Publikationen
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2025 |
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Manuel Bange, Hao Ding and Muthuraman Muthuraman. 2025. Cerebral cortex contributions to Parkinson's disease tremor: what exactly generates the tremor?. Neural Regeneration Research 20, 12, 3535-3536. DOI: 10.4103/nrr.nrr-d-24-00853 |
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Yevgeniia Ignatenko, Natalia Ortmann, Sebastian Lutz and Frank Kramer. 2025. Comprehensive course on clinical study data management for medical informatics students. Applied Clinical Informatics 16, 2, 245-251. |
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Robin Manz, Jonas B?cker, Samantha Cramer, Philip Meyer, Dominik Müller, Anna Muzalyova, Lukas Rentschler, Christoph Wengenmayr, Ludwig Christian Hinske, Ralf Huss, Johannes Raffler and I?aki Soto‐Rey. 2025. Do explainable AI (XAI) methods improve the acceptance of AI in clinical practice? An evaluation of XAI methods on Gleason grading. The Journal of Pathology: Clinical Research 11, 2, e70023. DOI: 10.1002/2056-4538.70023 |
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Zaynab Hammoud, Mohammad Al Maaz, Alicia D'Angelo and Frank Kramer. in press. Multipath2.0: extending multilayer reproducible pathway models with omics data. Computer Methods and Programs in Biomedicine Update 100189. |
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Samiksha Pachade, Prasanna Porwal, Manesh Kokare, Girish Deshmukh, Vivek Sahasrabuddhe, Zhengbo Luo, Feng Han, Zitang Sun, Li Qihan, Sei-ichiro Kamata, Edward Ho, Edward Wang, Asaanth Sivajohan, Saerom Youn, Kevin Lane, Jin Chun, Xinliang Wang, Yunchao Gu, Sixu Lu, Young-tack Oh, Hyunjin Park, Chia-Yen Lee, Hung Yeh, Kai-Wen Cheng, Haoyu Wang, Jin Ye, Junjun He, Lixu Gu, Dominik Müller, I?aki Soto-Rey, Frank Kramer, Hidehisa Arai, Yuma Ochi, Takami Okada, Luca Giancardo, Gwenolé Quellec and Fabrice Mériaudeau. 2025. RFMiD: retinal image analysis for multi-disease detection challenge. 伟德国际_伟德国际1946$娱乐app游戏ical Image Analysis 99, 103365. |
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Nina Ditsch, Melitta B. K?pke, Renate Haidinger, Brigitte Welter, Ute-Susann Albert, Christoph Aulmann, Traudl Baumgartner, Stefanie Corradini, Christian Dannecker, Johannes Ettl, Nadia Harbeck, Carolin C. Hack, Anne Herrmann, Ludwig Christian Hinske, Marion Kiechle, Alkomiet Hasan, Klaus E. Jopp, Monika Klinkhammer-Schalke, Oliver Koelbl, Christoph Jung, Olaf Ortmann, Anna Rubeck, Gernot Müller, Verena Schmid, Frank Kramer, Franziska Feiler, Eva Schildmann, Stephan Seitz, Miriam Weiss, Nadja Will, Achim W?ckel, Eva Schumacher-Wulff, Hedy Kerek-Bodden, Peter Jurmeister, Carl Mathis Wild, Rachel Wuerstlein, Peter A. Fasching, Susanne Kinnebrock, Miriam Kunz, Stefan Schiele and Matthias W. Beckmann. 2025. Significant increase of patient information and satisfaction with longer initial consultation duration in breast cancer - first results of the WAVES study. Fortune Journal of Health Sciences 8, 2, 296-305. DOI: 10.26502/fjhs.276 |
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Sebastian Lutz, Alicia D'Angelo, Sonja Hammerl, Maximilian Schmutz, Rainer Claus, Nina M. Fischer, Frank Kramer and Zaynab Hammoud. 2025. Unveiling the digital evolution of molecular tumor boards. Targeted Oncology 20, 27-43. DOI: 10.1007/s11523-024-01109-1 |
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2024 |
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Dominik Müller, Jakob Christoph Voran, Mário Macedo, Dennis Hartmann, Charlotte Lind, Derk Frank, Bj?rn Schreiweis, Frank Kramer and Hannes Ulrich. 2024. Assessing patient health dynamics by comparative CT analysis: an automatic approach to organ and body feature evaluation. Diagnostics 14, 23, 2760. DOI: 10.3390/diagnostics14232760 |
