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Profile
| Academic position | Currently without academic position |
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| Research fields | Bioinformatics and Theoretical Biology,Image and Language Processing, Computer Graphics and Visualisation, Human Computer Interaction, Ubiquitous and Wearable Computing |
| Keywords | Large Language Models, Computational Biology, Machine Learning, transcriptional regulation, Plant Metabolic Pathways |
| Honours and awards | 2020: Bertelsmann Technology Scholarship 2014: Feodor Lynen Research Fellowship for Postdoctoral Researchers - Alexander von Humboldt Foundation 2010: Honorable Mention, Outstanding Graduate Student - Graduation Ceremony, Naturwissenschaftlich Technische Fakultät, University of Siegen 2002: Award for Excellence in Physics - German Physics Society |
Current contact address
| Country | Germany |
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| City | München |
| Institution | Perelyn GmbH |
Host during sponsorship
| Dr. Seung Yon Rhee | Department of Plant Biology, Carnegie Institution for Science, Stanford |
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| Prof. Dr. Christopher R. Somerville | Energy Sciences Institute, University of California, Berkeley, Berkeley |
| Start of initial sponsorship | 01/02/2015 |
Programme(s)
| 2014 | Feodor Lynen Research Fellowship Programme for Postdocs |
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Publications (partial selection)
| 2019 | Choobdar, Sarvenaz and Ahsen, Mehmet E. and Crawford, Jake and Tomasoni, Mattia and Fang, Tao and Lamparter, David and Lin, Junyuan and Hescott, Benjamin and Hu, Xiaozhe and Mercer, Johnathan and Natoli, Ted and Narayan, Rajiv and Aicheler, Fabian and Amoroso, Nicola and Arenas, Alex and Azhagesan, Karthik and Baker, Aaron and Banf, Michael and Batzoglou, Serafim and Baudot, Anaïs and Bellotti, Roberto and Bergmann, Sven and Boroevich, Keith A. and Brun, Christine and Cai, Stanley and Caldera, Michael and Calderone, Alberto and Cesareni, Gianni and Chen, Weiqi and Chichester, Christine and Choobdar, Sarvenaz and Cowen, Lenore and Crawford, Jake and Cui, Hongzhu and Dao, Phuong and De Domenico, Manlio and Dhroso, Andi and Didier, Gilles and Divine, Mathew and del Sol, Antonio and Fang, Tao and Feng, Xuyang and Flores-Canales, Jose C. and Fortunato, Santo and Gitter, Anthony and Gorska, Anna and Guan, Yuanfang and Guénoche, Alain and Gómez, Sergio and Hamza, Hatem and Hartmann, András and He, Shan and Heijs, Anton and Heinrich, Julian and Hescott, Benjamin and Hu, Xiaozhe and Hu, Ying and Huang, Xiaoqing and Hughitt, V. Keith and Jeon, Minji and Jeub, Lucas and Johnson, Nathan T. and Joo, Keehyoung and Joung, InSuk and Jung, Sascha and Kalko, Susana G. and Kamola, Piotr J. and Kang, Jaewoo and Kaveelerdpotjana, Benjapun and Kim, Minjun and Kim, Yoo-Ah and Kohlbacher, Oliver and Korkin, Dmitry and Krzysztof, Kiryluk and Kunji, Khalid and Kutalik, Zoltàn and Lage, Kasper and Lamparter, David and Lang-Brown, Sean and Le, Thuc Duy and Lee, Jooyoung and Lee, Sunwon and Lee, Juyong and Li, Dong and Li, Jiuyong and Lin, Junyuan and Liu, Lin and Loizou, Antonis and Luo, Zhenhua and Lysenko, Artem and Ma, Tianle and Mall, Raghvendra and Marbach, Daniel and Mattia, Tomasoni and Medvedovic, Mario and Menche, Jörg and Mercer, Johnathan and Micarelli, Elisa and Monaco, Alfonso and Müller, Felix and Narayan, Rajiv