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2020 – today
- 2021
[j21]Edith M. Ross
, Kerstin Haase, Peter Van Loo, Florian Markowetz:
Allele-specific multi-sample copy number segmentation in ASCAT. Bioinform. 37(13): 1909-1911 (2021)- [c4]Paula Martin-Gonzalez, Mireia Crispin-Ortuzar, Florian Markowetz:
Predictive Modelling of Highly Multiplexed Tumour Tissue Images by Graph Neural Networks. iMIMIC/TDA4MedicalData@MICCAI 2021: 98-107 - 2020
- [j20]Leonardo Rundo, Lucian Beer, Stephan Ursprung, Paula Martin-Gonzalez, Florian Markowetz, James D. Brenton, Mireia Crispin-Ortuzar, Evis Sala, Ramona Woitek:
Tissue-specific and interpretable sub-segmentation of whole tumour burden on CT images by unsupervised fuzzy clustering. Comput. Biol. Medicine 120: 103751 (2020) - [j19]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:
Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. Nat. 578(7793): 102-111 (2020) - [j18]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:
The evolutionary history of 2,658 cancers. Nat. 578(7793): 122-128 (2020)
2010 – 2019
- 2019
- [j17]Sayed-Rzgar Hosseini, Ramón Díaz-Uriarte, Florian Markowetz, Niko Beerenwinkel:
Estimating the predictability of cancer evolution. Bioinform. 35(14): i389-i397 (2019) - 2017
- [j16]Martin Pirkl, Madeline Diekmann, Marlies van der Wees, Niko Beerenwinkel, Holger Fröhlich, Florian Markowetz:
Inferring modulators of genetic interactions with epistatic nested effects models. PLoS Comput. Biol. 13(4) (2017) - 2015
- [j15]Florian Markowetz:
You Are Not Working for Me; I Am Working with You. PLoS Comput. Biol. 11(9) (2015) - 2014
- [j14]Roland F. Schwarz, Anne Trinh, Botond Sipos, James D. Brenton, Nick Goldman, Florian Markowetz:
Phylogenetic Quantification of Intra-tumour Heterogeneity. PLoS Comput. Biol. 10(4) (2014) - [j13]Alex J. Cornish, Florian Markowetz:
SANTA: Quantifying the Functional Content of Molecular Networks. PLoS Comput. Biol. 10(9) (2014) - 2012
- [j12]Xin Wang, Mauro A. A. Castro, Klaas W. Mulder, Florian Markowetz:
Posterior Association Networks and Functional Modules Inferred from Rich Phenotypes of Gene Perturbations. PLoS Comput. Biol. 8(6) (2012) - [j11]Yinyin Yuan, Christina Curtis, Carlos Caldas, Florian Markowetz:
A Sparse Regulatory Network of Copy-Number Driven Gene Expression Reveals Putative Breast Cancer Oncogenes. IEEE ACM Trans. Comput. Biol. Bioinform. 9(4): 947-954 (2012) - 2011
- [j10]Xin Wang, Camille Terfve, John C. Rose, Florian Markowetz:
HTSanalyzeR: an R/Bioconductor package for integrated network analysis of high-throughput screens. Bioinform. 27(6): 879-880 (2011) - [j9]Yinyin Yuan, Oscar M. Rueda, Christina Curtis, Florian Markowetz:
Penalized regression elucidates aberration hotspots mediating subtype-specific transcriptional responses in breast cancer. Bioinform. 27(19): 2679-2685 (2011) - [j8]Ewa Szczurek, Florian Markowetz, Irit Gat-Viks, Przemyslaw Biecek, Jerzy Tiuryn, Martin Vingron:
Deregulation upon DNA damage revealed by joint analysis of context-specific perturbation data. BMC Bioinform. 12: 249 (2011) - [j7]Gokmen Altay, Mohammad Asim, Florian Markowetz, David E. Neal:
Differential C3NET reveals disease networks of direct physical interactions. BMC Bioinform. 12: 296 (2011) - [j6]Yinyin Yuan, Richard S. Savage, Florian Markowetz:
Patient-Specific Data Fusion Defines Prognostic Cancer Subtypes. PLoS Comput. Biol. 7(10) (2011) - 2010
- [j5]Florian Markowetz:
How to Understand the Cell by Breaking It: Network Analysis of Gene Perturbation Screens. PLoS Comput. Biol. 6(2) (2010) - [j4]Florian Markowetz, Klaas W. Mulder, Edoardo M. Airoldi, Ihor Lemischka, Olga G. Troyanskaya:
Mapping Dynamic Histone Acetylation Patterns to Gene Expression in Nanog-Depleted Murine Embryonic Stem Cells. PLoS Comput. Biol. 6(12) (2010) - [c3]Yinyin Yuan, Christina Curtis, Carlos Caldas, Florian Markowetz:
A sparse regulatory network of copy-number driven expression reveals putative breast cancer oncogenes. BIBM 2010: 473-478
2000 – 2009
- 2008
- [j3]Holger Fröhlich, Tim Beißbarth, Achim Tresch, Dennis Kostka, Juby Jacob, Rainer Spang, Florian Markowetz:
Analyzing gene perturbation screens with nested effects models in R and bioconductor. Bioinform. 24(21): 2549-2550 (2008) - 2007
- [j2]Florian Markowetz, Rainer Spang:
Inferring cellular networks - a review. BMC Bioinform. 8(S-6) (2007) - [c2]Florian Markowetz, Dennis Kostka, Olga G. Troyanskaya, Rainer Spang:
Nested effects models for high-dimensional phenotyping screens. ISMB/ECCB (Supplement of Bioinformatics) 2007: 305-312 - 2006
- [b1]Florian Markowetz:
Probabilistic Models for Gene Silencing Data (Probabilistische Modelle für RNA-Interferenz-Daten). FU Berlin, Germany, 2006 - 2005
- [j1]Florian Markowetz, Jacques Bloch, Rainer Spang:
Non-transcriptional pathway features reconstructed from secondary effects of RNA interference. Bioinform. 21(21): 4026-4032 (2005) - [c1]Florian Markowetz, Steffen Grossmann, Rainer Spang:
Probabilistic Soft Interventions in Conditional Gaussian Networks. AISTATS 2005: 214-221
Coauthor Index
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