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Jochen Schmitt, Peter Ihle, Olaf Schoffer, Jens-Peter Reese, Steffen Ortmann, Enno Swart, Sabine Han?, Falk Hoffmann, Christoph Stallmann, Monika Kraus, Sebastian Claudius Semler, Ralf Heyder, J?rg Janne Vehreschild, Peter Heuschmann, Dagmar Krefting, Martin Sedlmayr, Wolfgang Hoffmann and Frank Kramer. in press. Datennutzung für eine bessere Gesundheitsversorgung – Pl?doyer für eine kooperative Forschungsdatenplattform der gesetzlichen und privaten Krankenversicherung und dem Netzwerk Universit?tsmedizin (NUM). Das Gesundheitswesen . |
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Gabriele Maria Lehner, Laura Gockeln, Bettina Marie Naber, Janis Raphael Thamm, Sandra Schuh, Gabriel Duttler, Anna Rottenkolber, Dennis Hartmann, Frank Kramer and Julia Welzel. 2024. Differences in the annotation between facial images and videos for training an artificial intelligence for skin type determination. Skin Research and Technology 30, 3, e13632. DOI: 10.1111/srt.13632 |
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Sergio García-García, Santiago Cepeda, Dominik Müller, Alejandra Mosteiro, Ramón Torné, Silvia Agudo, Natalia de la Torre, Ignacio Arrese and Rosario Sarabia. 2024. Mortality prediction of patients with subarachnoid hemorrhage using a deep learning model based on an initial brain CT scan. Brain Sciences 14, 1, 10. DOI: 10.3390/brainsci14010010 |
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Antonios Bayas, Ulrich Mansmann, Begum Irmak ?n, Verena S. Hoffmann, Achim Berthele, Mark Mühlau, Markus C. Kowarik, Markus Krumbholz, Makbule Senel, Verena Steuerwald, Markus Naumann, Julia Hartberger, Martin Kerschensteiner, Eva Oswald, Christoph Ruschil, Ulf Ziemann, Hayrettin Tumani, Ioannis Vardakas, Fady Albashiti, Frank Kramer, I?aki Soto-Rey, Helmut Spengler, Gerhard Mayer, Hans Armin Kestler, Oliver Kohlbacher, Marlien Hagedorn, Martin Boeker, Klaus Kuhn, Stefan Buchka, Florian Kohlmayer, Jan S. Kirschke, Lars Behrens, Hanna Zimmermann, Benjamin Bender, Nico Sollmann, Joachim Havla, Bernhard Hemmer, Ansgar Berlis, Benedikt Wiestler, Tania Kümpfel, Klaus Seelos, Jutta Dünschede, Roswitha Kemmner, Meinrad Beer, Jennifer Dietrich and Jonas Schaller. 2024. Prospective study validating a multidimensional treatment decision score predicting the 24-month outcome in untreated patients with clinically isolated syndrome and early relapsing–remitting multiple sclerosis, the ProVal-MS study. Neurological Research and Practice 6, 1, 15. DOI: 10.1186/s42466-024-00310-x |
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Elisabeth Veronica Mess, Frank Kramer, Julia Krumme, Nico Kanelakis and Alexandra Teynor. 2024. Use of creative frameworks in health care to solve data and information problems: scoping review. JMIR Human Factors 11, e55182. DOI: 10.2196/55182 |
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Johann Frei, Florian J. Auer, Steffen Netzband, Yevgeniia Ignatenko and Frank Kramer. 2024. Web-based prototype for graphical exploration of FHIR? questionnaire responses. AMIA Annual Symposium Proceedings 2023, 351-358. |
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Melitta B. K?pke, Stefan Schiele, Verena Schmid, R. Haidinger, B. Weilter, S. Seitz, E. Schumacher-Wulff, U.-S. Albert, T. Baumgartner, Christoph Aulmann, Alkomiet Hasan, Christian Dannecker, S. Corradini, J. Ettl, N. Harbeck, Ludwig Christian Hinske, M. Kiechle, Miriam Kunz, O. Koelbl, O. Ortmann, Anna Rubeck, Frank Kramer, Miriam Reicherts, A. Woeckel, P. Fasching, M. Beckmann and Nina Ditsch. 2024. Zufriedenheit bei Brustkrebserkrankten mit Erstgespr?ch bei Behandlung w?hrend der Corona-Pandemie – Subgrupenanalyse der WAVES-Studie [Abstract]. Geburtshilfe und Frauenheilkunde 84, 6, E35-E36. |
