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Manuscript type (click on type for subselection) | No. | Publikationen | Jahr | Link |
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type | No. | Publikationen | Jahr | Link |
Journal Article | 6 | Meyer, F., Kurtz, S., Backofen, R., Will, S., Beckstette, M. Structator: fast index-based search for RNA sequence-structure patterns BMC Bioinformatics 12:214 |
2011 | Meyer, F., Kurtz, S., Backofen, R., Will, S., Beckstette, M. (2011) Structator: fast index-based search for RNA sequence-structure patterns . BMC Bioinformatics 12:214 |
Journal Article | 7 | Alawi, M., Kurtz, S., Beckstette, M. CASSys: an integrated software-system for the interactive analysis of ChIP-seq data Journal of Integrative Bioinformatics, 8(2): 155. |
2011 | Alawi, M., Kurtz, S., Beckstette, M. (2011) CASSys: an integrated software-system for the interactive analysis of ChIP-seq data . Journal of Integrative Bioinformatics, 8(2):155. |
Journal Article | 48 | Crass, T., Antes, I., Basekow, R., Bork, P., Buning, C., Christensen, M., Claussen, H., Ebeling, C., Ernst, P., Gailus-Durner, V., Glatting, K.-H., Gohla, R., Gossling, F., Grote, K., Heidtke, K., Herrmann, A., O\'Keeffe, S., Kiesslich, O., Kolibal, S., Korbel, J. O., Lengauer, T., Liebich, I., Linden, M. van der, Luz, H., Meissner, K., Mering, C. von, Mevissen, H.-T., Mewes, H.-W., Michael, H., Mokrejs, M., Muller, T., Pospisil, H., Rarey, M., Reich, J. G., Schneider, R., Schomburg, D., Schulze-Kremer, S., Schwarzer, K., Sommer, I., Springstubbe, S., Suhai, S., Thoppae, G., Vingron, M., Warfsmann, J., Werner, T., Wetzler, D., Wingender, E., Zimmer, R. The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources Bioinformatics, 20: 268-270. |
2004 | Crass, T., Antes, I., Basekow, R., Bork, P., Buning, C., Christensen, M., Claussen, H., Ebeling, C., Ernst, P., Gailus-Durner, V., Glatting, K.-H., Gohla, R., Gossling, F., Grote, K., Heidtke, K., Herrmann, A., O\'Keeffe, S., Kiesslich, O., Kolibal, S., Korbel, J. O., Lengauer, T., Liebich, I., Linden, M. van der, Luz, H., Meissner, K., Mering, C. von, Mevissen, H.-T., Mewes, H.-W., Michael, H., Mokrejs, M., Muller, T., Pospisil, H., Rarey, M., Reich, J. G., Schneider, R., Schomburg, D., Schulze-Kremer, S., Schwarzer, K., Sommer, I., Springstubbe, S., Suhai, S., Thoppae, G., Vingron, M., Warfsmann, J., Werner, T., Wetzler, D., Wingender, E., Zimmer, R. (2004) The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources . Bioinformatics, 20:268-270. |
Book Section | 146 | Abouelhoda, M. I., Kurtz, S., Ohlebusch, E. Enhanced suffix arrays and applications In Handbook on Computational Molecular Biology (Aluru, S., ed.), Vol. 01, pp. 7-1--7-27. Chapman and Hall/CRC. |
2006 | Abouelhoda, M. I., Kurtz, S., Ohlebusch, E. (2006) Enhanced suffix arrays and applications . In Handbook on Computational Molecular Biology (Aluru, S., ed.), Vol. 01, pp. 7-1--7-27. Chapman and Hall/CRC. |
Journal Article | 147 | Hoffmann, S., Otto, C., Kurtz, S., Sharma, C. M., Khaitovich, P., Vogel, J., Stadler, P. F., Hackermueller, J. Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures PLoS Comput Biol, 5(9): e1000502. |
2009 | Hoffmann, S., Otto, C., Kurtz, S., Sharma, C. M., Khaitovich, P., Vogel, J., Stadler, P. F., Hackermueller, J. (2009) Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures . PLoS Comput Biol, 5(9):e1000502. |
Journal Article | 148 | Beckstette, M., Homann, R., Giegerich, R., Kurtz, S. Significant speedup of database searches with HMMs by search space reduction with PSSM family models Bioinformatics, 25: 3251-3258. |
2009 | Beckstette, M., Homann, R., Giegerich, R., Kurtz, S. (2009) Significant speedup of database searches with HMMs by search space reduction with PSSM family models . Bioinformatics, 25:3251-3258. |
