Florian Markowetz

According to our database, Florian Markowetz authored at least 26 papers between 2005 and 2021.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2021

Allele-specific multi-sample copy number segmentation in ASCAT.

Edith M. Ross, Kerstin Haase, Peter Van Loo, Florian Markowetz

Bioinform., 2021

Predictive Modelling of Highly Multiplexed Tumour Tissue Images by Graph Neural Networks.

Paula Martin-Gonzalez, Mireia Crispin-Ortuzar, Florian Markowetz

Proceedings of the Interpretability of Machine Intelligence in Medical Image Computing, and Topological Data Analysis and Its Applications for Medical Data, 2021

2020

Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.

Esther Rheinbay, Morten Muhlig Nielsen, Federico Abascal, Jeremiah Wala, Ofer Shapira, Grace Tiao, Henrik Hornshøj, Julian M. Hess, Randi Istrup Juul, Ziao Lin, Lars Feuerbach, Radhakrishnan Sabarinathan, Tobias Madsen, Jaegil Kim, Loris Mularoni, Shimin Shuai, Andrés Lanzós, Carl Herrmann, Yosef E. Maruvka, Ciyue Shen, Samirkumar B. Amin, Pratiti Bandopadhayay, Johanna Bertl, Keith A. Boroevich, John Busanovich, Joana Carlevaro-Fita, Dimple Chakravarty, Calvin Wing Yiu Chan, David Craft, Priyanka Dhingra, Klev Diamanti, Nuno A. Fonseca, Abel Gonzalez-Perez, Qianyun Guo, Mark P. Hamilton, Nicholas J. Haradhvala, Chen Hong, Keren Isaev, Todd A. Johnson, Malene Juul, André Kahles, Abdullah Kahraman, Youngwook Kim, Jan Komorowski, Kiran Kumar, Sushant Kumar, Donghoon Lee, Kjong-Van Lehmann, Yilong Li, Eric Minwei Liu, Lucas Lochovsky, Keunchil Park, Oriol Pich, Nicola D. Roberts, Gordon Saksena, Steven E. Schumacher, Nikos Sidiropoulos, Lina Sieverling, Nasa Sinnott-Armstrong, Chip Stewart, David Tamborero, Jose M. C. Tubio, Husen M. Umer, Liis Uusküla-Reimand, Claes Wadelius, Lina Wadi, Xiaotong Yao, Cheng-Zhong Zhang, Jing Zhang, James E. Haber, Asger Hobolth, Marcin Imielinski, Manolis Kellis, Michael S. Lawrence, Christian von Mering, Hidewaki Nakagawa, Benjamin J. Raphael, Mark A. Rubin, Chris Sander, Lincoln D. Stein, Joshua M. Stuart, Tatsuhiko Tsunoda, David A. Wheeler, Rory Johnson, Jüri Reimand, Mark Gerstein, Ekta Khurana, Peter J. Campbell, Núria López-Bigas, Gary D. Bader, Jonathan Barenboim, Rameen Beroukhim, Søren Brunak, Ken Chen, Jung Kyoon Choi, Jordi Deu-Pons, J. Lynn Fink, Joan Frigola, Carlo Gambacorti Passerini, Dale W. Garsed, Gad Getz, Ivo Glynne Gut, David Haan, Arif Ozgun Harmanci, Mohamed Helmy, Ermin Hodzic, José M. G. Izarzugaza, Jong K. Kim, Jan O. Korbel, Erik Larsson, Shantao Li, Xiaotong Li, Shaoke Lou, Kathleen Marchal, Iñigo Martincorena, Alexander Martínez-Fundichely, Patrick D. McGillivray, William Meyerson, Ferran Muiños, Marta Paczkowska, Kiejung Park, Jakob Skou Pedersen, Tirso Pons, Sergio Pulido-Tamayo, Iker Reyes-Salazar, Matthew A. Reyna, Carlota Rubio-Perez, Süleyman Cenk Sahinalp, Leonidas Salichos, Mark Shackleton, Raunak Shrestha, Alfonso Valencia, Miguel Vazquez, Lieven P. C. Verbeke, Jiayin Wang, Jonathan Warrell, Sebastian M. Waszak, Joachim Weischenfeldt, Guanming Wu, Jun Yu, Xuanping Zhang, Yan Zhang, Zhongming Zhao, Lihua Zou, Kadir C. Akdemir, Eva G. Alvarez, Adrian Baez-Ortega, Paul C. Boutros, David D. L. Bowtell, Benedikt Brors, Kathleen H. Burns, Kin Chan, Isidro Cortés-Ciriano, Ana Dueso-Barroso, Andrew J. Dunford, Paul A. Edwards, Xavier Estivill, Dariush Etemadmoghadam, Milana Frenkel-Morgenstern, Dmitry A. Gordenin, Barbara Hutter, David T. W. Jones, Young Seok Ju, Marat D. Kazanov, Leszek J. Klimczak, Youngil Koh, Eunjung Alice Lee, Jake June-Koo Lee, Andy G. Lynch, Geoff MacIntyre, Florian Markowetz, Matthew Meyerson, Satoru Miyano, Fabio C. P. Navarro, Stephan Ossowski, Peter J. Park, John V. Pearson, Montserrat Puiggròs, Karsten Rippe, Steven A. Roberts, Bernardo Rodriguez-Martin, Ralph Scully, David Torrents, Izar Villasante, Nicola Waddell, Jeremiah A. Wala, Lixing Yang, Sung-Soo Yoon, Jorge Zamora

