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Bioinformatics, ISSN 1367-4803, 11/2018, Volume 34, Issue 22, pp. 3907 - 3914
Abstract Motivation As we move toward an era of precision medicine, the ability to predict patient-specific drug responses in cancer based on molecular... 
BIOCHEMICAL RESEARCH METHODS | SENSITIVITY | ALGORITHMS | MEDICINE | RAF/MEK/ERK PATHWAY | STRATEGIES | CELL LUNG-CANCER | INHIBITION | ONCOLOGY | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | GROWTH | MATHEMATICAL & COMPUTATIONAL BIOLOGY | RESISTANCE
Journal Article
CANCER RESEARCH, ISSN 0008-5472, 01/2018, Volume 78, Issue 1, pp. 290 - 301
Existing cancer driver prediction methods are based on very different assumptions and each of them can detect only a particular subset of driver genes. Here we... 
TRASTUZUMAB | ONCOLOGY | GASTRIC-CANCER | GENOMES | COPY NUMBER | GENES | TUMOR TYPES | IDENTIFICATION | MEDICINE | MISSENSE MUTATIONS | SOMATIC MUTATIONS | Proteins | State of the art | Sensitivity | Genes | Predictions | Mutation | Gene expression | Patients | Subgroups | Cancer
Journal Article
Nature Communications, ISSN 2041-1723, 2019, Volume 10, Issue 1, pp. 1 - 17
Journal Article
by Bailey, Matthew and Bailey, Matthew H and Tokheim, Collin and Porta-Pardo, Eduard and Sengupta, Sohini and Bertrand, Denis and Weerasinghe, Amila and Colaprico, Antonio and Wendl, Michael C and Kim, Jaegil and Reardon, Brendan and Ng, Kwok-Shing and Ng, Patrick Kwok-Shing and Jeong, Kang Jin and Cao, Song and Wang, Jioajiao and Wang, Timothy and Wang, Zhining and Wang, Zixing and Wang, Fang and Wang, Linghua and Wang, Jing and Wang, Min and Gao, Qingsong and Gao, Jianjiong and Gao, Galen F and Liu, Xiuping and Liu, Jia and Liu, Wenbin and Liu, Yuexin and Liu, Eric Minwei and Mularoni, Loris and Rubio-Perez, Carlota and Nagarajan, Niranjan and Cortés-Ciriano, Isidro and Zhou, Wanding and Zhou, Daniel Cui and Liang, Wen-Wei and Liang, Han and Hess, Julian M and Hess, Julian and Yellapantula, Venkata D and Tamborero, David and Gonzalez-Perez, Abel and Suphavilai, Chayaporn and Ko, Jia Yu and Khurana, Ekta and Park, Joong-Won and Park, Peter J and Van Allen, Eliezer M and Caesar-Johnson, Samantha J and Demchok, John A and Felau, Ina and Kasapi, Melpomeni and Ferguson, Martin L and Hutter, Carolyn M and Sofia, Heidi J and Tarnuzzer, Roy and Yang, Ju Dong and Yang, Hannah and Yang, Ian and Yang, Liming and Zenklusen, Jean C and Zhang, Wei and Zhang, Hongzheng and Zhang, Hailei and Zhang, Hongxin and Zhang, Jiexin and Zhang, Jiashan (Julia) and Zhang, Lizhi and Chudamani, Sudha and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Sun, Qiang and Sun, Yichao and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and Gehlenborg, Nils and Getz, Gad and Heiman, David I and Lawrence, Michael S and Lin, Pei and Meier, Sam and Noble, Michael S and Saksena, Gordon and Voet, Doug and Bernard, Brady and Chambwe, Nyasha and Dhankani, Varsha and Knijnenburg, Theo and Kramer, Roger and Leinonen, Kalle and Miller, Michael and Miller, Christopher A and Miller, Judy and Reynolds, Sheila and ... and Canc Genome Atlas Res Network and MC3 Working Grp and MC3 Working Group and Cancer Genome Atlas Research Network
Cell, ISSN 0092-8674, 04/2018, Volume 173, Issue 2, pp. 371 - 385.e18
Identifying molecular cancer drivers is critical for precision oncology. Multiple advanced algorithms to identify drivers now exist, but systematic attempts to... 
