Ivo L. Hofacker

2008
31	EE	Ulrike Mückstein, Hakim Tafer, Stephan H. F. Bernhart, Maribel Hernandez-Rosales, Jörg Vogel, Peter F. Stadler, Ivo L. Hofacker: Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics. BIRD 2008: 114-127
30	EE	Jana Hertel, Ivo L. Hofacker, Peter F. Stadler: SnoReport: computational identification of snoRNAs with unknown targets. Bioinformatics 24(2): 158-164 (2008)
29	EE	Hakim Tafer, Ivo L. Hofacker: RNAplex: a fast tool for RNA-RNA interaction search. Bioinformatics 24(22): 2657-2663 (2008)
28	EE	Radka Svobodová Vareková, Ivan Bradác, Martin Plchút, Michal Skrdla, Michael Wacenovsky, Helmuth Mahr, Georg Mayer, Herbert Tanner, Hermann Brugger, Josef Withalm, Peter Lederer, Heinrich Huber, Gerhard Gierlinger, Ronald Graf, Hakim Tafer, Ivo L. Hofacker, Peter Schuster, Martin Polcík: www.rnaworkbench.com: A new program for analyzing RNA interference. Computer Methods and Programs in Biomedicine 90(1): 89-94 (2008)
2007
27	EE	Christoph Flamm, Ivo L. Hofacker, Bärbel M. R. Stadler, Peter F. Stadler: Saddles and Barrier in Landscapes of Generalized Search Operators. FOGA 2007: 194-212
26	EE	Andreas R. Gruber, Richard Neuböck, Ivo L. Hofacker, Stefan Washietl: The RNAz web server: prediction of thermodynamically stable and evolutionarily conserved RNA structures. Nucleic Acids Research 35(Web-Server-Issue): 335-338 (2007)
2006
25	EE	Christian V. Forst, Christoph Flamm, Ivo L. Hofacker, Peter F. Stadler: Algebraic comparison of metabolic networks, phylogenetic inference, and metabolic innovation. BMC Bioinformatics 7: 67 (2006)
24	EE	Ivo L. Hofacker, Peter F. Stadler: Memory efficient folding algorithms for circular RNA secondary structures. Bioinformatics 22(10): 1172-1176 (2006)
23	EE	Ulrike Mückstein, Hakim Tafer, Jörg Hackermüller, Stephan H. F. Bernhart, Peter F. Stadler, Ivo L. Hofacker: Thermodynamics of RNA-RNA binding. Bioinformatics 22(10): 1177-1182 (2006)
22	EE	Stephan H. F. Bernhart, Ivo L. Hofacker, Peter F. Stadler: Local RNA base pairing probabilities in large sequences. Bioinformatics 22(5): 614-615 (2006)
21	EE	Christian Heine, Gerik Scheuermann, Christoph Flamm, Ivo L. Hofacker, Peter F. Stadler: Visualization of Barrier Tree Sequences. IEEE Trans. Vis. Comput. Graph. 12(5): 781-788 (2006)
20	EE	Paul Wei-Che Hsu, Hsien-Da Huang, Sheng-Da Hsu, Li-Zen Lin, Ann-Ping Tsou, Ching-Ping Tseng, Peter F. Stadler, Stefan Washietl, Ivo L. Hofacker: miRNAMap: genomic maps of microRNA genes and their target genes in mammalian genomes. Nucleic Acids Research 34(Database-Issue): 135-139 (2006)
2005
19		Ivo L. Hofacker, Peter F. Stadler: Memory Efficient Folding Algorithms for Circular RNA Secondary Structures. German Conference on Bioinformatics 2005: 15-25
18		Ulrike Mückstein, Hakim Tafer, Jörg Hackermüller, Stephan H. F. Bernhart, Peter F. Stadler, Ivo L. Hofacker: Thermodynamics of RNA-RNA Binding. German Conference on Bioinformatics 2005: 3-13
17	EE	Roman R. Stocsits, Ivo L. Hofacker, Claudia Fried, Peter F. Stadler: Multiple sequence alignments of partially coding nucleic acid sequences. BMC Bioinformatics 6: 160 (2005)
2004
16		C. Thurner, Ivo L. Hofacker, Peter F. Stadler: Conserved RNA Pseudoknots. German Conference on Bioinformatics 2004: 207-216
15	EE	Ivo L. Hofacker, Peter F. Stadler: The Partition Function Variant of Sankoff's Algorithm. International Conference on Computational Science 2004: 728-735
14	EE	Ivo L. Hofacker, Peter F. Stadler, Roman R. Stocsits: Conserved RNA secondary structures in viral genomes: a survey. Bioinformatics 20(10): 1495-1499 (2004)
13	EE	Ivo L. Hofacker, Stephan H. F. Bernhart, Peter F. Stadler: Alignment of RNA base pairing probability matrices. Bioinformatics 20(14): 2222-2227 (2004)
12	EE	Ivo L. Hofacker, Barbara Priwitzer, Peter F. Stadler: Prediction of locally stable RNA secondary structures for genome-wide surveys. Bioinformatics 20(2): 186-190 (2004)
11	EE	Christina Witwer, Ivo L. Hofacker, Peter F. Stadler: Prediction of Consensus RNA Secondary Structures Including Pseudoknots. IEEE/ACM Trans. Comput. Biology Bioinform. 1(2): 66-77 (2004)
2003
10		Ivo L. Hofacker, Peter F. Stadler, Roman R. Stocsits: Conserved RNA secondary structures in viral genomes: A survey. German Conference on Bioinformatics 2003: 57-62
9		Ivo L. Hofacker: Vienna RNA secondary structure server. Nucleic Acids Research 31(13): 3429-3431 (2003)
2002
8		Ulrike Mückstein, Ivo L. Hofacker, Peter F. Stadler: Stochastic pairwise alignments. ECCB 2002: 153-160
2000
7		Martin Fekete, Ivo L. Hofacker, Peter F. Stadler: Prediction of RNA Base Pairing Probabilities on Massively Parallel Computers. Journal of Computational Biology 7(1-2): 171-182 (2000)
1999
6		G. Weberndorfer, Ivo L. Hofacker, Peter F. Stadler: An efficient potential for protein sequence design. German Conference on Bioinformatics 1999: 107-112
5		Roman R. Stocsits, Ivo L. Hofacker, Peter F. Stadler: Conserved secondary structures in hepatitis B virus DNA. German Conference on Bioinformatics 1999: 73-79
4	EE	Ivo L. Hofacker, Peter F. Stadler: Automatic Detection of Conserved Base Pairing Patterns in RNA Virus Genomes. Computers & Chemistry 23(3-4): 401-414 (1999)
1998
3	EE	Ivo L. Hofacker, Peter Schuster, Peter F. Stadler: Combinatorics of RNA Secondary Structures. Discrete Applied Mathematics 88(1-3): 207-237 (1998)
1996
2		Jan Cupal, Ivo L. Hofacker, Peter F. Stadler: Dynamic Programming Algorithm for the Density of States of RNA Secondary Structures. German Conference on Bioinformatics 1996: 184-186
1		Ivo L. Hofacker, Martijn A. Huynen, Peter F. Stadler, Paul E. Stolorz: Knowledge Discovery in RNA Sequence Families of HIV Using Scalable Computers. KDD 1996: 20-25

