Phosphoproteomics of short-term hedgehog signaling in human medulloblastoma cells

by Tamara Scheidt, Oliver Alka, Humberto Gonczarowska-Jorge, Wolfgang Gruber, Florian Rathje, Margherita Dell’Aica, Marc Rurik, Oliver Kohlbacher, René P. Zahedi, Fritz Aberger, Christian G. Huber
Published 2020-06-01

Sequence co-evolution gives 3D contacts and structures of protein complexes

by Thomas A Hopf, Charlotta P I Schärfe, João P G L M Rodrigues, Anna G Green, Oliver Kohlbacher, Chris Sander, Alexandre M J J Bonvin, Debora S Marks
Published 2014-09-01

HLA ligandome analysis of primary chronic lymphocytic leukemia (CLL) cells under lenalidomide treatment confirms the suitability of lenalidomide for combination with T-cell-based i...

by Annika Nelde, Daniel J. Kowalewski, Linus Backert, Heiko Schuster, Jan-Ole Werner, Reinhild Klein, Oliver Kohlbacher, Lothar Kanz, Helmut R. Salih, Hans-Georg Rammensee, Stefan Stevanović, Juliane S. Walz
Published 2018-04-01

An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides.

by Pilar Domingo-Calap, Benjamin Schubert, Mélanie Joly, Morgane Solis, Meiggie Untrau, Raphael Carapito, Philippe Georgel, Sophie Caillard, Samira Fafi-Kremer, Nicodème Paul, Oliver Kohlbacher, Fernando González-Candelas, Seiamak Bahram
Published 2018-10-01

Analysis of protein-DNA interactions in chromatin by UV induced cross-linking and mass spectrometry

by Alexandra Stützer, Luisa M. Welp, Monika Raabe, Timo Sachsenberg, Christin Kappert, Alexander Wulf, Andy M. Lau, Stefan-Sebastian David, Aleksandar Chernev, Katharina Kramer, Argyris Politis, Oliver Kohlbacher, Wolfgang Fischle, Henning Urlaub
Published 2020-10-01

The de.NBI / ELIXIR-DE training platform - Bioinformatics training in Germany and across Europe within ELIXIR [version 2; peer review: 2 approved]

by Daniel Wibberg, Bérénice Batut, Peter Belmann, Jochen Blom, Frank Oliver Glöckner, Björn Grüning, Nils Hoffmann, Nils Kleinbölting, René Rahn, Maja Rey, Uwe Scholz, Malvika Sharan, Andreas Tauch, Ulrike Trojahn, Björn Usadel, Oliver Kohlbacher
Published 2020-09-01

Structural and Functional Characterization of the Bacterial Type III Secretion Export Apparatus.

by Tobias Dietsche, Mehari Tesfazgi Mebrhatu, Matthias J Brunner, Patrizia Abrusci, Jun Yan, Mirita Franz-Wachtel, Charlotta Schärfe, Susann Zilkenat, Iwan Grin, Jorge E Galán, Oliver Kohlbacher, Susan Lea, Boris Macek, Thomas C Marlovits, Carol V Robinson, Samuel Wagner
Published 2016-12-01

Metadata Correction: Patient Empowerment During the COVID-19 Pandemic by Ensuring Safe and Fast Communication of Test Results: Implementation and Performance of a Tracking System

by Gunnar Völkel, Axel Fürstberger, Julian D Schwab, Silke D Werle, Nensi Ikonomi, Thomas Gscheidmeier, Johann M Kraus, Alexander Groß, Martin Holderried, Julien Balig, Franz Jobst, Peter Kuhn, Klaus A Kuhn, Oliver Kohlbacher, Udo X Kaisers, Thomas Seufferlein, Hans A Kestler
Published 2021-06-01

From hype to reality: data science enabling personalized medicine

by Holger Fröhlich, Rudi Balling, Niko Beerenwinkel, Oliver Kohlbacher, Santosh Kumar, Thomas Lengauer, Marloes H. Maathuis, Yves Moreau, Susan A. Murphy, Teresa M. Przytycka, Michael Rebhan, Hannes Röst, Andreas Schuppert, Matthias Schwab, Rainer Spang, Daniel Stekhoven, Jimeng Sun, Andreas Weber, Daniel Ziemek, Blaz Zupan
Published 2018-08-01

