Ralf Bundschuh

Publication Activity (10 Years)

Years Active: 1998-2022
Publications (10 Years): 6

Top Topics

Secondary Structure

Top Venues

PLoS Comput. Biol.

Briefings Bioinform.

Publications

Elan Shatoff, Ralf Bundschuh
dsRBPBind: modeling the effect of RNA secondary structure on double-stranded RNA-protein binding. Bioinform. 38 (3) (2022)
Elan Shatoff, Ralf Bundschuh
Single nucleotide polymorphisms affect RNA-protein interactions at a distance through modulation of RNA secondary structures. PLoS Comput. Biol. 16 (5) (2020)
Dengke Zhao, William D. Baez, Kurt Fredrick, Ralf Bundschuh
RiboProP: a probabilistic ribosome positioning algorithm for ribosome profiling. Bioinform. 35 (9) (2019)
Blythe S. Moreland, Kenji M. Oman, Ralf Bundschuh
A model of pulldown alignments from SssI-treated DNA improves DNA methylation prediction. BMC Bioinform. 20 (1) (2019)
Deepak Nag Ayyala, David E. Frankhouser, Javkhlan-Ochir Ganbat, Guido Marcucci, Ralf Bundschuh, Pearlly Yan, Shili Lin
Statistical methods for detecting differentially methylated regions based on MethylCap-seq data. Briefings Bioinform. 17 (6) (2016)
Ralf Bundschuh
The search for the determinants of insertional RNA editing in Physarum polycephalum mitochondrial RNAs. BICT (2015)
David E. Frankhouser, Mark Murphy, James S. Blachly, Jincheol Park, Mike W. Zoller, Javkhlan-Ochir Ganbat, John Curfman, John C. Byrd, Shili Lin, Guido Marcucci, Pearlly Yan, Ralf Bundschuh
PrEMeR-CG: inferring nucleotide level DNA methylation values from MethylCap-seq data. Bioinform. 30 (24) (2014)
Cai Chen, David Frankhouser, Ralf Bundschuh
. PLoS Comput. Biol. 8 (2) (2012)
Benjamin Rodriguez, Hok-Hei Tam, David Frankhouser, Michael Trimarchi, Mark Murphy, Chris Kuo, Deval Parikh, Bryan Ball, Sebastian Schwind, John Curfman, William Blum, Guido Marcucci, Pearlly Yan, Ralf Bundschuh
A scalable, flexible workflow for MethylCap-seq data analysis. GENSiPS (2011)
Yuheng Li, Nicholas Chia, Mario Lauria, Ralf Bundschuh
A performance enhanced PSI-BLAST based on hybrid alignment. Bioinform. 27 (1) (2011)
Robert A. Forties, Ralf Bundschuh
Modeling the interplay of single-stranded binding proteins and nucleic acid secondary structure. Bioinform. 26 (1) (2010)
Marianne M. Lee, Michael K. Chan, Ralf Bundschuh
SIB-BLAST: a web server for improved delineation of true and false positives in PSI-BLAST searches. Nucleic Acids Res. 37 (Web-Server-Issue) (2009)
Christina Beargie, Tsunglin Liu, Mark Corriveau, Ha Youn Lee, Jonatha Gott, Ralf Bundschuh
Genome annotation in the presence of insertional RNA editing. Bioinform. 24 (22) (2008)
Marianne M. Lee, Michael K. Chan, Ralf Bundschuh
Simple is beautiful: a straightforward approach to improve the delineation of true and false positives in PSI-BLAST searches. Bioinform. 24 (11) (2008)
Farhat Habib, Andrew D. Johnson, Ralf Bundschuh, Daniel Janies
Large scale genotype-phenotype correlation analysis based on phylogenetic trees. Bioinform. 23 (7) (2007)
Philipp W. Messer, Ralf Bundschuh, Martin Vingron, Peter F. Arndt
Effects of Long-Range Correlations in DNA on Sequence Alignment Score Statistics. J. Comput. Biol. 14 (5) (2007)
Philipp W. Messer, Ralf Bundschuh, Martin Vingron, Peter F. Arndt
Alignment Statistics for Long-Range Correlated Genomic Sequences. RECOMB (2006)
Nicholas Chia, Ralf Bundschuh
A Practical Approach to Significance Assessment in Alignment with Gaps. J. Comput. Biol. 13 (2) (2006)
Nicholas Chia, Ralf Bundschuh
A Practical Approach to Significance Assessment in Alignment with Gaps. RECOMB (2005)
Yuheng Li, Mario Lauria, Ralf Bundschuh
Suboptimal Alignments Improve the Detection of Weak Homologs in Sequence Database Searches. BIBE (2005)
Yuheng Li, Mario Lauria, Ralf Bundschuh
Using hybrid alignment for iterative sequence database searches. Concurr. Pract. Exp. 16 (9) (2004)
Ralf Bundschuh
Computational prediction of RNA editing sites. Bioinform. 20 (17) (2004)
Yuheng Li, Mario Lauria, Ralf Bundschuh
Using Hybrid Alignment for Iterative Sequence Database Searches. IPDPS (2003)
Yi-Kuo Yu, Ralf Bundschuh, Terence Hwa
Hybrid alignment: high-performance with universal statistics. Bioinform. 18 (6) (2002)
Ralf Bundschuh
Rapid Significance Estimation in Local Sequence Alignment with Gaps. J. Comput. Biol. 9 (2) (2002)
Ralf Bundschuh
Rapid significance estimation in local sequence alignment with gaps. RECOMB (2001)
Ralf Bundschuh
An analytic approach to significance assessment in local sequence alignment with gaps. RECOMB (2000)
Ralf Bundschuh, Terence Hwa
An analytic study of the phase transition line in local sequence alignment with gaps. Discret. Appl. Math. 104 (1-3) (2000)
Rolf Olsen, Ralf Bundschuh, Terence Hwa
Rapid Assessment of Extremal Statistics for Gapped Local Alignment. ISMB (1999)
Ralf Bundschuh, Terence Hwa
Detectability of Sequence Homology by DNA Hybridization. German Conference on Bioinformatics (1998)