Coauthor Index

1	Stephan H. F. Bernhart	[13] [18] [22] [23] [31]
2	Ivan Bradác	[28]
3	Hermann Brugger	[28]
4	Jan Cupal	[2]
5	Martin Fekete	[7]
6	Christoph Flamm	[21] [25] [27]
7	Christian V. Forst	[25]
8	Claudia Fried	[17]
9	Gerhard Gierlinger	[28]
10	Ronald Graf	[28]
11	Andreas R. Gruber	[26]
12	Jörg Hackermüller	[18] [23]
13	Christian Heine	[21]
14	Maribel Hernandez-Rosales	[31]
15	Jana Hertel	[30]
16	Paul Wei-Che Hsu	[20]
17	Sheng-Da Hsu	[20]
18	Hsien-Da Huang	[20]
19	Heinrich Huber	[28]
20	Martijn A. Huynen	[1]
21	Peter Lederer	[28]
22	Li-Zen Lin	[20]
23	Helmuth Mahr	[28]
24	Georg Mayer	[28]
25	Ulrike Mückstein	[8] [18] [23] [31]
26	Richard Neuböck	[26]
27	Martin Plchút	[28]
28	Martin Polcík	[28]
29	Barbara Priwitzer	[12]
30	Gerik Scheuermann	[21]
31	Peter Schuster	[3] [28]
32	Michal Skrdla	[28]
33	Bärbel M. R. Stadler	[27]
34	Peter F. Stadler	[1] [2] [3] [4] [5] [6] [7] [8] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [27] [30] [31]
35	Roman R. Stocsits	[5] [10] [14] [17]
36	Paul E. Stolorz	[1]
37	Hakim Tafer	[18] [23] [28] [29] [31]
38	Herbert Tanner	[28]
39	C. Thurner	[16]
40	Ching-Ping Tseng	[20]
41	Ann-Ping Tsou	[20]
42	Radka Svobodová Vareková	[28]
43	Jörg Vogel	[31]
44	Michael Wacenovsky	[28]
45	Stefan Washietl	[20] [26]
46	G. Weberndorfer	[6]
47	Josef Withalm	[28]
48	Christina Witwer	[11]