizabeth, Choudhary, Ashish, Houghton, Jeffery, Buddavarapu, Kalyan, Sanford, Tiffany, Darden, Will, Adai, Alex, Hadd, Andrew, Latham, Gary, Danilova, Ludmila V, Bishop, Justin, Li, Ryan J, Westra, William H, Hennessey, Patrick, Koch, Wayne M, Ochs, Michael F, Califano, Joseph A, Sun, Wenyue

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Promoter methylation in head and neck squamous cell carcinoma cell lines is significantly different than methylation in primary tumors and xenografts von Hennessey, Patrick T, Ochs, Michael F, Mydlarz, Wojciech W, Hsueh, Wayne, Cope, Leslie, Yu, Wayne, Califano, Joseph A

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Expression microarray analysis reveals alternative splicing of LAMA3 and DST genes in head and neck squamous cell carcinoma von Li, Ryan, Ochs, Michael F, Ahn, Sun Mi, Hennessey, Patrick, Tan, Marietta, Soudry, Ethan, Gaykalova, Daria A, Uemura, Mamoru, Brait, Mariana, Shao, Chunbo, Westra, William, Bishop, Justin, Fertig, Elana J, Califano, Joseph A

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Coordinated activation of candidate proto-oncogenes and cancer testes antigens via promoter demethylation in head and neck cancer and lung cancer von Smith, Ian M, Glazer, Chad A, Mithani, Suhail K, Ochs, Michael F, Sun, Wenyue, Bhan, Sheetal, Vostrov, Alexander, Abdullaev, Ziedulla, Lobanenkov, Victor, Gray, Andrew, Liu, Chunyan, Chang, Steven S, Ostrow, Kimberly L, Westra, William H, Begum, Shahnaz, Dhara, Mousumi, Califano, Joseph

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Many ways to land upright: novel righting strategies allow spotted lanternfly nymphs to land on diverse substrates von Kane, Suzanne Amador, Bien, Theodore, Contreras-Orendain, Luis, Ochs, Michael F., Tonia Hsieh, S.

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Correction: Novel Insight into Mutational Landscape of Head and Neck Squamous Cell Carcinoma von Gaykalova, Daria A, Mambo, Elizabeth, Choudhary, Ashish, Houghton, Jeffery, Buddavarapu, Kalyan, Sanford, Tiffany, Darden, Will, Adai, Alex, Hadd, Andrew, Latham, Gary, Danilova, Ludmila V, Bishop, Justin, Li, Ryan J, Westra, William H, Hennessey, Patrick, Koch, Wayne M, Ochs, Michael F, Califano, Joseph A, Sun, Wenyue

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LS-NMF: a modified non-negative matrix factorization algorithm utilizing uncertainty estimates von Wang, Guoli, Kossenkov, Andrew V, Ochs, Michael F

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Preferential activation of the hedgehog pathway by epigenetic modulations in HPV negative HNSCC identified with meta-pathway analysis von Fertig, Elana J, Markovic, Ana, Danilova, Ludmila V, Gaykalova, Daria A, Cope, Leslie, Chung, Christine H, Ochs, Michael F, Califano, Joseph A

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Pathway-specific differences between tumor cell lines and normal and tumor tissue cells von Ertel, Adam, Verghese, Arun, Byers, Stephen W, Ochs, Michael, Tozeren, Aydin

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CoGAPS: an R/C++ package to identify patterns and biological process activity in transcriptomic data von Fertig, Elana J., Ding, Jie, Favorov, Alexander V., Parmigiani, Giovanni, Ochs, Michael F.

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Integrative discovery of epigenetically derepressed cancer testis antigens in NSCLC von Glazer, Chad A, Smith, Ian M, Ochs, Michael F, Begum, Shahnaz, Westra, William, Chang, Steven S, Sun, Wenyue, Bhan, Sheetal, Khan, Zubair, Ahrendt, Steven, Califano, Joseph A

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ZNF-mediated resistance to imatinib mesylate in gastrointestinal stromal tumor von Rink, Lori, Ochs, Michael F, Zhou, Yan, von Mehren, Margaret, Godwin, Andrew K

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NF‐κB and stat3 transcription factor signatures differentiate HPV‐positive and HPV‐negative head and neck squamous cell carcinoma von Gaykalova, Daria A., Manola, Judith B., Ozawa, Hiroyuki, Zizkova, Veronika, Morton, Kathryn, Bishop, Justin A., Sharma, Rajni, Zhang, Chi, Michailidi, Christina, Considine, Michael, Tan, Marietta, Fertig, Elana J., Hennessey, Patrick T., Ahn, Julie, Koch, Wayne M., Westra, William H., Khan, Zubair, Chung, Christine H., Ochs, Michael F., Califano, Joseph A.

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NF-[kappa]B and stat3 transcription factor signatures differentiate HPV-positive and HPV-negative head and neck squamous cell carcinoma von Gaykalova, Daria A, Manola, Judith B, Ozawa, Hiroyuki, Zizkova, Veronika, Morton, Kathryn, Bishop, Justin A, Sharma, Rajni, Zhang, Chi, Michailidi, Christina, Considine, Michael, Tan, Marietta, Fertig, Elana J, Hennessey, Patrick T, Ahn, Julie, Koch, Wayne M, Westra, William H, Khan, Zubair, Chung, Christine H, Ochs, Michael F, Califano, Joseph A

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Splice Expression Variation Analysis (SEVA) for inter-tumor heterogeneity of gene isoform usage in cancer von Afsari, Bahman, Guo, Theresa, Considine, Michael, Florea, Liliana, Kagohara, Luciane T, Stein-O'Brien, Genevieve L, Kelley, Dylan, Flam, Emily, Zambo, Kristina D, Ha, Patrick K, Geman, Donald, Ochs, Michael F, Califano, Joseph A, Gaykalova, Daria A, Favorov, Alexander V, Fertig, Elana J

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Two Clinical Phenotypes in Polycythemia Vera von Spivak, Jerry L, Considine, Michael, Williams, Donna M, Talbot, Conover C, Rogers, Ophelia, Moliterno, Alison R, Jie, Chunfa, Ochs, Michael F

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