332 results on '"Esko Ukkonen"'
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2. Seed-driven Learning of Position Probability Matrices from Large Sequence Sets.
3. Fast motif matching revisited: high-order PWMs, SNPs and indels.
4. Accurate self-correction of errors in long reads using de Bruijn graphs.
5. Longest common substrings with k mismatches.
6. Motif Matching Using Gapped Patterns.
7. Editors' Introduction.
8. Discovery of Regulatory Motifs in DNA.
9. Motif matching using gapped patterns.
10. A Computational Method for Reconstructing Gapless Metabolic Networks.
11. Fast Search Algorithms for Position Specific Scoring Matrices.
12. Structural Analysis of Gapped Motifs of a String.
13. Haplotype Inference Via Hierarchical Genotype Parsing.
14. Planning isotopomer measurements for estimation of metabolic fluxes.
15. Finding Feasible Pathways in Metabolic Networks.
16. Size Reduction of Multitape Automata.
17. A Hidden Markov Technique for Haplotype Reconstruction.
18. Hidden Markov Modelling Techniques for Haplotype Analysis.
19. Recombination Systems.
20. The Computational Complexity of Orientation Search in Cryo-Electron Microscopy.
21. Local Approximate 3D Matching of Proteins in Viral Cryo-EM Density Maps.
22. Algorithms for Transposition Invariant String Matching.
23. A Method for Estimating Metabolic Fluxes from Incomplete Isotopomer Information.
24. An MDL Method for Finding Haplotype Blocks and for Estimating the Strength of Haplotype Block Boundaries.
25. Matching Numeric Strings under Noise.
26. Sweepline the Music!
27. Bideterministic Automata and Minimal Representations of Regular Languages.
28. Fast Matching of Transcription Factor Motifs Using Generalized Position Weight Matrix Models.
29. Optimal Exact and Fast Approximate Two Dimensional Pattern Matching Allowing Rotations.
30. Local Similarity Based Point-Pattern Matching.
31. Assigning probes into a small number of pools separable by electrophoresis.
32. Correlating gene promoters and expression in gene disruption experiments.
33. Finding Founder Sequences from a Set of Recombinants.
34. Approximate Matching of Run-Length Compressed Strings.
35. The Complexity of Maximum Matroid-Greedoid Intersection.
36. Faster template matching without FFT.
37. Approximate String Matching over Ziv-Lempel Compressed Text.
38. Combinatorial Methods for Approximate Pattern Matching under Rotations and Translations in 3D Arrays.
39. An Index for Two Dimensional String Matching Allowing Rotations.
40. Mining for Putative Regulatory Elements in the Yeast Genome Using Gene Expression Data.
41. Fast scaffolding with small independent mixed integer programs.
42. Finding Significant Matches of Position Weight Matrices in Linear Time.
43. Finding Paths with the Right Cost.
44. Implementing a Declarative String Query Language with String Restructuring.
45. On the complexity of finding gapped motifs.
46. Geometric Point Pattern Matching in the Knuth-Morris-Pratt Way.
47. Maximal and minimal representations of gapped and non-gapped motifs of a string.
48. Efficient construction of maximal and minimal representations of motifs of a string.
49. A Rotation Invariant Filter for Two-Dimensional String Matching.
50. Pattern Discovery in Biosequences.
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