Nat., 2020

The evolutionary history of 2,658 cancers.

Moritz Gerstung, Clemency Jolly, Ignaty Leshchiner, Stefan C. Dentro, Santiago Gonzalez, Thomas J. Mitchell, Yulia Rubanova, Pavana Anur, Kaixian Yu, Maxime Tarabichi, Amit G. Deshwar, Jeff Wintersinger, Kortine Kleinheinz, Ignacio Vázquez-García, Kerstin Haase, Lara Jerman, Subhajit Sengupta, Geoff MacIntyre, Salem Malikic, Nilgun Donmez, Dimitri G. Livitz, Marek Cmero, Jonas Demeulemeester, Steven E. Schumacher, Yu Fan, Xiaotong Yao, Juhee Lee, Matthias Schlesner, Paul C. Boutros, David D. L. Bowtell, Hongtu Zhu, Gad Getz, Marcin Imielinski, Rameen Beroukhim, Süleyman Cenk Sahinalp, Yuan Ji, Martin Peifer, Florian Markowetz, Ville Mustonen, Ke Yuan, Wenyi Wang, Quaid D. Morris, David J. Adams, Peter J. Campbell, Shaolong Cao, Elizabeth L. Christie, Yupeng Cun, Kevin J. Dawson, Ruben M. Drews, Roland Eils, Matthew Fittall, Dale W. Garsed, Gavin Ha, Henry Lee-Six, Iñigo Martincorena, Layla Oesper, Myron Peto, Benjamin J. Raphael, Daniel T. Rosebrock, Adriana Salcedo, Ruian Shi, Seung Jun Shin, Oliver Spiro, Lincoln D. Stein, Shankar Vembu, David A. Wheeler, Tsun-Po Yang, Paul T. Spellman, David C. Wedge, Peter Van Loo

Nat., 2020

Tissue-specific and interpretable sub-segmentation of whole tumour burden on CT images by unsupervised fuzzy clustering.

Leonardo Rundo, Lucian Beer, Stephan Ursprung, Paula Martin-Gonzalez, Florian Markowetz, James D. Brenton, Mireia Crispin-Ortuzar, Evis Sala, Ramona Woitek

Comput. Biol. Medicine, 2020

2019

Estimating the predictability of cancer evolution.

Sayed-Rzgar Hosseini, Ramón Díaz-Uriarte, Florian Markowetz, Niko Beerenwinkel

Bioinform., 2019

2017

Inferring modulators of genetic interactions with epistatic nested effects models.

