Dr Ralf Andreas Bundschuh
2010 Physics Research Building
191 W Woodruff Ave
Columbus, OH 43210
Phone: (614) 688-3978
Email: bundschuh.2@osu.edu
Current OSU Appointment
Associate Professor, Physics
Degrees
| 1989 |
Vordiplom, University of Cologne, Mathematics and Physics |
| 1993 |
Diploma, University of Cologne, Physics and Mathematics |
| 1996 |
Ph.D., Universität Potsdam, Theoretical Physics |
| 1997 |
Postdoctoral, University of Cologne, Physics |
| 2001 |
Postdoctoral, University of California, San Diego, Biophysics |
Editorial Activities
Editorial Board
Grant Reviewer
| Ohio Supercomputer Center (2). |
| Los Alamos National Laboratory internal grant competition (1). |
| Israel Science Foundation (2). |
| Dutch National Science Foundation (1). |
| German Research Foundation (1). |
| US-Israeli Binational Science Foundation (1). |
| Biological Physics Program of the National Science Foundation (1). |
| Division of Molecular and Cellular Biology of the National Science Foundation (3). |
| Materials Theory Program of the National Science Foundation (7). |
| Division of Biological Infrastructure of the National Science Foundation (5). |
| Plant Genome Program of the National Science Foundation (1). |
Peer Reviewer
| IEEE Transacations on Parallel and Distributed Systems. |
| Algorithms for Molecular Biology. |
| Journal of Statistical Physics. |
| PLoS Computational Biology. |
| Proceedings of the National Academy of Sciences. |
| European Physical Journal B. |
| International Journal of Modern Physics. |
| Journal of Computational Biology. |
| Journal of Theoretical Biology. |
| Journal of Physics - Condensed Matter. |
| Journal of Physical Chemistry. |
| Journal of Chemical Physics. |
| Journal of Applied Probability. |
| Macromolecular Theory and Simulations. |
| Biophysical Reviews & Letters. |
Review Board
| Department of Energy grant review panel member. |
| Proposal Review Panel member for the National Science Foundation (5). |
Honors
| 1999 | Outstanding paper award. |
| 2000 | Best paper by young scientist award. |
Memberships
| 2005 - 2007 | Member. American Physical Society. Nominating Committee of the Division of Biological Physics |
| 2006 - 2007 | Member. American Physical Society. Committee to reorganize section 87 (Biological Physics) of the PACS scheme |
Peer Reviewed Journal Articles
Bundschuh, Ralf. "Rapid significance estimation in local sequence alignment with gaps." Journal of computational biology : a journal of computational molecular cell biology. Vol. 9, no. 2. (2002): 243-60.
Yu, Yi-Kuo; Bundschuh, Ralf; Hwa, Terence. "Hybrid alignment: high-performance with universal statistics." Bioinformatics (Oxford, England). Vol. 18, no. 6. (2002): 864-72.
Gerland, Ulrich; Bundschuh, Ralf; Hwa, Terence. "Mechanically probing the folding pathway of single RNA molecules." Biophysical journal. Vol. 84, no. 5. (2003): 2831-40.
Chia, Nicholas; Bundschuh, Ralf. "Finite width model sequence comparison." Physical review. E, Statistical, nonlinear, and soft matter physics. Vol. 70, no. 2 Pt 1. (2004): 021906.
Gerland, Ulrich; Bundschuh, Ralf; Hwa, Terence. "Translocation of structured polynucleotides through nanopores." Physical biology. Vol. 1, no. 1-2. (2004): 19-26.
Liu, Tsunglin; Bundschuh, Ralf. "Analytical description of finite size effects for RNA secondary structures." Physical review. E, Statistical, nonlinear, and soft matter physics. Vol. 69, no. 6 Pt 1. (2004): 061912.
Bundschuh, Ralf; Gerland, Ulrich. "Coupled dynamics of RNA folding and nanopore translocation." Physical review letters. Vol. 95, no. 20. (2005): 208104.
Gott, Jonatha, M; Parimi, Neeta; Bundschuh, Ralf. "Discovery of new genes and deletion editing in Physarum mitochondria enabled by a novel algorithm for finding edited mRNAs." Nucleic acids research. Vol. 33, no. 16. (2005): 5063-72.
Habib, Farhat; Bundschuh, Ralf. "Modeling DNA unzipping in the presence of bound proteins." Physical review. E, Statistical, nonlinear, and soft matter physics. Vol. 72, no. 3 Pt 1. (2005): 031906.
Liu, Tsunglin; Bundschuh, Ralf. "Model for codon position bias in RNA editing." Physical review letters. Vol. 95, no. 8. (2005): 088101.
Liu, Tsunglin; Bundschuh, Ralf. "Quantification of the differences between quenched and annealed averaging for RNA secondary structures." Physical review. E, Statistical, nonlinear, and soft matter physics. Vol. 72, no. 6 Pt 1. (2005): 061905.
Chia, Nicholas; Bundschuh, Ralf. "A practical approach to significance assessment in alignment with gaps." Journal of computational biology : a journal of computational molecular cell biology. Vol. 13, no. 2. (2006): 429-41.
Guttal, Vishwesha; Bundschuh, Ralf. "Model for folding and aggregation in RNA secondary structures." Physical review letters. Vol. 96, no. 1. (2006): 018105.
Habib, Farhat; Johnson, Andrew, D; Bundschuh, Ralf; Janies, Daniel. "Large scale genotype-phenotype correlation analysis based on phylogenetic trees." Bioinformatics (Oxford, England). Vol. 23, no. 7. (2007): 785-8.
Itaya, Asuka; Zhong, Xuehua; Bundschuh, Ralf; Qi, Yijun; Wang, Ying; Takeda, Ryuta; Harris, Ann, R; Molina, Carlos; Nelson, Richard, S; Ding, Biao. "A structured viroid RNA serves as a substrate for dicer-like cleavage to produce biologically active small RNAs but is resistant to RNA-induced silencing complex-mediated degradation." Journal of virology. Vol. 81, no. 6. (2007): 2980-94.
Professional Activities
Conference Participation
| 2001 | Organization of a three-week section on sequence alignment and RNA folding of the workshop "Statistical Physics of Biological Information". Moderator. |
| 2002 - 2008 | Poster judge at Rustbelt RNA meeting. Reviewer. |
| 2003 | Grand awards judge. Reviewer. |
| 2003 - 2005 | Special awards judge at the Ohio State Science Fair. Reviewer. |
| 2004 | Co-organizer of a workshop on "Regulatory Networks". Co-organizer. |
| 2005 | Organizing committee chair for the ``Biological Membranes'' workshop. Chair of organization commitee. |
| 2006 | Vice chair of Rustbelt RNA meeting. Vice chair. |
| 2006 | Poster judge. Reviewer. |
| 2007 | Chair of Rustbelt RNA meeting. Chair. |
Consultation
| 2001 - present | Moderator of the "Genomics'' and "Quantitative Methods'' subsections of the q-bio preprint archive. Education. |
| 2004 | Ad hoc member of a Board of Scientific Counselors. Government. |