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2023 |
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Sebastian Lutz, Florian Auer, Dennis Hartmann, Hryhorii Chereda, Tim Bei?barth and Frank Kramer. in press. Adaptation of Graph Convolutional Neural Networks and graph layer-wise relevance propagation to the Spektral library with application to gene expression data of colorectal cancer patients. preprint. |
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Johann Frei and Frank Kramer. 2023. Annotated dataset creation through large language models for non-english medical NLP. Journal of Biomedical Informatics 145, 104478. DOI: 10.1016/j.jbi.2023.104478 |
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Timo Fuchs, Lena Kaiser, Dominik Müller, Laszlo Papp, Regina Fischer and Johannes Tran-Gia. 2023. Enhancing interoperability and harmonisation of nuclear medicine image data and associated clinical data. Nuklearmedizin - Nuclear伟德国际_伟德国际1946$娱乐app游戏icine 62, 6, 389-398. DOI: 10.1055/a-2187-5701 |
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Johann Frei, Ludwig Frei-Stuber and Frank Kramer. 2023. GERNERMED++: semantic annotation in German medical NLP through transfer-learning, translation and word alignment. Journal of Biomedical Informatics 147, 104513. DOI: 10.1016/j.jbi.2023.104513 |
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Johann Frei and Frank Kramer. 2023. German medical named entity recognition model and data set creation using machine translation and word alignment: algorithm development and validation. JMIR Formative Research 7, e39077. |
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Dennis Hartmann, Verena Schmid, Philip Meyer, Florian Auer, I?aki Soto-Rey, Dominik Müller and Frank Kramer. 2023. MISM: a medical image segmentation metric for evaluation of weak labeled data. Diagnostics 13, 16, 2618. DOI: 10.3390/diagnostics13162618 |
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Sergio García, Santiago Cepeda, Dominik Müller, Alejandra Mosteiro-Cadaval, Ramon Torne, Silvia Agudo, Natalia de la Torre, Ignacio Arrese and Rosario Sarabia. 2023. Neurological outcome prediction in patients with subarachnoid hemorrhage using a model based on initial CT scan, clinical data and neural networks [Abstract]. Brain and Spine 3, Supplement 1, 101995. DOI: 10.1016/j.bas.2023.101995 |
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Nina Ditsch, Melitta B. K?pke, R. Haidinger, R. Würstlein, B. Welter, S. Seitz, E. Schumacher-Wulff, U. S. Albert, T. Baumgartner, C. Aulmann, Alkomiet Hasan, Christian Dannecker, S. Corradini, J. Ettl, N. Harbeck, Ludwig Christian Hinske, M. Kiechle, Miriam Kunz, O. Koelbl, O. Ortmann, Stefan Schiele, Verena Schmid, M. Weiss, A. W?ckel, P. Fasching and M. W. Beckmann. 2023. ?rztliches "Sich Zeit nehmen" befürwortet – erste Ergebnisse der WAVES-Studie im Rahmen der Diagnosemitteilung Brustkrebs [Abstract]. Geburtshilfe und Frauenheilkunde 83, 6, 758-759. |
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2022 |
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Dominik Müller, Inaki Soto-Rey and Frank Kramer. 2022. An analysis on ensemble learning optimized medical image classification with deep convolutional neural networks. IEEE Access 10, 66467-66480. DOI: 10.1109/access.2022.3182399 |
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Florian Auer, Simone Mayer and Frank Kramer. 2022. Data-dependent visualization of biological networks in the web-browser with NDExEdit. PLoS Computational Biology 18, 6, 1010205. DOI: 10.1371/journal.pcbi.1010205 |
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Johann Frei, I?aki Soto-Rey and Frank Kramer. 2022. DrNote: an open medical annotation service. PLOS Digital Health 1, 8, e0000086. DOI: 10.1371/journal.pdig.0000086 |