Genome-wide study of a Neolithic Wartberg grave community reveals distinct HLA variation and hunter-gatherer ancestry

by Alexander Immel, Federica Pierini, Christoph Rinne, John Meadows, Rodrigo Barquera, András Szolek, Julian Susat, Lisa Böhme, Janina Dose, Joanna Bonczarowska, Clara Drummer, Katharina Fuchs, David Ellinghaus, Jan Christian Kässens, Martin Furholt, Oliver Kohlbacher, Sabine Schade-Lindig, Andre Franke, Stefan Schreiber, Johannes Krause, Johannes Müller, Tobias L. Lenz, Almut Nebel, Ben Krause-Kyora
Published 2021-01-01

A community proposal to integrate proteomics activities in ELIXIR [version 1; referees: 2 approved]

by Juan Antonio Vizcaíno, Mathias Walzer, Rafael C. Jiménez, Wout Bittremieux, David Bouyssié, Christine Carapito, Fernando Corrales, Myriam Ferro, Albert J.R. Heck, Peter Horvatovich, Martin Hubalek, Lydie Lane, Kris Laukens, Fredrik Levander, Frederique Lisacek, Petr Novak, Magnus Palmblad, Damiano Piovesan, Alfred Pühler, Veit Schwämmle, Dirk Valkenborg, Merlijn van Rijswijk, Jiri Vondrasek, Martin Eisenacher, Lennart Martens, Oliver Kohlbacher
Published 2017-06-01

HLA Ligand Atlas: a benign reference of HLA-presented peptides to improve T-cell-based cancer immunotherapy

by Jian Wang, Michael Weller, Roland Martin, Holger Moch, Julia Velz, Luca Regli, Hans-Georg Rammensee, Linus Backert, Oliver Kohlbacher, Ana Marcu, Leon Bichmann, Leon Kuchenbecker, Daniel Johannes Kowalewski, Lena Katharina Freudenmann, Lena Mühlenbruch, András Szolek, Maren Lübke, Philipp Wagner, Tobias Engler, Sabine Matovina, Mathias Hauri-Hohl, Konstantina Kapolou, Juliane Sarah Walz, Manuela Silginer, Markus W. Löffler, Florian Erhard, Andreas Schlosser, Stefan Stevanović, Marian Christoph Neidert
Published 2021-04-01

Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma

by Markus W. Löffler, Christopher Mohr, Leon Bichmann, Lena Katharina Freudenmann, Mathias Walzer, Christopher M. Schroeder, Nico Trautwein, Franz J. Hilke, Raphael S. Zinser, Lena Mühlenbruch, Daniel J. Kowalewski, Heiko Schuster, Marc Sturm, Jakob Matthes, Olaf Riess, Stefan Czemmel, Sven Nahnsen, Ingmar Königsrainer, Karolin Thiel, Silvio Nadalin, Stefan Beckert, Hans Bösmüller, Falko Fend, Ana Velic, Boris Maček, Sebastian P. Haen, Luigi Buonaguro, Oliver Kohlbacher, Stefan Stevanović, Alfred Königsrainer, HEPAVAC Consortium, Hans-Georg Rammensee
Published 2019-04-01

A proteomics sample metadata representation for multiomics integration and big data analysis

by Chengxin Dai, Anja Füllgrabe, Julianus Pfeuffer, Elizaveta M. Solovyeva, Jingwen Deng, Pablo Moreno, Selvakumar Kamatchinathan, Deepti Jaiswal Kundu, Nancy George, Silvie Fexova, Björn Grüning, Melanie Christine Föll, Johannes Griss, Marc Vaudel, Enrique Audain, Marie Locard-Paulet, Michael Turewicz, Martin Eisenacher, Julian Uszkoreit, Tim Van Den Bossche, Veit Schwämmle, Henry Webel, Stefan Schulze, David Bouyssié, Savita Jayaram, Vinay Kumar Duggineni, Patroklos Samaras, Mathias Wilhelm, Meena Choi, Mingxun Wang, Oliver Kohlbacher, Alvis Brazma, Irene Papatheodorou, Nuno Bandeira, Eric W. Deutsch, Juan Antonio Vizcaíno, Mingze Bai, Timo Sachsenberg, Lev I. Levitsky, Yasset Perez-Riverol
Published 2021-10-01