Martin Pirkl, Madeline Diekmann, Marlies van der Wees, Niko Beerenwinkel, Holger Fröhlich, Florian Markowetz

PLoS Comput. Biol., 2017

2015

You Are Not Working for Me; I Am Working with You.

Florian Markowetz

PLoS Comput. Biol., 2015

2014

Phylogenetic Quantification of Intra-tumour Heterogeneity.

Roland F. Schwarz, Anne Trinh, Botond Sipos, James D. Brenton, Nick Goldman, Florian Markowetz

PLoS Comput. Biol., 2014

SANTA: Quantifying the Functional Content of Molecular Networks.

Alex J. Cornish, Florian Markowetz

PLoS Comput. Biol., 2014

2012

A Sparse Regulatory Network of Copy-Number Driven Gene Expression Reveals Putative Breast Cancer Oncogenes.

Yinyin Yuan, Christina Curtis, Carlos Caldas, Florian Markowetz

IEEE ACM Trans. Comput. Biol. Bioinform., 2012

Posterior Association Networks and Functional Modules Inferred from Rich Phenotypes of Gene Perturbations.

Xin Wang, Mauro A. A. Castro, Klaas W. Mulder, Florian Markowetz

PLoS Comput. Biol., 2012

2011

Patient-Specific Data Fusion Defines Prognostic Cancer Subtypes.

Yinyin Yuan, Richard S. Savage, Florian Markowetz

PLoS Comput. Biol., 2011

Deregulation upon DNA damage revealed by joint analysis of context-specific perturbation data.

Ewa Szczurek, Florian Markowetz, Irit Gat-Viks, Przemyslaw Biecek, Jerzy Tiuryn, Martin Vingron

BMC Bioinform., 2011

Differential C3NET reveals disease networks of direct physical interactions.

Gokmen Altay, Mohammad Asim, Florian Markowetz, David E. Neal

BMC Bioinform., 2011

Penalized regression elucidates aberration hotspots mediating subtype-specific transcriptional responses in breast cancer.

Yinyin Yuan, Oscar M. Rueda, Christina Curtis, Florian Markowetz

Bioinform., 2011

HTSanalyzeR: an R/Bioconductor package for integrated network analysis of high-throughput screens.

Xin Wang, Camille Terfve, John C. Rose, Florian Markowetz

Bioinform., 2011

2010

Mapping Dynamic Histone Acetylation Patterns to Gene Expression in Nanog-Depleted Murine Embryonic Stem Cells.

Florian Markowetz, Klaas W. Mulder, Edoardo M. Airoldi, Ihor Lemischka, Olga G. Troyanskaya

PLoS Comput. Biol., 2010

How to Understand the Cell by Breaking It: Network Analysis of Gene Perturbation Screens.

Florian Markowetz

PLoS Comput. Biol., 2010

A sparse regulatory network of copy-number driven expression reveals putative breast cancer oncogenes.

Yinyin Yuan, Christina Curtis, Carlos Caldas, Florian Markowetz

Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine, 2010

2008

Analyzing gene perturbation screens with nested effects models in R and bioconductor.

Holger Fröhlich, Tim Beißbarth, Achim Tresch, Dennis Kostka, Juby Jacob, Rainer Spang, Florian Markowetz

Bioinform., 2008

2007

Inferring cellular networks - a review.

Florian Markowetz, Rainer Spang

BMC Bioinform., 2007

Nested effects models for high-dimensional phenotyping screens.

Florian Markowetz, Dennis Kostka, Olga G. Troyanskaya, Rainer Spang

Proceedings of the Proceedings 15th International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB), 2007

2006

Probabilistic Models for Gene Silencing Data (Probabilistische Modelle für RNA-Interferenz-Daten)

Florian Markowetz

PhD thesis, 2006

2005

Non-transcriptional pathway features reconstructed from secondary effects of RNA interference.

Florian Markowetz, Jacques Bloch, Rainer Spang

Bioinform., 2005

Probabilistic Soft Interventions in Conditional Gaussian Networks.

Florian Markowetz, Steffen Grossmann, Rainer Spang

Proceedings of the Tenth International Workshop on Artificial Intelligence and Statistics, 2005