structure analysis | mutations of clinical relevance | oncology | driver gene discovery | Biochemistry, Genetics and Molecular Biology(all) | MELANOMA | VARIANTS | SIGNATURES | LANDSCAPE | MICROSATELLITE INSTABILITY | PD-1 BLOCKADE | BIOCHEMISTRY & MOLECULAR BIOLOGY | PATTERNS | OPEN-LABEL | SOMATIC MUTATIONS | DISCOVERY | CELL BIOLOGY | Oncology | driver discovery
Journal Article
BMC Genomics, ISSN 1471-2164, 11/2015, Volume 16, Issue 11, p. S4
Journal Article
by Ding, Li and Bailey, Matthew and Bailey, Matthew H and Porta-Pardo, Eduard and Thorsson, Vesteinn and Colaprico, Antonio and Bertrand, Denis and Gibbs, David L and Gibbs, Richard A and Weerasinghe, Amila and Huang, Kuan-lin and Tokheim, Collin and Cortés-Ciriano, Isidro and Jayasinghe, Reyka and Chen, Amy and Chen, Feng and Chen, Chu and Yu, Lihua and Sun, Qiang and Sun, Yichao and Sun, Sam and Olsen, Catharina and Kim, Jaegil and Taylor, Barry S and Taylor, Alison M and Cherniack, Andrew D and Akbani, Rehan and Suphavilai, Chayaporn and Nagarajan, Niranjan and Stuart, Joshua M and Mills, Gordon B and Wyczalkowski, Matthew A and Vincent, Benjamin G and Hutter, Carolyn M and Zenklusen, Jean C and Zenklusen, Jean Claude and Hoadley, Katherine A and Wendl, Michael C and Shmulevich, llya and Shmulevich, Ilya and Lazar, Alexander J and Wheeler, David A and Getz, Gad and Caesar-Johnson, Samantha J and Demchok, John A and Felau, Ina and Kasapi, Melpomeni and Ferguson, Martin L and Sofia, Heidi J and Tarnuzzer, Roy and Wang, Zhining and Wang, Min and Wang, Jing and Wang, Jioajiao and Wang, Timothy and Wang, Linghua and Yang, Ju Dong and Yang, Hannah and Yang, Ian and Yang, Liming and Zhang, Wei and Zhang, Hongzheng and Zhang, Hailei and Zhang, Hongxin and Zhang, Jiexin and Zhang, Jiashan (Julia) and Zhang, Lizhi and Chudamani, Sudha and Liu, Yuexin and Liu, Xiuping and Liu, Wenbin and Liu, Jia and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and Gehlenborg, Nils and Heiman, David I and Lawrence, Michael S and Lin, Pei and Meier, Sam and Noble, Michael S and Saksena, Gordon and Voet, Doug and Bernard, Brady and Chambwe, Nyasha and Dhankani, Varsha and Knijnenburg, Theo and Kramer, Roger and Leinonen, Kalle and Miller, Michael and Miller, Christopher A and Miller, Judy and Reynolds, Sheila and Broom, Bradley M and Hegde, Apurva M and ... and Cancer Genome Atlas Res Network and Cancer Genome Atlas Research Network and Argonne National Lab. (ANL), Argonne, IL (United States). Advanced Photon Source (APS)
Cell, ISSN 0092-8674, 04/2018, Volume 173, Issue 2, pp. 305 - 320.e10
Journal Article
01/2014, ISBN 9781321284911
In systems biology study, biological networks were used to gain insights into biological systems. While the traditional approach to studying biological... 
Computer science | Bioinformatics
Dissertation
by Bailey, Matthew and Bailey, Matthew H and Tokheim, Collin and Porta-Pardo, Eduard and Sengupta, Sohini and Bertrand, Denis and Weerasinghe, Amila and Colaprico, Antonio and Wendl, Michael C and Kim, Jaegil and Reardon, Brendan and Kwok-Shing Ng, Patrick and Jeong, Kang Jin and Cao, Song and Wang, Jioajiao and Wang, Timothy and Wang, Zhining and Wang, Zixing and Wang, Fang and Wang, Linghua and Wang, Jing and Wang, Min and Gao, Qingsong and Gao, Jianjiong and Gao, Galen F and Liu, Xiuping and Liu, Jia and Liu, Wenbin and Liu, Yuexin and Liu, Eric Minwei and Mularoni, Loris and Rubio-Perez, Carlota and Nagarajan, Niranjan and Cortés-Ciriano, Isidro and Zhou, Wanding and Zhou, Daniel Cui and Liang, Wen-Wei and Liang, Han and Hess, Julian M and Hess, Julian and Yellapantula, Venkata D and Tamborero, David and Gonzalez-Perez, Abel and Suphavilai, Chayaporn and Ko, Jia Yu and Khurana, Ekta and Park, Joong-Won and Park, Peter J and Van Allen, Eliezer M and Caesar-Johnson, Samantha J and Demchok, John A and Felau, Ina and Kasapi, Melpomeni and Ferguson, Martin L and Hutter, Carolyn M and Sofia, Heidi J and Tarnuzzer, Roy and Yang, Ju Dong and Yang, Hannah and Yang, Ian and Yang, Liming and Zenklusen, Jean C and Zhang, Wei and Zhang, Hongzheng and Zhang, Hailei and Zhang, Hongxin and Zhang, Jiexin and Zhang, Jiashan (Julia) and Zhang, Lizhi and Chudamani, Sudha and Lolla, Laxmi and Naresh, Rashi and Pihl, Todd and Sun, Qiang and Sun, Yichao and Wan, Yunhu and Wu, Ye and Cho, Juok and DeFreitas, Timothy and Frazer, Scott and Gehlenborg, Nils and Getz, Gad and Heiman, David I and Lawrence, Michael S and Lin, Pei and Meier, Sam and Noble, Michael S and Saksena, Gordon and Voet, Doug and Bernard, Brady and Chambwe, Nyasha and Dhankani, Varsha and Knijnenburg, Theo and Kramer, Roger and Leinonen, Kalle and Miller, Michael and Miller, Christopher A and Miller, Judy and Reynolds, Sheila and Shmulevich, Ilya and ... and Canc Genome Atlas Res Network and MC3 Working Grp and MC3 Working Group and Cancer Genome Atlas Research Network
Cell, ISSN 0092-8674, 08/2018, Volume 174, Issue 4, pp. 1034 - 1035
Journal Article