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Sebastian Hofmann. 2022. Forschungsklausel statt Broad Consent: Sekund?rnutzung von Patientendaten ohne Einwilligung, dafür mit Opt-out. Datenschutz und Datensicherheit - DuD 46, 12, 756-761. DOI: 10.1007/s11623-022-1691-7 |
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Johann Frei and Frank Kramer. 2022. GERNERMED: an open German medical NER model. Software Impacts 11, 100212. DOI: 10.1016/j.simpa.2021.100212 |
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Georg Emons, Noam Auslander, Peter Jo, Julia Kitz, Azadeh Azizian, Yue Hu, Clemens F. Hess, Claus Roedel, Ulrich Sax, Gabriela Salinas, Philipp Stroebel, Frank Kramer, Tim Beissbarth, Marian Grade, Michael Ghadimi, Eytan Ruppin, Thomas Ried and Jochen Gaedcke. 2022. Gene-expression profiles of pretreatment biopsies predict complete response of rectal cancer patients to preoperative chemoradiotherapy. British Journal of Cancer 127, 4, 766-775. DOI: 10.1038/s41416-022-01842-2 |
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Seyed-Ahmad Ahmadi, Johann Frei, Gerome Vivar, Marianne Dieterich and Valerie Kirsch. 2022. IE-Vnet: deep learning-based segmentation of the inner ear's total fluid space. Frontiers in Neurology 13, 663200. DOI: 10.3389/fneur.2022.663200 |
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Florian Auer, Simone Mayer and Frank Kramer. in press. MetaRelSubNetVis: referenceable network visualizations based on integrated patient data with group-wise comparison. preprint. |
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Adrian Pfleiderer, Dominik Müller and Frank Kramer. in press. Nucleus segmentation and analysis in breast cancer with the MIScnn framework. preprint. |
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Florian Auer and Frank Kramer. 2022. RCX — an R package adapting the Cytoscape Exchange format for biological networks. Bioinformatics Advances 2, 1, vbac020. DOI: 10.1093/bioadv/vbac020 |
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Florian Auer, Hryhorii Chereda, Júlia Perera-Bel and Frank Kramer. in press. Reproducible data integration and visualization of biological networks in R. preprint. |
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Dominik Müller, I?aki Soto-Rey and Frank Kramer. 2022. Towards a guideline for evaluation metrics in medical image segmentation. BMC Research Notes 15, 1, 210. DOI: 10.1186/s13104-022-06096-y |
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2021 |
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Dennis Hartmann, Dominik Müller, I?aki Soto-Rey and Frank Kramer. in press. Assessing the role of random forests in medical image segmentation. preprint. |
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Manuel Manfred Nietert, Liza Vinhoven, Florian Auer, Sylvia Hafkemeyer and Frauke Stanke. 2021. Comprehensive analysis of chemical structures that have been tested as CFTR activating substances in a publicly available database CandActCFTR. Frontiers in Pharmacology 12, 689205. DOI: 10.3389/fphar.2021.689205 |
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Hryhorii Chereda, Annalen Bleckmann, Kerstin Menck, Júlia Perera-Bel, Philip Stegmaier, Florian Auer, Frank Kramer, Andreas Leha and Tim Bei?barth. 2021. Explaining decisions of graph convolutional neural networks: patient-specific molecular subnetworks responsible for metastasis prediction in breast cancer. Genome 伟德国际_伟德国际1946$娱乐app游戏icine 13, 1, 42. DOI: 10.1186/s13073-021-00845-7 |
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Dominik Müller and Frank Kramer. 2021. MIScnn: a framework for medical image segmentation with convolutional neural networks and deep learning. BMC 伟德国际_伟德国际1946$娱乐app游戏ical Imaging 21, 1, 12. DOI: 10.1186/s12880-020-00543-7 |
