Ulrich Bodenhofer's Publications
[Overview | Books | Theses | Editorial | Book Ch. | Int. J. | Nat. J. | Conf. | Tech. Rep. | Abstr.]
Electronic reprints/preprints are sent on request by e-mail free of charge ().
Extended Abstracts and Poster Abstracts
| [50] | J. Palme, S. Hochreiter, and U. Bodenhofer. KeBABS: an R/Bioconductor package for kernel-based analysis of biological sequences. In 65th Annual Meeting of the American Society of Human Genetics, Baltimore, October 2015. (poster). [ bib | .pdf ] |
| [49] | U. Bodenhofer and S. Hochreiter. PODKAT: a software package implementing the position-dependent kernel association test. In 65th Annual Meeting of the American Society of Human Genetics, Baltimore, October 2015. (poster). [ bib | .pdf ] |
| [48] | U. Bodenhofer and S. Hochreiter. Utilizing private variants in large genome-wide association studies: Issues, techniques, experiences. In 64th Annual Meeting of the American Society of Human Genetics, San Diego, October 2014. (poster). [ bib | .pdf ] |
| [47] | U. Bodenhofer and S. Hochreiter. PODKAT: a non-burden test for associating complex traits with rare and private variants. In 63rd Annual Meeting of the American Society of Human Genetics, Boston, October 2013. (poster). [ bib | .pdf ] |
| [46] | A. M. Lipp, K. Juhasz, C. Paar, C. Ogris, P. Eckerstorfer, R. Thuenauer, J. Hesse, H. Stockinger, G. Schütz, U. Bodenhofer, Z. Balogi, and A. Sonnleitner. Lck mediates signal transmission from CD59 to the TCR/CD3 pathway in Jurkat T cells. In 15th Int. Congress on Immunology, Milan, August 2013. [ bib | DOI ] |
| [45] | D.-A. Clevert, M. Heusel, G. Klambauer, A. Mayr, A. Mitterecker, U. Bodenhofer, and S. Hochreiter. Bicluster analysis in drug discovery. In 21st Annual Int. Conf. on Intelligent Systems for Molecular Biology & 12th Europ. Conf. on Computational Biology, Berlin, July 2013. (poster). [ bib ] |
| [44] | U. Bodenhofer and S. Hochreiter. Associating complex traits with rare variants identified by NGS: improving power by a position-dependent kernel approach. In 62nd Annual Meeting of the American Society of Human Genetics, San Francisco, November 2012. [ bib | .pdf ] |
| [43] | U. Bodenhofer and S. Hochreiter. Improving the power of rare-variant association tests by a position-dependent kernel approach. In 13th Int. Meeting on Human Genome Variation and Complex Genome Analysis, Shanghai, September 2012. (poster). [ bib ] |
| [42] | U. Bodenhofer, K. Schwarzbauer, and S. Hochreiter. Genome-wide chromatin remodeling identified at GC-rich long nucleosome-free regions. In 20th Annual Int. Conf. on Intelligent Systems for Molecular Biology, Long Beach, CA, July 2012. (poster). [ bib ] |
| [41] | G. Klambauer, K. Schwarzbauer, A. Mayr, D.-A. Clevert, A. Mitterecker, U. Bodenhofer, and S. Hochreiter. cn.MOPS: mixture of Poissons for discovering copy number variations in next-generation sequencing data with a low false discovery rate. In 20th Annual Int. Conf. on Intelligent Systems for Molecular Biology, Long Beach, CA, July 2012. (poster). [ bib ] |
| [40] | M. Heusel, D.-A. Clevert, G. Povysil, G. Klambauer, U. Bodenhofer, A. Mayr, A. Mitterecker, A. Kasim, T. Khamiakova, S. Van Sanden, D. Lin, W. Talloen, H. W. H. Göhlmann, L. Bijnens, Z. Shkedy, and S. Hochreiter. FABIA: biclustering in drugdesign. In 20th Annual Int. Conf. on Intelligent Systems for Molecular Biology, Long Beach, CA, July 2012. (poster). [ bib ] |
