Jens Stoye Coauthor index DBLP Vis pubzone.org

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DBLP keys2009
70Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMarília D. V. Braga, Jens Stoye: Counting All DCJ Sorting Scenarios. RECOMB-CG 2009: 36-47
69Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLGuillaume Blin, Jens Stoye: Finding Nested Common Intervals Efficiently. RECOMB-CG 2009: 59-69
68Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLPaul Medvedev, Jens Stoye: Rearrangement Models and Single-Cut Operations. RECOMB-CG 2009: 84-97
67Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLPeter Husemann, Jens Stoye: Phylogenetic Comparative Assembly. WABI 2009: 145-156
66Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLNils Hoffmann, Jens Stoye: ChromA: signal-based retention time alignment for chromatography-mass spectrometry data. Bioinformatics 25(16): 2080-2081 (2009)
65Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMichael Brudno, Paul Medvedev, Jens Stoye, Francisco M. de la Vega: A report on the 2009 SIG on short read sequencing and algorithms (Short-SIG). Bioinformatics 25(21): 2863-2864 (2009)
64Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJens Stoye, Roland Wittler: A Unified Approach for Reconstructing Ancient Gene Clusters. IEEE/ACM Trans. Comput. Biology Bioinform. 6(3): 387-400 (2009)
63Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKatharina Jahn, Jens Stoye: Approximative Gencluster und ihre Anwendung in der komparativen Genomik. Informatik Spektrum 32(4): 288-300 (2009)
62Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Julia Mixtacki, Jens Stoye: A new linear time algorithm to compute the genomic distance via the double cut and join distance. Theor. Comput. Sci. 410(51): 5300-5316 (2009)
2008
61Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Julia Mixtacki, Jens Stoye: HP Distance Via Double Cut and Join Distance. CPM 2008: 56-68
60Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLSebastian Böcker, Katharina Jahn, Julia Mixtacki, Jens Stoye: Computation of Median Gene Clusters. RECOMB 2008: 331-345
59Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Julia Mixtacki, Jens Stoye: On Computing the Breakpoint Reuse Rate in Rearrangement Scenarios. RECOMB-CG 2008: 226-240
58Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJosé Augusto Amgarten Quitzau, Jens Stoye: Detecting Repeat Families in Incompletely Sequenced Genomes. WABI 2008: 342-353
57Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJens Stoye: Suffix Tree Construction in RAM. Encyclopedia of Algorithms 2008
56Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLHeiko Neuweger, Stefan P. Albaum, Michael Dondrup, Marcus Persicke, Tony Watt, Karsten Niehaus, Jens Stoye, Alexander Goesmann: MeltDB: a software platform for the analysis and integration of metabolomics experiment data. Bioinformatics 24(23): 2726-2732 (2008)
55Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLSebastian Oehm, David Gilbert, Andreas Tauch, Jens Stoye, Alexander Goesmann: Comparative Pathway Analyzer - a web server for comparative analysis, clustering and visualization of metabolic networks in multiple organisms. Nucleic Acids Research 36(Web-Server-Issue): 433-437 (2008)
54Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKlaus-Bernd Schürmann, Jens Stoye: Counting suffix arrays and strings. Theor. Comput. Sci. 395(2-3): 220-234 (2008)
2007
53Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLGilles Didier, Thomas Schmidt, Jens Stoye, Dekel Tsur: Character sets of strings. J. Discrete Algorithms 5(2): 330-340 (2007)
52Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKlaus-Bernd Schürmann, Jens Stoye: An incomplex algorithm for fast suffix array construction. Softw., Pract. Exper. 37(3): 309-329 (2007)
2006
51Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLLutz Krause, Naryttza N. Diaz, Daniela Bartels, Robert A. Edwards, Alfred Pühler, Forest Rohwer, Folker Meyer, Jens Stoye: Finding novel genes in bacterial communities isolated from the environment. ISMB (Supplement of Bioinformatics) 2006: 281-289
50Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Julia Mixtacki, Jens Stoye: A Unifying View of Genome Rearrangements. WABI 2006: 163-173
49Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMichael Sammeth, Thasso Griebel, Felix Tille, Jens Stoye: Panta rhei (QAlign2): an open graphical environment for sequence analysis. Bioinformatics 22(7): 889-890 (2006)
48Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMichael Sammeth, Jens Stoye: Comparing Tandem Repeats with Duplications and Excisions of Variable Degree. IEEE/ACM Trans. Comput. Biology Bioinform. 3(4): 395-407 (2006)
47Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKim R. Rasmussen, Jens Stoye, Eugene W. Myers: Efficient q-Gram Filters for Finding All epsilon-Matches over a Given Length. Journal of Computational Biology 13(2): 296-308 (2006)
46Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Julia Mixtacki, Jens Stoye: On Sorting by Translocations. Journal of Computational Biology 13(2): 567-578 (2006)
45Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Jens Stoye: On the Similarity of Sets of Permutations and Its Applications to Genome Comparison. Journal of Computational Biology 13(7): 1340-1354 (2006)
2005
44Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKlaus-Bernd Schürmann, Jens Stoye: An Incomplex Algorithm for Fast Suffix Array Construction. ALENEX/ANALCO 2005: 78-85
43Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLConstantin Bannert, Jens Stoye: Protein Annotation by Secondary Structure Based Alignments (PASSTA). CompLife 2005: 79-90
42Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKim R. Rasmussen, Jens Stoye, Eugene W. Myers: Efficient q-Gram Filters for Finding All epsilon-Matches over a Given Length. RECOMB 2005: 189-203
41Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Julia Mixtacki, Jens Stoye: On Sorting by Translocations. RECOMB 2005: 615-629
40Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKlaus-Bernd Schürmann, Jens Stoye: Counting Suffix Arrays and Strings. SPIRE 2005: 55-66
39Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMichael Sammeth, Thomas Weniger, Dag Harmsen, Jens Stoye: Alignment of Tandem Repeats with Excision, Duplication, Substitution and Indels (EDSI). WABI 2005: 276-290
38Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAntje Krause, Jens Stoye, Martin Vingron: Large scale hierarchical clustering of protein sequences. BMC Bioinformatics 6: 15 (2005)
37Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLDaniela Bartels, Sebastian Kespohl, Stefan P. Albaum, Tanja Drüke, Alexander Goesmann, Julia Herold, Olaf Kaiser, Alfred Pühler, Friedhelm Pfeiffer, Günter Raddatz, Jens Stoye, Folker Meyer, Stephan C. Schuster: BACCardI-a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison. Bioinformatics 21(7): 853-859 (2005)
2004
36no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLRobert Giegerich, Jens Stoye: Proceedings of the German Conference on Bioinformatics (GCB 2004), Bielefeld, Germany, October 4-6, 2004 GI 2004
35Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLThomas Schmidt, Jens Stoye: Quadratic Time Algorithms for Finding Common Intervals in Two and More Sequences. CPM 2004: 347-358
34Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Julia Mixtacki, Jens Stoye: Reversal Distance without Hurdles and Fortresses. CPM 2004: 388-399
33Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMorris Michael, Christoph Dieterich, Jens Stoye: Suboptimal Local Alignments Across Multiple Scoring Schemes. WABI 2004: 99-110
32Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLDaniel A. Pollard, Casey M. Bergman, Jens Stoye, Susan E. Celniker, Michael B. Eisen: Benchmarking tools for the alignment of functional noncoding DNA. BMC Bioinformatics 5: 6 (2004)
31Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLDaniel A. Pollard, Casey M. Bergman, Jens Stoye, Susan E. Celniker, Michael B. Eisen: Correction: Benchmarking tools for the alignment of functional noncodingDNA. BMC Bioinformatics 5: 73 (2004)
30Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMark Cieliebak, Thomas Erlebach, Zsuzsanna Lipták, Jens Stoye, Emo Welzl: Algorithmic complexity of protein identification: combinatorics of weighted strings. Discrete Applied Mathematics 137(1): 27-46 (2004)
29Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLDan Gusfield, Jens Stoye: Linear time algorithms for finding and representing all the tandem repeats in a string. J. Comput. Syst. Sci. 69(4): 525-546 (2004)
2003
28Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Jens Stoye: On the Similarity of Sets of Permutations and Its Applications to Genome Comparison. COCOON 2003: 68-79
27no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMichael Sammeth, Burkhard Morgenstern, Jens Stoye: Divide-and-conquer multiple alignment with segment-based constraints. ECCB 2003: 189-195
26no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLConstantin Bannert, Jens Stoye: Evaluation of the Jumping Alignment algorithm with artificial and biological data. German Conference on Bioinformatics 2003: 21-25
25no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMichael Sammeth, Jörg Rothgänger, W. Esser, Jürgen Albert, Jens Stoye, Dag Harmsen: Digital extractor: analysis of digital differential display output. Bioinformatics 19(12): 1592-1593 (2003)
24Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLRobert Giegerich, Stefan Kurtz, Jens Stoye: Efficient implementation of lazy suffix trees. Softw., Pract. Exper. 33(11): 1035-1049 (2003)
2002
23no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAnne Bergeron, Steffen Heber, Jens Stoye: Common intervals and sorting by reversals: a marriage of necessity. ECCB 2002: 54-63
22no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJens Stoye: Index Structures for Large Sequence Data: Suffix Trees and Affix Trees. GI Jahrestagung (Ergänzungsband) 2002: 67-71
21no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLMark Cieliebak, Thomas Erlebach, Zsuzsanna Lipták, Jens Stoye, Emo Welzl: Algorithmic Complexity of Protein Identification: Searching in Weighted Strings. IFIP TCS 2002: 143-156
20no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLRainer Spang, Marc Rehmsmeier, Jens Stoye: A Novel Approach to Remote Homology Detection: Jumping Alignments. Journal of Computational Biology 9(5): 747-760 (2002)
19Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJens Stoye, Dan Gusfield: Simple and flexible detection of contiguous repeats using a suffix tree. Theor. Comput. Sci. 270(1-2): 843-856 (2002)
2001
18Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLSteffen Heber, Jens Stoye: Finding All Common Intervals of k Permutations. CPM 2001: 207-218
17no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLConstantin Bannert, Marc Rehmsmeier, Rainer Spang, Jens Stoye: Sequence Database Search Using Jumping Alignments. German Conference on Bioinformatics 2001: 142
16Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLSteffen Heber, Jens Stoye: Algorithms for Finding Gene Clusters. WABI 2001: 252-263
2000
15no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLErich Bornberg-Bauer, Ursula Rost, Jens Stoye: Proceedings of the German Conference on Bioinformatics (GCB 2000), Heidelberg, October 5-7, 2000 Logos Verlag 2000
14no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLStefan Kurtz, Enno Ohlebusch, Chris Schleiermacher, Jens Stoye, Robert Giegerich: Computation and Visualization of Degenerate Repeats in Complete Genomes. ISMB 2000: 228-238
13no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLRainer Spang, Marc Rehmsmeier, Jens Stoye: Sequence Database Search Using Jumping Alignments. ISMB 2000: 367-375
12Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLSteffen Heber, Jens Stoye, Jörg D. Hoheisel, Martin Vingron: Contig selection in physical mapping. RECOMB 2000: 155-164
11no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKnut Reinert, Jens Stoye, Torsten Will: An iterative method for faster sum-of-pairs multiple sequence alignment. Bioinformatics 16(9): 808-814 (2000)
10no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLSteffen Heber, Jens Stoye, Marcus Frohme, Jörg D. Hoheisel, Martin Vingron: Contig Selection in Physical Mapping. Journal of Computational Biology 7(3-4): 395-408 (2000)
9no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLAntje Krause, Jens Stoye, Martin Vingron: The SYSTERS protein sequence cluster set. Nucleic Acids Research 28(1): 270-272 (2000)
1999
8Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLRobert Giegerich, Stefan Kurtz, Jens Stoye: Efficient Implementation of Lazy Suffix Trees. Algorithm Engineering 1999: 30-42
7Electronic Edition pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLGerth Stølting Brodal, Rune B. Lyngsø, Christian N. S. Pedersen, Jens Stoye: Finding Maximal Pairs with Bounded Gap. CPM 1999: 134-149
6no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLKnut Reinert, Jens Stoye, Torsten Will: Combining Divide-and-Conquer, the A*-Algorithm, and Successive Realignment Approaches to Speed Multiple Sequence Alignment. German Conference on Bioinformatics 1999: 17-24
1998
5no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJens Stoye, Dan Gusfield: Simple and Flexible Detection of Contiguous Repeats Using a Suffix Tree (Preliminary Version). CPM 1998: 140-152
4no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJens Stoye, Dirk Evers, Folker Meyer: Rose: generating sequence families. Bioinformatics 14(2): 157-163 (1998)
1997
3no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJens Stoye, Dirk Evers, Folker Meyer: Generating Benchmarks for Multiple Sequence Alignments and Phylogenic Reconstructions. ISMB 1997: 303-306
2no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLJens Stoye, Vincent Moulton, Andreas W. M. Dress: DCA: an efficient implementation of the divide-and-conquer approach to simultaneous multiple sequence alignment. Computer Applications in the Biosciences 13(6): 625-626 (1997)
1no EE pubzone.org CiteSeerX Google scholar BibTeX bibliographical record in XMLGunnar Brinkmann, Andreas W. M. Dress, Sören Perrey, Jens Stoye: Two applications of the Divide&Conquer principle in the molecular sciences. Math. Program. 79: 71-97 (1997)

Coauthor Index

1Stefan P. Albaum [37] [56]
2Jürgen Albert [25]
3Constantin Bannert [17] [26] [43]
4Daniela Bartels [37] [51]
5Anne Bergeron [23] [28] [34] [41] [45] [46] [50] [59] [61] [62]
6Casey M. Bergman [31] [32]
7Guillaume Blin [69]
8Sebastian Böcker [60]
9Erich Bornberg-Bauer [15]
10Marília D. V. Braga [70]
11Gunnar Brinkmann [1]
12Gerth Stølting Brodal [7]
13Michael Brudno [65]
14Susan E. Celniker [31] [32]
15Mark Cieliebak [21] [30]
16Naryttza N. Diaz [51]
17Gilles Didier [53]
18Christoph Dieterich [33]
19Michael Dondrup [56]
20Andreas W. M. Dress [1] [2]
21Tanja Drüke [37]
22Robert A. Edwards [51]
23Michael B. Eisen [31] [32]
24Thomas Erlebach [21] [30]
25W. Esser [25]
26Dirk Evers [3] [4]
27Marcus Frohme [10]
28Robert Giegerich [8] [14] [24] [36]
29David Gilbert (David R. Gilbert) [55]
30Alexander Goesmann [37] [55] [56]
31Thasso Griebel [49]
32Dan Gusfield [5] [19] [29]
33Dag Harmsen [25] [39]
34Steffen Heber [10] [12] [16] [18] [23]
35Julia Herold [37]
36Nils Hoffmann [66]
37Jörg D. Hoheisel [10] [12]
38Peter Husemann [67]
39Katharina Jahn [60] [63]
40Olaf Kaiser [37]
41Sebastian Kespohl [37]
42Antje Krause [9] [38]
43Lutz Krause [51]
44Stefan Kurtz [8] [14] [24]
45Zsuzsanna Lipták [21] [30]
46Rune B. Lyngsø [7]
47Paul Medvedev [65] [68]
48Folker Meyer [3] [4] [37] [51]
49Morris Michael [33]
50Julia Mixtacki [34] [41] [46] [50] [59] [60] [61] [62]
51Burkhard Morgenstern [27]
52Vincent Moulton [2]
53Eugene W. Myers (Gene Myers) [42] [47]
54Heiko Neuweger [56]
55Karsten Niehaus [56]
56Sebastian Oehm [55]
57Enno Ohlebusch [14]
58Christian N. S. Pedersen [7]
59Sören Perrey [1]
60Marcus Persicke [56]
61Friedhelm Pfeiffer [37]
62Daniel A. Pollard [31] [32]
63Alfred Pühler [37] [51]
64José Augusto Amgarten Quitzau [58]
65Günter Raddatz [37]
66Kim R. Rasmussen [42] [47]
67Marc Rehmsmeier [13] [17] [20]
68Knut Reinert [6] [11]
69Forest Rohwer [51]
70Ursula Rost [15]
71Jörg Rothgänger [25]
72Michael Sammeth [25] [27] [39] [48] [49]
73Chris Schleiermacher [14]
74Thomas Schmidt [35] [53]
75Klaus-Bernd Schürmann [40] [44] [52] [54]
76Stephan C. Schuster [37]
77Rainer Spang [13] [17] [20]
78Andreas Tauch [55]
79Felix Tille [49]
80Dekel Tsur [53]
81Francisco M. de la Vega [65]
82Martin Vingron [9] [10] [12] [38]
83Tony Watt [56]
84Emo Welzl [21] [30]
85Thomas Weniger [39]
86Torsten Will [6] [11]
87Roland Wittler [64]

Colors in the list of coauthors

Copyright © Mon Mar 15 21:39:48 2010 by Michael Ley (ley@uni-trier.de)