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J. Eduardo Martinez-Hernandez, Zaynab Hammoud, Alessandra Mara de Sousa, Frank Kramer, Rubens L. do Monte-Neto, Vinicius Maracaja-Coutinho and Alberto J. M. Martin. 2021. Network-based approaches reveal potential therapeutic targets for host-directed antileishmanial therapy driving drug repurposing. Microbiology Spectrum 9, 2, e01018-21. DOI: 10.1128/spectrum.01018-21 |
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M. Storck, S. Sandmann, P. Bruland, M. P. Pereira, S. Steinke, C. Riepe, I?aki Soto‐Rey, S. Garcovich, M. Augustin, C. Blome, S. Bobko, F. J. Legat, N. Potekaev, A. Lvov, L. Misery, W. Weger, A. Reich, E. ?avk, M. Streit, E. Serra‐Baldrich, J. C. Szepietowski, M. Dugas, S. St?nder and C. Zeidler. 2021. Pruritus intensity scales across Europe: a prospective validation study. Journal of the European Academy of Dermatology and Venereology 35, 5, 1176-1185. DOI: 10.1111/jdv.17111 |
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Dominik Müller, I?aki Soto-Rey and Frank Kramer. 2021. Robust chest CT image segmentation of COVID-19 lung infection based on limited data. Informatics in 伟德国际_伟德国际1946$娱乐app游戏icine Unlocked 25, 100681. DOI: 10.1016/j.imu.2021.100681 |
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2020 |
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Michael ?rtl, Felix Holl, Marina Fotteler, Frank Kramer, Andreas Mahler, Dominik Merli, Elisabeth Veronica Mess, Stefanie Schmid, Alexandra Teynor, Petra Friedrich and Walter Swoboda. 2020. Digitalizing nursing in the Bavarian Swabia region of Germany: presentation of the joint project CARE REGIO. Studies in Health Technology and Informatics 272, 265-266. DOI: 10.3233/shti200545 |
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Zaynab Hammoud and Frank Kramer. 2020. Multilayer networks: aspects, implementations, and application in biomedicine. Big Data Analytics 5, 1, 2. DOI: 10.1186/s41044-020-00046-0 |
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Zaynab Hammoud and Frank Kramer. 2020. Multipath: an R package to generate integrated reproducible pathway models. Biology 9, 12, 483. DOI: 10.3390/biology9120483 |
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2019 |
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Vijayalakshmi Kari, Sanjay Kumar Raul, Jana Maria Henck, Julia Kitz, Frank Kramer, Robyn Laura Kosinsky, Nadine ?belmesser, Wael Yassin Mansour, Jessica Eggert, Melanie Spitzner, Zeynab Najafova, Holger Bastians, Marian Grade, Jochen Gaedcke, Florian Wegwitz and Steven A. Johnsen. 2019. The histone methyltransferase DOT1L is required for proper DNA damage response, DNA repair, and modulates chemotherapy responsiveness. Clinical Epigenetics 11, 1, 4. DOI: 10.1186/s13148-018-0601-1 |
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2018 |
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Frank Kramer, Steffen Just and Tanja Zeller. 2018. New perspectives: systems medicine in cardiovascular disease. BMC Systems Biology 12, 1, 57. DOI: 10.1186/s12918-018-0579-5 |
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Zaynab Hammoud and Frank Kramer. 2018. mully: an R package to create, modify and visualize multilayered graphs. Genes 9, 11, 519. DOI: 10.3390/genes9110519 |
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Florian Auer, Zaynab Hammoud, Alexandr Ishkin, Dexter Pratt, Trey Ideker and Frank Kramer. 2018. ndexr — an R package to interface with the network data exchange. Bioinformatics 34, 4, 716-717. |
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2017 |
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Peter Jo, Azadeh Azizian, Junius Salendo, Frank Kramer, Markus Bernhardt, Hendrik Wolff, Jens Gruber, Marian Grade, Tim Bei?barth, B. Ghadimi and Jochen Gaedcke. 2017. Changes of microrna levels in plasma of patients with rectal cancer during chemoradiotherapy. International Journal of Molecular Sciences 18, 6, 1140. DOI: 10.3390/ijms18061140 |