| [39] | S. Hochreiter, U. Bodenhofer, M. Heusel, A. Mayr, A. Mitterecker, A. Kasim, T. Khamiakova, S. Van Sanden, D. Lin, W. Talloen, L. Bijnens, H. W. H. Göhlmann, Z. Shkedy, and D.-A. Clevert. FABIA: factor analysis for bicluster acquisition. In 19th Annual Int. Conf. on Intelligent Systems for Molecular Biology & 10th Europ. Conf. on Computational Biology, Vienna, June/July 2011. (poster). [ bib | .pdf ] |
| [38] | N. Chelbat, U. Bodenhofer, and S. Hochreiter. Possible sources of wrongly performing probes: from oligonucleotides arrays to NGS. In 19th Annual Int. Conf. on Intelligent Systems for Molecular Biology & 10th Europ. Conf. on Computational Biology, Vienna, June/July 2011. (poster). [ bib ] |
| [37] | K. Schwarzbauer, U. Bodenhofer, and S. Hochreiter. Genome-wide chromatin remodeling at G/C-rich long nucleosome-free regions containing SP1 and MAZ binding sites. In 19th Annual Int. Conf. on Intelligent Systems for Molecular Biology & 10th Europ. Conf. on Computational Biology, Vienna, June/July 2011. (poster). [ bib ] |
| [36] | P. Corral, A. Mu noz Mérida, N. Chelbat, G. Klambauer, U. Bodenhofer, A. Mayr, A. Mitterecker, S. Hochreiter, and O. Trelles. Collaborative action between spain and austria to enhance the application of high performance computing to high throughput technologies. In 19th Annual Int. Conf. on Intelligent Systems for Molecular Biology & 10th Europ. Conf. on Computational Biology, Vienna, June/July 2011. (poster). [ bib ] |
| [35] | C. C. Mahrenholz, I. G. Abfalter, U. Bodenhofer, R. Volkmer, and S. Hochreiter. Complex networks govern coiled coil oligomerization — predicting and profiling by means of a machine learning approach. In 19th Annual Int. Conf. on Intelligent Systems for Molecular Biology & 10th Europ. Conf. on Computational Biology, Vienna, June/July 2011. (poster). [ bib | .pdf ] |
| [34] | J. Ríos, N. Chelbat, A. Mu noz Mérida, V. Martín-Requena, J. M. Mateos-Durán, H. Benzekri, G. Klambauer, U. Bodenhofer, A. Mayr, A. Mitterecker, S. Hochreiter, and O. Trelles. Collaborative action for the promotion of HPC applied to NGS. In X Jornadas de Bioinformática, Torremolinos, October 2010. (poster). [ bib ] |
| [33] | N. Chelbat, U. Bodenhofer, and S. Hochreiter. Possible sources of wrongly performing probes on Affymetrix GeneChip® platforms. In X Jornadas de Bioinformática, Torremolinos, October 2010. (poster). [ bib ] |
| [32] | C. C. Mahrenholz, I. G. Abfalter, U. Bodenhofer, R. Volkmer, and S. Hochreiter. Complex networks govern coiled coil oligomerization: a multi-method approach. In 31st Europ. Peptide Symp., Copenhagen, September 2010. (poster). [ bib | DOI ] |
| [31] | U. Bodenhofer, A. Kothmeier, I. G. Abfalter, C. C. Mahrenholz, and S. Hochreiter. Decoding sequence classification models for acquiring new biological insights. In 18th Annual Int. Conf. on Intelligent Systems for Molecular Biology, Boston, MA, July 2010. (poster). [ bib | .pdf ] |
| [30] | C. C. Mahrenholz, I. G. Abfalter, U. Bodenhofer, R. Volkmer, and S. Hochreiter. PrOCoil — advances in predicting two- and three-stranded coiled coils. In 18th Annual Int. Conf. on Intelligent Systems for Molecular Biology, Boston, MA, July 2010. (poster). [ bib | .pdf ] |
| [29] | S. Hochreiter, U. Bodenhofer, M. Heusel, A. Mayr, A. Mitterecker, A. Kasim, T. Khamiakova, S. Van Sanden, D. Lin, W. Talloen, L. Bijnens, H. W. H. Göhlmann, Z. Shkedy, and D.-A. Clevert. FABIA: factor analysis for bicluster acquisition. In 18th Annual Int. Conf. on Intelligent Systems for Molecular Biology, Boston, MA, July 2010. (poster). [ bib | .pdf ] |