and Narykov, Oleksandr and Natoli, Ted and Norman, Thea and Park, Sungjoon and Perfetto, Livia and Perrin, Dimitri and Pirrò, Stefano and Przytycka, Teresa M. and Qian, Xiaoning and Raman, Karthik and Ramazzotti, Daniele and Ramsahai, Emilie and Ravindran, Balaraman and Rennert, Philip and Saez-Rodriguez, Julio and Schärfe, Charlotta and Sharan, Roded and Shi, Ning and Shin, Wonho and Shu, Hai and Sinha, Himanshu and Slonim, Donna K. and Spinelli, Lionel and Srinivasan, Suhas and Subramanian, Aravind and Suver, Christine and Szklarczyk, Damian and Tangaro, Sabina and Thiagarajan, Suresh and Tichit, Laurent and Tiede, Thorsten and Tripathi, Beethika and Tsherniak, Aviad and Tsunoda, Tatsuhiko and Türei, Dénes and Ullah, Ehsan and Vahedi, Golnaz and Valdeolivas, Alberto and Vivek, Jayaswal and von Mering, Christian and Waagmeester, Andra and Wang, Bo and Wang, Yijie and Weir, Barbara A. and White, Shana and Winkler, Sebastian and Xu, Ke and Xu, Taosheng and Yan, Chunhua and Yang, Liuqing and Yu, Kaixian and Yu, Xiangtian and Zaffaroni, Gaia and Zaslavskiy, Mikhail and Zeng, Tao and Zhang, Jitao D. and Zhang, Lu and Zhang, Weijia and Zhang, Lixia and Zhang, Xinyu and Zhang, Junpeng and Zhou, Xin and Zhou, Jiarui and Zhu, Hongtu and Zhu, Junjie and Zuccon, Guido and Subramanian, Aravind and Zhang, Jitao D. and Stolovitzky, Gustavo and Kutalik, Zoltán and Lage, Kasper and Slonim, Donna K. and Saez-Rodriguez, Julio and Cowen, Lenore J. and Bergmann, Sven and Marbach, Daniel and Consortium, The DREAM Module Identification Challenge: Assessment of network module identification across complex diseases. In: Nature Methods, 16, 2019, 843--852 |
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| 2019 | Banf, Michael and Zhao, Kangmei and Rhee, Seung Y: METACLUSTER—an R package for context-specific expression analysis of metabolic gene clusters. In: Bioinformatics, 35, 2019, 3178-3180 |
| 2018 | Banf, Michael Network Module Detection using Recursive Local Graph Sparsification and Clustering. In: preprints, 2018, |
| 2017 | Banf, M. and Rhee, S. Y. Enhancing gene regulatory network inference through data integration with markov random fields. In: Scientific Reports, Nature publishing group, 2017, |
| 2017 | P. Schlaepfer., Wang, C., Zhang, P., Kim, T., Banf, M., Chae, L., Dreher, K., Chavali, A.K., Nilo-Poyanco R., Bernhard, T., Kahn, D. and Rhee, S.Y., Genome-wide prediction of metabolic enzymes, pathways, and gene clusters in plants. In: Plant Physiology, 2017, |
| 2016 | Banf, M., and Rhee, S. Y.: Computational Inference of Gene Regulatory Networks: Approaches, Limitations and Opportunities. In: Biochimica et Biophysica Acta - Gene Regulatory Mechanisms, 2016, |
| 2016 | Zheng, Y., Jia, C., Sun, H., Rosli, H., Pombo, M., Zhang, P., Banf, M., Dai, X., Martin, G., Giovannoni, J., Zhao, P., Rhee, S.Y. and Fei,: iTAK: a program for genome-wide prediction and classification of plant transcription factors, transcriptional regulators, and protein kinases. In: Molecular Plant, 2016, 1667-1670 |
| 2015 | De Klein, N., Magnani, E., Banf, M. and Rhee, S.Y: microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors. In: International Journal of Genomics, 2015, |
| n.n. | Dhami, Manpreet K. and Hartwig, Thomas and Letten, Andrew D. and Banf, Michael and Fukami, Tadashi: Genomic diversity of a nectar yeast clusters into metabolically, but not geographically, distinct lineages. In: Molecular Ecology, n.n., |