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Georg Emons, Melanie Spitzner, Sebastian Reineke, Janneke M?ller, Noam Auslander, Frank Kramer, Yue Hu, Tim Beissbarth, Hendrik A. Wolff, Margret Rave-Fr?nk, Elisabeth He?mann, Jochen Gaedcke, B. Michael Ghadimi, Steven A. Johnsen, Thomas Ried and Marian Grade. 2017. Chemoradiotherapy resistance in colorectal cancer cells is mediated by Wnt/β-catenin signaling. Molecular Cancer Research 15, 11, 1481-1490. |
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2016 |
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Jochen Kruppa, Frank Kramer, Tim Bei?barth and Klaus Jung. 2016. A simulation framework for correlated count data of features subsets in high-throughput sequencing or proteomics experiments. Statistical Applications in Genetics and Molecular Biology 15, 5, 401-414. |
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Georg Emons, Melanie Spitzner, Sebastian Reineke, Frank Kramer, Margret Rave-Fraenk, Jochen Gaedcke, Michael Ghadimi, Thomas Ried and Marian Grade. 2016. Abstract 1653: a novel role for Wnt/β-catenin signaling in mediating resistance of colorectal cancer to chemoradiotherapy [Abstract]. Cancer Research 76, 14_Supplement, 1653. |
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Nirupama Benis, Dirkjan Schokker, Frank Kramer, Mari A. Smits and Maria Suarez-Diez. 2016. Building pathway graphs from BioPAX data in R. F1000Research 5, 2414. DOI: 10.12688/f1000research.9582.2 |
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Azadeh Azizian, Ingo Epping, Frank Kramer, Peter Jo, Markus Bernhardt, Julia Kitz, Gabriela Salinas, Hendrik Wolff, Marian Grade, Tim Bei?barth, B. Ghadimi and Jochen Gaedcke. 2016. Prognostic value of MicroRNAs in preoperative treated rectal cancer. International Journal of Molecular Sciences 17, 4, 568. DOI: 10.3390/ijms17040568 |
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2015 |
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Michaela Bayerlová, Klaus Jung, Frank Kramer, Florian Klemm, Annalen Bleckmann and Tim Bei?barth. 2015. Comparative study on gene set and pathway topology-based enrichment methods. BMC Bioinformatics 16, 1, 334. DOI: 10.1186/s12859-015-0751-5 |
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Michaela Bayerlová, Florian Klemm, Frank Kramer, Tobias Pukrop, Tim Bei?barth and Annalen Bleckmann. 2015. Newly constructed network models of different WNT signaling cascades applied to breast cancer expression data. PLoS ONE 10, 12, e0144014. DOI: 10.1371/journal.pone.0144014 |
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Azadeh Azizian, Frank Kramer, Peter Jo, Hendrik A. Wolff, Tim Bei?barth, Robert Skarupke, Markus Bernhardt, Marian Grade, B. Michael Ghadimi and Jochen Gaedcke. 2015. Preoperative prediction of lymph node status by circulating mir‐18b and mir‐20a during chemoradiotherapy in patients with rectal cancer. World Journal of Surgery 39, 9, 2329-2335. |
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2014 |
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Frank Kramer. 2014. Integration of pathway data as prior knowledge into methods for network reconstruction. Georg-August-Universit?t G?ttingen, G?ttingen. DOI: 10.53846/goediss-4729 |
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Frank Kramer, Michaela Bayerlová and Tim Bei?barth. 2014. R-based software for the integration of pathway data into bioinformatic algorithms. Biology 3, 1, 85-100. DOI: 10.3390/biology3010085 |