| [28] | N. Chelbat, A. Kasim, U. Bodenhofer, W. Talloen, S. Hochreiter, Z. Shkedy, and H. W. H. Göhlmann. Identification of non reliable probes on customized affymetrix mouse430_2 platform. In 18th Annual Int. Conf. on Intelligent Systems for Molecular Biology, Boston, MA, July 2010. (poster). [ bib | .pdf ] |
| [27] | A. Lipp, C. Paar, U. Bodenhofer, and A. Sonnleitner. Systematic characterization of initial calcium signaling in T cells. In Biophysical Society 54th Annual Meeting, San Francisco, CA, February 2010. [ bib | DOI ] |
| [26] | L. Běhounek, U. Bodenhofer, P. Cintula, S. Saminger-Platz, and P. Sarkoci. Graded properties of dominance. In Abstracts 10th. Int. Conf. on Fuzzy Set Theory and Applications, page 31, Liptovský Ján, February 2010. [ bib | .pdf ] |
| [25] | L. Běhounek, U. Bodenhofer, P. Cintula, S. Saminger-Platz, and P. Sarkoci. Graded properties of t-norms. In Abstracts 10th. Int. Conf. on Fuzzy Set Theory and Applications, page 30, Liptovský Ján, February 2010. [ bib | .pdf ] |
| [24] | U. Bodenhofer, W. Lichtberger, and F. Klawonn. Prediction of prokaryotic transcription units from microarray data revisited. In 17th Annual Int. Conf. on Intelligent Systems for Molecular Biology & 8th Europ. Conf. on Computational Biology, Stockholm, June/July 2009. (poster). [ bib | .pdf ] |
| [23] | N. Chelbat, U. Bodenhofer, and S. Hochreiter. Filtering and identifying non-reliable probes in Affymetrix GeneChip® platforms. In 17th Annual Int. Conf. on Intelligent Systems for Molecular Biology & 8th Europ. Conf. on Computational Biology, Stockholm, June/July 2009. (poster). [ bib | .pdf ] |
| [22] | I. G. Abfalter, C. C. Mahrenholz, U. Bodenhofer, and S. Hochreiter. New insights into coiled coil formation by means of support vector machines. In 17th Annual Int. Conf. on Intelligent Systems for Molecular Biology & 8th Europ. Conf. on Computational Biology, Stockholm, June/July 2009. (poster). [ bib | .pdf ] |
| [21] | C. C. Mahrenholz, I. G. Abfalter, U. Bodenhofer, R. Volkmer, and S. Hochreiter. Defining distinctive rules for stoichiometry and recognition of coiled coil proteins using bioinformatical methods. In 9th German Peptide Symposium, Göttingen, March 2009. (poster). [ bib ] |
| [20] | A.-M. Lipp, C. Paar, W. Paster, H. Stockinger, U. Bodenhofer, and A. Sonnleitner. Characterizing calcium signaling in T cells. In 6th GEN-AU Summerschool, Litschau, September 2008. (poster). [ bib | .pdf ] |
| [19] | I. G. Abfalter, C. C. Mahrenholz, U. Bodenhofer, and S. Hochreiter. Analyzing coiled coil proteins with support vector machines to design new anti-viral drugs. In 16th Annual Int. Conf. on Intelligent Systems for Molecular Biology, Toronto, July 2008. (poster). [ bib | .pdf ] |
| [18] | L. Běhounek, U. Bodenhofer, P. Cintula, and S. Saminger-Platz. Graded dominance. In E. P. Klement, S. E. Rodabough, and L. N. Stout, editors, Abstracts 29th Linz Seminar on Fuzzy Set Theory, pages 11–14, Linz, February 2008. [ bib | .pdf ] |
| [17] | U. Bodenhofer. Similarity-based fuzzy orderings: recent advances. In Abstracts 8th Int. Conf. on Fuzzy Sets Theory and Its Applications, pages 26–27, Liptovský Ján, February 2006. [ bib | .pdf ] |
| [16] | J. Fodor, B. De Baets, and U. Bodenhofer. Fuzzy weak orders — construction and characterization. In Proc. 61st MCDA Workshop, 2005. [ bib ] |