Machine learning identifies ICU outcome predictors in a multicenter COVID-19 cohort

by Harry Magunia, Simone Lederer, Raphael Verbuecheln, Bryant Joseph Gilot, Michael Koeppen, Helene A. Haeberle, Valbona Mirakaj, Pascal Hofmann, Gernot Marx, Johannes Bickenbach, Boris Nohe, Michael Lay, Claudia Spies, Andreas Edel, Fridtjof Schiefenhövel, Tim Rahmel, Christian Putensen, Timur Sellmann, Thea Koch, Timo Brandenburger, Detlef Kindgen-Milles, Thorsten Brenner, Marc Berger, Kai Zacharowski, Elisabeth Adam, Matthias Posch, Onnen Moerer, Christian S. Scheer, Daniel Sedding, Markus A. Weigand, Falk Fichtner, Carla Nau, Florian Prätsch, Thomas Wiesmann, Christian Koch, Gerhard Schneider, Tobias Lahmer, Andreas Straub, Andreas Meiser, Manfred Weiss, Bettina Jungwirth, Frank Wappler, Patrick Meybohm, Johannes Herrmann, Nisar Malek, Oliver Kohlbacher, Stephanie Biergans, Peter Rosenberger
Published 2021-08-01

The future of metabolomics in ELIXIR [version 1; referees: 2 approved, 1 approved with reservations]

by Merlijn van Rijswijk, Charlie Beirnaert, Christophe Caron, Marta Cascante, Victoria Dominguez, Warwick B. Dunn, Timothy M. D. Ebbels, Franck Giacomoni, Alejandra Gonzalez-Beltran, Thomas Hankemeier, Kenneth Haug, Jose L. Izquierdo-Garcia, Rafael C. Jimenez, Fabien Jourdan, Namrata Kale, Maria I. Klapa, Oliver Kohlbacher, Kairi Koort, Kim Kultima, Gildas Le Corguillé, Nicholas K. Moschonas, Steffen Neumann, Claire O’Donovan, Martin Reczko, Philippe Rocca-Serra, Antonio Rosato, Reza M. Salek, Susanna-Assunta Sansone, Venkata Satagopam, Daniel Schober, Ruth Shimmo, Rachel A. Spicer, Ola Spjuth, Etienne A. Thévenot, Mark R. Viant, Ralf J. M. Weber, Egon L. Willighagen, Gianluigi Zanetti, Christoph Steinbeck
Published 2017-09-01

The future of metabolomics in ELIXIR [version 2; referees: 2 approved, 1 approved with reservations]

by Merlijn van Rijswijk, Charlie Beirnaert, Christophe Caron, Marta Cascante, Victoria Dominguez, Warwick B. Dunn, Timothy M. D. Ebbels, Franck Giacomoni, Alejandra Gonzalez-Beltran, Thomas Hankemeier, Kenneth Haug, Jose L. Izquierdo-Garcia, Rafael C. Jimenez, Fabien Jourdan, Namrata Kale, Maria I. Klapa, Oliver Kohlbacher, Kairi Koort, Kim Kultima, Gildas Le Corguillé, Pablo Moreno, Nicholas K. Moschonas, Steffen Neumann, Claire O’Donovan, Martin Reczko, Philippe Rocca-Serra, Antonio Rosato, Reza M. Salek, Susanna-Assunta Sansone, Venkata Satagopam, Daniel Schober, Ruth Shimmo, Rachel A. Spicer, Ola Spjuth, Etienne A. Thévenot, Mark R. Viant, Ralf J. M. Weber, Egon L. Willighagen, Gianluigi Zanetti, Christoph Steinbeck
Published 2017-10-01