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Melanie Spitzner, Birte Roesler, Christian Bielfeld, Georg Emons, Jochen Gaedcke, Hendrik A. Wolff, Margret Rave‐Fr?nk, Frank Kramer, Tim Beissbarth, Julia Kitz, Jürgen Wienands, B. Michael Ghadimi, Reinhard Ebner, Thomas Ried and Marian Grade. 2014. STAT3 inhibition sensitizes colorectal cancer to chemoradiotherapy in vitro and in vivo. International Journal of Cancer 134, 4, 997-1007. |
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H. Landmann, D. A. Proia, S. He, L. S. Ogawa, Frank Kramer, T. Bei?barth, M. Grade, J. Gaedcke, M. Ghadimi, U. Moll and M. Dobbelstein. 2014. UDP glucuronosyltransferase 1A expression levels determine the response of colorectal cancer cells to the heat shock protein 90 inhibitor ganetespib. Cell Death & Disease 5, 9, e1411. DOI: 10.1038/cddis.2014.378 |
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2013 |
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Predrag Radivojac, Wyatt T. Clark, Tal Ronnen Oron, Alexandra M. Schnoes, Tobias Wittkop, Artem Sokolov, Kiley Graim, Christopher Funk, Karin Verspoor, Asa Ben-Hur, Gaurav Pandey, Jeffrey M. Yunes, Ameet S. Talwalkar, Susanna Repo, Michael L. Souza, Damiano Piovesan, Rita Casadio, Zheng Wang, Jianlin Cheng, Hai Fang, Julian Gough, Patrik Koskinen, Petri T?r?nen, Jussi Nokso-Koivisto, Liisa Holm, Domenico Cozzetto, Daniel W. A. Buchan, Kevin Bryson, David T. Jones, Bhakti Limaye, Harshal Inamdar, Avik Datta, Sunitha K. Manjari, Rajendra Joshi, Meghana Chitale, Daisuke Kihara, Andreas M. Lisewski, Serkan Erdin, Eric Venner, Olivier Lichtarge, Robert Rentzsch, Haixuan Yang, Alfonso E. Romero, Prajwal Bhat, Alberto Paccanaro, Tobias Hamp, Rebecca Ka?ner, Stefan Seemayer, Esmeralda Vicedo, Christian Schaefer, Dominik Achten, Florian Auer, Ariane Boehm, Tatjana Braun, Maximilian Hecht, Mark Heron, Peter H?nigschmid, Thomas A. Hopf, Stefanie Kaufmann, Michael Kiening, Denis Krompass, Cedric Landerer, Yannick Mahlich, Manfred Roos, Jari Bj?rne, Tapio Salakoski, Andrew Wong, Hagit Shatkay, Fanny Gatzmann, Ingolf Sommer, Mark N. Wass, Michael J. E. Sternberg, Nives ?kunca, Fran Supek, Matko Bo?njak, Pan?e Panov, Sa?o D?eroski, Tomislav ?muc, Yiannis A. I. Kourmpetis, Aalt D. J. van Dijk, Cajo J. F. ter Braak, Yuanpeng Zhou, Qingtian Gong, Xinran Dong, Weidong Tian, Marco Falda, Paolo Fontana, Enrico Lavezzo, Barbara Di Camillo, Stefano Toppo, Liang Lan, Nemanja Djuric, Yuhong Guo, Slobodan Vucetic, Amos Bairoch, Michal Linial, Patricia C. Babbitt, Steven E. Brenner, Christine Orengo, Burkhard Rost, Sean D. Mooney and Iddo Friedberg. 2013. A large-scale evaluation of computational protein function prediction. Nature Methods 10, 3, 221-227. DOI: 10.1038/nmeth.2340 |
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Amin Moghaddas Gholami, Hannes Hahne, Zhixiang Wu, Florian Auer, Chen Meng, Mathias Wilhelm and Bernhard Kuster. 2013. Global proteome analysis of the NCI-60 cell line panel. Cell Reports 4, 3, 609-620. DOI: 10.1016/j.celrep.2013.07.018 |
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Tobias Hamp, Rebecca Kassner, Stefan Seemayer, Esmeralda Vicedo, Christian Schaefer, Dominik Achten, Florian Auer, Ariane Boehm, Tatjana Braun, Maximilian Hecht, Mark Heron, Peter H?nigschmid, Thomas A. Hopf, Stefanie Kaufmann, Michael Kiening, Denis Krompass, Cedric Landerer, Yannick Mahlich, Manfred Roos and Burkhard Rost. 2013. Homology-based inference sets the bar high for protein function prediction. BMC Bioinformatics 14, S3, S7. DOI: 10.1186/1471-2105-14-s3-s7 |
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Junius Salendo, Melanie Spitzner, Frank Kramer, Xin Zhang, Peter Jo, Hendrik A. Wolff, Julia Kitz, Silke Kaulfu?, Tim Bei?barth, Matthias Dobbelstein, Michael Ghadimi, Marian Grade and Jochen Gaedcke. 2013. Identification of a microRNA expression signature for chemoradiosensitivity of colorectal cancer cells, involving miRNAs-320a, -224, -132 and let7g. Radiotherapy and Oncology 108, 3, 451-457. |
