Modeling mutual exclusivity of cancer mutations. by Ewa Szczurek, Niko Beerenwinkel

Get full text

Elucidating regulatory mechanisms downstream of a signaling pathway using informative experiments by Ewa Szczurek, Irit Gat‐Viks, Jerzy Tiuryn, Martin Vingron

Get full text

Synthetic lethality prediction in DNA damage repair, chromatin remodeling and the cell cycle using multi-omics data from cell lines and patients. by Magda Markowska, Magdalena A. Budzinska, Anna Coenen-Stass, Senbai Kang, Ewa Kizling, Krzysztof Kolmus, Krzysztof Koras, Eike Staub, Ewa Szczurek

Get full text

Deep learning-based tumor microenvironment segmentation is predictive of tumor mutations and patient survival in non-small-cell lung cancer by Alicja Rączkowska, Iwona Paśnik, Michał Kukiełka, Marcin Nicoś, Magdalena A. Budzinska, Tomasz Kucharczyk, Justyna Szumiło, Paweł Krawczyk, Nicola Crosetto, Ewa Szczurek

Get full text

SIEVE: joint inference of single-nucleotide variants and cell phylogeny from single-cell DNA sequencing data by Senbai Kang, Nico Borgsmüller, Monica Valecha, Jack Kuipers, Joao M. Alves, Sonia Prado-López, Débora Chantada, Niko Beerenwinkel, David Posada, Ewa Szczurek

Get full text

Discovering highly potent antimicrobial peptides with deep generative model HydrAMP by Paulina Szymczak, Marcin Możejko, Tomasz Grzegorzek, Radosław Jurczak, Marta Bauer, Damian Neubauer, Karol Sikora, Michał Michalski, Jacek Sroka, Piotr Setny, Wojciech Kamysz, Ewa Szczurek

Get full text

Author Correction: Discovering highly potent antimicrobial peptides with deep generative model HydrAMP by Paulina Szymczak, Marcin Możejko, Tomasz Grzegorzek, Radosław Jurczak, Marta Bauer, Damian Neubauer, Karol Sikora, Michał Michalski, Jacek Sroka, Piotr Setny, Wojciech Kamysz, Ewa Szczurek

Get full text

Celloscope: a probabilistic model for marker-gene-driven cell type deconvolution in spatial transcriptomics data by Agnieszka Geras, Shadi Darvish Shafighi, Kacper Domżał, Igor Filipiuk, Alicja Rączkowska, Paulina Szymczak, Hosein Toosi, Leszek Kaczmarek, Łukasz Koperski, Jens Lagergren, Dominika Nowis, Ewa Szczurek

Get full text

Integrative spatial and genomic analysis of tumor heterogeneity with Tumoroscope by Shadi Shafighi, Agnieszka Geras, Barbara Jurzysta, Alireza Sahaf Naeini, Igor Filipiuk, Alicja Ra̧czkowska, Hosein Toosi, Łukasz Koperski, Kim Thrane, Camilla Engblom, Jeff E. Mold, Xinsong Chen, Johan Hartman, Dominika Nowis, Alessandra Carbone, Jens Lagergren, Ewa Szczurek

Get full text

CaClust: linking genotype to transcriptional heterogeneity of follicular lymphoma using BCR and exomic variants by Kazimierz Oksza-Orzechowski, Edwin Quinten, Shadi Shafighi, Szymon M. Kiełbasa, Hugo W. van Kessel, Ruben A. L. de Groen, Joost S. P. Vermaat, Julieta H. Sepúlveda Yáñez, Marcelo A. Navarrete, Hendrik Veelken, Cornelis A. M. van Bergen, Ewa Szczurek

Get full text

Eleven grand challenges in single-cell data science by David Lähnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Kieran R. Campbell, Niko Beerenwinkel, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P.F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Alicja Rączkowska, Marcel Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth

Get full text

Predictive performance of multi-model ensemble forecasts of COVID-19 across European nations by Katharine Sherratt, Hugo Gruson, Rok Grah, Helen Johnson, Rene Niehus, Bastian Prasse, Frank Sandmann, Jannik Deuschel, Daniel Wolffram, Sam Abbott, Alexander Ullrich, Graham Gibson, Evan L Ray, Nicholas G Reich, Daniel Sheldon, Yijin Wang, Nutcha Wattanachit, Lijing Wang, Jan Trnka, Guillaume Obozinski, Tao Sun, Dorina Thanou, Loic Pottier, Ekaterina Krymova, Jan H Meinke, Maria Vittoria Barbarossa, Neele Leithauser, Jan Mohring, Johanna Schneider, Jaroslaw Wlazlo, Jan Fuhrmann, Berit Lange, Isti Rodiah, Prasith Baccam, Heidi Gurung, Steven Stage, Bradley Suchoski, Jozef Budzinski, Robert Walraven, Inmaculada Villanueva, Vit Tucek, Martin Smid, Milan Zajicek, Cesar Perez Alvarez, Borja Reina, Nikos I Bosse, Sophie R Meakin, Lauren Castro, Geoffrey Fairchild, Isaac Michaud, Dave Osthus, Pierfrancesco Alaimo Di Loro, Antonello Maruotti, Veronika Eclerova, Andrea Kraus, David Kraus, Lenka Pribylova, Bertsimas Dimitris, Michael Lingzhi Li, Soni Saksham, Jonas Dehning, Sebastian Mohr, Viola Priesemann, Grzegorz Redlarski, Benjamin Bejar, Giovanni Ardenghi, Nicola Parolini, Giovanni Ziarelli, Wolfgang Bock, Stefan Heyder, Thomas Hotz, David E Singh, Miguel Guzman-Merino, Jose L Aznarte, David Morina, Sergio Alonso, Enric Alvarez, Daniel Lopez, Clara Prats, Jan Pablo Burgard, Arne Rodloff, Tom Zimmermann, Alexander Kuhlmann, Janez Zibert, Fulvia Pennoni, Fabio Divino, Marti Catala, Gianfranco Lovison, Paolo Giudici, Barbara Tarantino, Francesco Bartolucci, Giovanna Jona Lasinio, Marco Mingione, Alessio Farcomeni, Ajitesh Srivastava, Pablo Montero-Manso, Aniruddha Adiga, Benjamin Hurt, Bryan Lewis, Madhav Marathe, Przemyslaw Porebski, Srinivasan Venkatramanan, Rafal P Bartczuk, Filip Dreger, Anna Gambin, Krzysztof Gogolewski, Magdalena Gruziel-Slomka, Bartosz Krupa, Antoni Moszyński, Karol Niedzielewski, Jedrzej Nowosielski, Maciej Radwan, Franciszek Rakowski, Marcin Semeniuk, Ewa Szczurek, Jakub Zielinski, Jan Kisielewski, Barbara Pabjan, Kirsten Holger, Yuri Kheifetz, Markus Scholz, Biecek Przemyslaw, Marcin Bodych, Maciej Filinski, Radoslaw Idzikowski, Tyll Krueger, Tomasz Ozanski, Johannes Bracher, Sebastian Funk

Get full text