Reconstructing cancer genomes from paired-end sequencing data
Oesper, Layla, Ritz, Anna, Aerni, Sarah J, Drebin, Ryan, Raphael, Benjamin J
Published in BMC bioinformatics (19.04.2012)
Published in BMC bioinformatics (19.04.2012)
Get full text
Journal Article
A weighted distance-based approach for deriving consensus tumor evolutionary trees
Guang, Ziyun, Smith-Erb, Matthew, Oesper, Layla
Published in Bioinformatics (Oxford, England) (30.06.2023)
Published in Bioinformatics (Oxford, England) (30.06.2023)
Get full text
Journal Article
Quantifying tumor heterogeneity in whole-genome and whole-exome sequencing data
Oesper, Layla, Satas, Gryte, Raphael, Benjamin J
Published in Bioinformatics (Oxford, England) (15.12.2014)
Published in Bioinformatics (Oxford, England) (15.12.2014)
Get full text
Journal Article
Pan-cancer analysis of whole genomes
Campbell, Peter J, Getz, Gad, Korbel, Jan O, Stuart, Joshua M, Jennings, Jennifer L, Stein, Lincoln D, Perry, Marc D
Published in Nature (London) (06.02.2020)
Published in Nature (London) (06.02.2020)
Get full text
Journal Article
Identifying driver mutations in sequenced cancer genomes: computational approaches to enable precision medicine
Raphael, Benjamin J, Dobson, Jason R, Oesper, Layla, Vandin, Fabio
Published in Genome medicine (30.01.2014)
Published in Genome medicine (30.01.2014)
Get full text
Journal Article
Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
Dentro, Stefan C., Leshchiner, Ignaty, Haase, Kerstin, Wintersinger, Jeff, Deshwar, Amit G., Yu, Kaixian, Rubanova, Yulia, Macintyre, Geoff, Demeulemeester, Jonas, Vázquez-García, Ignacio, Kleinheinz, Kortine, Livitz, Dimitri G., Malikic, Salem, Donmez, Nilgun, Sengupta, Subhajit, Anur, Pavana, Jolly, Clemency, Rosebrock, Daniel, Schumacher, Steven E., Fittall, Matthew, Drews, Ruben M., Yao, Xiaotong, Lee, Juhee, Schlesner, Matthias, Zhu, Hongtu, Adams, David J., McGranahan, Nicholas, Swanton, Charles, Getz, Gad, Boutros, Paul C., Imielinski, Marcin, Beroukhim, Rameen, Sahinalp, S. Cenk, Ji, Yuan, Peifer, Martin, Martincorena, Inigo, Markowetz, Florian, Mustonen, Ville, Yuan, Ke, Gerstung, Moritz, Spellman, Paul T., Wang, Wenyi, Wedge, David C., Dentro, Stefan C., Leshchiner, Ignaty, Gerstung, Moritz, Jolly, Clemency, Haase, Kerstin, Tarabichi, Maxime, Wintersinger, Jeff, Deshwar, Amit G., Yu, Kaixian, Rubanova, Yulia, Macintyre, Geoff, Demeulemeester, Jonas, Anur, Pavana, Beroukhim, Rameen, Boutros, Paul C., Bowtell, David D., Cao, Shaolong, Cmero, Marek, Cun, Yupeng, Dawson, Kevin J., Donmez, Nilgun, Drews, Ruben M., Eils, Roland, Fan, Yu, Fittall, Matthew, Getz, Gad, Ha, Gavin, Imielinski, Marcin, Ji, Yuan, Kleinheinz, Kortine, Lee, Juhee, Lee-Six, Henry, Livitz, Dimitri G., Malikic, Salem, Markowetz, Florian, Martincorena, Inigo, Mustonen, Ville, Oesper, Layla, Peifer, Martin, Peto, Myron, Raphael, Benjamin J., Rosebrock, Daniel, Salcedo, Adriana, Schumacher, Steven E., Sengupta, Subhajit, Shi, Ruian, Spiro, Oliver, Vázquez-García, Ignacio, Vembu, Shankar, Wheeler, David A., Yao, Xiaotong, Yuan, Ke, Wang, Wenyi, Morris, Quaid D., Spellman, Paul T., Wedge, David C., Van Loo, Peter
Published in Cell (15.04.2021)
Published in Cell (15.04.2021)
Get full text
Journal Article
GraPhyC: Using Consensus to Infer Tumor Evolution
Govek, Kiya, Sikes, Camden, Zhou, Yangqiaoyu, Oesper, Layla
Published in IEEE/ACM transactions on computational biology and bioinformatics (01.01.2022)
Published in IEEE/ACM transactions on computational biology and bioinformatics (01.01.2022)
Get full text
Journal Article
Inferring the Mutational History of a Tumor Using Multi-state Perfect Phylogeny Mixtures
El-Kebir, Mohammed, Satas, Gryte, Oesper, Layla, Raphael, Benjamin J.
Published in Cell systems (27.07.2016)
Published in Cell systems (27.07.2016)
Get full text
Journal Article
WordCloud: a Cytoscape plugin to create a visual semantic summary of networks
Oesper, Layla, Merico, Daniele, Isserlin, Ruth, Bader, Gary D
Published in Source code for biology and medicine (07.04.2011)
Published in Source code for biology and medicine (07.04.2011)
Get full text
Journal Article
Author Correction: The evolutionary history of 2,658 cancers
Gerstung, Moritz, Jolly, Clemency, Leshchiner, Ignaty, Dentro, Stefan C., Gonzalez, Santiago, Rosebrock, Daniel, Mitchell, Thomas J., Rubanova, Yulia, Anur, Pavana, Yu, Kaixian, Tarabichi, Maxime, Deshwar, Amit, Wintersinger, Jeff, Kleinheinz, Kortine, Vázquez-García, Ignacio, Haase, Kerstin, Jerman, Lara, Sengupta, Subhajit, Macintyre, Geoff, Malikic, Salem, Donmez, Nilgun, Livitz, Dimitri G., Cmero, Marek, Demeulemeester, Jonas, Schumacher, Steven, Fan, Yu, Yao, Xiaotong, Lee, Juhee, Schlesner, Matthias, Boutros, Paul C., Bowtell, David D., Zhu, Hongtu, Getz, Gad, Imielinski, Marcin, Beroukhim, Rameen, Sahinalp, S. Cenk, Ji, Yuan, Peifer, Martin, Markowetz, Florian, Mustonen, Ville, Yuan, Ke, Wang, Wenyi, Morris, Quaid D., Spellman, Paul T., Wedge, David C., Van Loo, Peter
Published in Nature (London) (16.02.2023)
Published in Nature (London) (16.02.2023)
Get full text
Journal Article
Combining Distance Measures on Tumor Evolutionary Trees
Ehrlichman, Cecilia, Oesper, Layla
Published in 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) (06.12.2022)
Published in 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) (06.12.2022)
Get full text
Conference Proceeding
An Approach to Relax the Infinite Sites Assumption in Tumor Phylogeny Distance Measures
Nguyen, Quoc, Oesper, Layla
Published in 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) (06.12.2022)
Published in 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) (06.12.2022)
Get full text
Conference Proceeding
Deriving consensus tumor trees using integer linear programming
Smith-Erb, Matthew, Guang, Ziyun, Oesper, Layla
Published in 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) (06.12.2022)
Published in 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) (06.12.2022)
Get full text
Conference Proceeding