| [15] | U. Bodenhofer, L. Běhounek, and P. Cintula. Relations in higher-order fuzzy logic III. In J. Fodor, E. P. Klement, and M. Roubens, editors, Abstracts 26th Linz Seminar on Fuzzy Set Theory, pages 20–22, Linz, February 2005. [ bib | .pdf ] |
| [14] | M. Drobics, U. Bodenhofer, and M. Mittendorfer-Holzer. A three-stage approach to descriptive data analysis: Identifying clusters and corresponding interpretable descriptions from large data sets. In Proc. 7th COST Action 276 Workshop, Ankara, Turkey, November 2004. [ bib | .pdf ] |
| [13] | U. Bodenhofer, B. De Baets, and J. Fodor. A review of construction and representation results for fuzzy weak orders. In E. P. Klement and E. Pap, editors, Abstracts 25th Linz Seminar on Fuzzy Set Theory, pages 27–28, Linz, February 2004. [ bib | .pdf ] |
| [12] | U. Bodenhofer. Fuzzy rule-based machine learning in process modeling. In Abstracts 7th Int. Conf. on Fuzzy Sets Theory and Its Applications, pages 7–8, Liptovský Ján, February 2004. [ bib | .pdf ] |
| [11] | U. Bodenhofer. Fuzzy Logic-basiertes Machine Learning in der Prozessmodellierung. In Tagungsunterlagen 2. Industrielles Symposium Mechatronik, pages 36–37, Linz, May 2003. [ bib | .pdf ] |
| [10] | U. Bodenhofer. Applications of fuzzy orderings: an overview. In E. P. Klement and R. Mesiar, editors, Abstracts 24th Linz Seminar on Fuzzy Set Theory, pages 121–122, Linz, February 2003. [ bib | .pdf ] |
| [9] | S. Saminger, R. Mesiar, and U. Bodenhofer. t-transitivity and domination. In P. Diamond and E. P. Klement, editors, Abstracts 23rd Linz Seminar on Fuzzy Set Theory, pages 55–59, Linz, February 2002. [ bib | .pdf ] |
| [8] | U. Bodenhofer. Monotonicity in vague environments. In P. Diamond and E. P. Klement, editors, Abstracts 23rd Linz Seminar on Fuzzy Set Theory, pages 9–10, Linz, February 2002. [ bib | .pdf ] |
| [7] | S. Saminger and U. Bodenhofer. Aggregation in evaluation of computer-aided assessment. In Abstracts 6th Int. Conf. on Fuzzy Sets Theory and Its Applications, pages 110–111, Liptovský Ján, February 2002. [ bib | .pdf ] |
| [6] | U. Bodenhofer and S. Saminger. Transitivity-preserving aggregation of fuzzy relations. In Abstracts 6th Int. Conf. on Fuzzy Sets Theory and Its Applications, pages 36–37, Liptovský Ján, February 2002. [ bib | .pdf ] |
| [5] | U. Bodenhofer. Linearity axioms for fuzzy orderings: concepts, properties, and difficulties. In E. P. Klement and M. Roubens, editors, Abstracts 22nd Linz Seminar on Fuzzy Set Theory, pages 19–21, Linz, February 2001. [ bib | .pdf ] |
| [4] | U. Bodenhofer, M. De Cock, and E. E. Kerre. Opening and closure operators of fuzzy preorderings: basic properties and applications to fuzzy rule-based systems. In Abstracts 21st Linz Seminar on Fuzzy Set Theory, pages 29–30, Linz, June 2000. [ bib | .pdf ] |
| [3] | U. Bodenhofer. Generalized congruence and closures: basic properties and applications to fuzzy rule-based systems. In Abstracts 5th Int. Conf. on Fuzzy Sets Theory and Its Applications, page 46, Liptovský Ján, February 2000. [ bib | .pdf ] |
| [2] | U. Bodenhofer. Overcoming the “crispness” of fuzzy orderings. In Abstracts COST Action 15 WG2/WG3 Meeting, Mariehamn, 1998. [ bib | .pdf ] |
| [1] | U. Bodenhofer. A new approach to fuzzy orderings. In Abstracts 4th Int. Conf. on Fuzzy Sets Theory and Its Applications, pages 12–13, Liptovský Ján, February 1998. [ bib | .pdf ] |
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