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A. Bleckmann, L. Siam, F. Klemm, E. Rietk?tter, Chr. Wegner, Frank Kramer, T. Beissbarth, C. Binder, Chr. Stadelmann and T. Pukrop. 2013. Nuclear LEF1/TCF4 correlate with poor prognosis but not with nuclear β-catenin in cerebral metastasis of lung adenocarcinomas. Clinical & Experimental Metastasis 30, 4, 471-482. DOI: 10.1007/s10585-012-9552-7 |
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Frank Kramer, Michaela Bayerlová, Florian Klemm, Annalen Bleckmann and Tim Bei?barth. 2013. rBiopaxParser — an R package to parse, modify and visualize BioPAX data. Bioinformatics 29, 4, 520-522. |
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2012 |
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Tanja Prenzel, Frank Kramer, Upasana Bedi, Sankari Nagarajan, Tim Beissbarth and Steven A. Johnsen. 2012. Cohesin is required for expression of the estrogen receptor-alpha (ESR1) gene. Epigenetics & Chromatin 5, 1, 13. DOI: 10.1186/1756-8935-5-13 |
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Amanda B. Hummon, Jason J. Pitt, Jordi Camps, Georg Emons, Susan B. Skube, Konrad Huppi, Tamara L. Jones, Tim Beissbarth, Frank Kramer, Marian Grade, Michael J. Difilippantonio, Thomas Ried and Natasha J. Caplen. 2012. Systems-wide RNAi analysis of CASP8AP2/FLASH shows transcriptional deregulation of the replication-dependent histone genes and extensive effects on the transcriptome of colorectal cancer cells. Molecular Cancer 11, 1, 1. DOI: 10.1186/1476-4598-11-1 |
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Oleksandra Karpiuk, Zeynab Najafova, Frank Kramer, Magali Hennion, Christina Galonska, Annekatrin K?nig, Nicolas Snaidero, Tanja Vogel, Andrei Shchebet, Yvonne Begus-Nahrmann, Moustapha Kassem, Mikael Simons, Halyna Shcherbata, Tim Beissbarth and Steven?A. Johnsen. 2012. The histone H2B monoubiquitination regulatory pathway is required for differentiation of multipotent stem cells. Molecular Cell 46, 5, 705-713. |
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2011 |
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Tanja Prenzel, Yvonne Begus-Nahrmann, Frank Kramer, Magali Hennion, Chieh Hsu, Theresa Gorsler, Corinna Hintermair, Dirk Eick, Elisabeth Kremmer, Mikael Simons, Tim Beissbarth and Steven A. Johnsen. 2011. Estrogen-dependent gene transcription in human breast cancer cells relies upon proteasome-dependent monoubiquitination of histone H2B. Cancer Research 71, 17, 5739-5753. |
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Emil Kendziorra, Kerstin Ahlborn, Melanie Spitzner, Margret Rave-Fr?nk, Georg Emons, Jochen Gaedcke, Frank Kramer, Hendrik A. Wolff, Heinz Becker, Tim Beissbarth, Reinhard Ebner, B.Michael Ghadimi, Tobias Pukrop, Thomas Ried and Marian Grade. 2011. Silencing of the Wnt transcription factor TCF4 sensitizes colorectal cancer cells to (chemo-) radiotherapy. Carcinogenesis 32, 12, 1824-1831. |
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F. Klemm, A. Bleckmann, L. Siam, H. N. Chuang, E. Rietk?tter, D. Behme, M. Schulz, M. Schaffrinski, S. Schindler, L. Trümper, Frank Kramer, T. Beissbarth, C. Stadelmann, C. Binder and T. Pukrop. 2011. β-catenin-independent WNT signaling in basal-like breast cancer and brain metastasis. Carcinogenesis 32, 3, 434-442. |
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2010 |
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Melanie Spitzner, Georg Emons, Frank Kramer, Jochen Gaedcke, Margret Rave-Fr?nk, Jens-Gerd Scharf, Peter Burfeind, Heinz Becker, Tim Beissbarth, B. Michael Ghadimi, Thomas Ried and Marian Grade. 2010. A gene expression signature for chemoradiosensitivity of colorectal cancer cells. International Journal of Radiation Oncology*Biology*Physics 78, 4, 1184-1192. |