Book Section | 149 | Schmitz-Huebsch, D.J., Kurtz, S. MetaGenomeThreader: A software tool for predicting genes in DNA-sequences of metagenome projects 01 In Metagenomics. Methods in Molecular Biology (Daniel, R., Streit, W., ed.), Vol. 668, pp. 325-338. Springer. |
2010 | Schmitz-Huebsch, D.J., Kurtz, S. (2010) MetaGenomeThreader: A software tool for predicting genes in DNA-sequences of metagenome projects 01. In Metagenomics. Methods in Molecular Biology (Daniel, R., Streit, W., ed.), Vol. 668, pp. 325-338. Springer. |
Journal Article | 150 | Agelopoulos, K., Greve, B., Schmidt, H., Pospisil, H., Kurtz, S., Bartkowiak, K., Andreas, A., Wieczorek, M., Korsching, E., Buerger, H., Brandt, B. H. Selective regain of egfr gene copies in CD44+/CD24-/low breast cancer cellular model MDA-MB-468 BMC Cancer, 10(1): 78. |
2010 | Agelopoulos, K., Greve, B., Schmidt, H., Pospisil, H., Kurtz, S., Bartkowiak, K., Andreas, A., Wieczorek, M., Korsching, E., Buerger, H., Brandt, B. H. (2010) Selective regain of egfr gene copies in CD44+/CD24-/low breast cancer cellular model MDA-MB-468 . BMC Cancer, 10(1):78. |
Journal Article | 151 | Farnbacher, M., Jahns, T., Willrodt, D., Daniel, R., Haas, R., Goesmann, A., Kurtz, S., Rieder, G. Sequencing, annotation and comparative genome analysis of the gerbil-adapted Helicobacter pylori strain B8 BMC Genomics, 11(1): 335. |
2010 | Farnbacher, M., Jahns, T., Willrodt, D., Daniel, R., Haas, R., Goesmann, A., Kurtz, S., Rieder, G. (2010) Sequencing, annotation and comparative genome analysis of the gerbil-adapted Helicobacter pylori strain B8 . BMC Genomics, 11(1):335. |
Conference Proceedings | 152 | Alawi, M., Kurtz, S., Beckstette, M. CASSys: an integrated software system for the interactive analysis of ChIP-seq data International Symposium on Integrative Bioinformatics (IB2011) |
2011 | Alawi, M., Kurtz, S., Beckstette, M. (2011) CASSys: an integrated software system for the interactive analysis of ChIP-seq data . International Symposium on Integrative Bioinformatics (IB2011) |
Journal Article | 153 | Mader, M., Simon, R., Steinbiss, S., Kurtz, S. FISH Oracle: a web server for flexible visualization of DNA copy number data in a genomic context Journal of Clinical Bioinformatics, 1: 20. |
2011 | Mader, M., Simon, R., Steinbiss, S., Kurtz, S. (2011) FISH Oracle: a web server for flexible visualization of DNA copy number data in a genomic context . Journal of Clinical Bioinformatics, 1:20. |
Journal Article | 154 | Brendel, V., Kurtz, S., Walbot, V. Comparative genomics of Arabidopsis and Maize: Prospects and limitations Genome Biology, 3(3): reviews1005.1--1005.6. |
2002 | Brendel, V., Kurtz, S., Walbot, V. (2002) Comparative genomics of Arabidopsis and Maize: Prospects and limitations . Genome Biology, 3(3):reviews1005.1--1005.6. |
Journal Article | 155 | Brett, D., Pospisil, H., Valcarcel, J., Reich, J., Bork, P. Alternative splicing and genome complexity Nature Genetics, 30(1): 29--30. |
2002 | Brett, D., Pospisil, H., Valcarcel, J., Reich, J., Bork, P. (2002) Alternative splicing and genome complexity . Nature Genetics, 30(1):29--30. |
Journal Article | 156 | Campos-Gongora, E., Ebert, F., Willhoeft, U., Said-Fernandez, S., Tannich, E. Characterization of chitin synthases from Entamoeba Protist, 155(01): 323--330. |
2004 | Campos-Gongora, E., Ebert, F., Willhoeft, U., Said-Fernandez, S., Tannich, E. (2004) Characterization of chitin synthases from Entamoeba . Protist, 155(01):323--330. |
Journal Article | 157 | Chain, P., Kurtz, S., Ohlebusch, E., Slezak, T. R. An applications-focused review of comparative genomics tools: Capabilities, limitations and future challenges Briefings in Bioinformatics, 4(2): 105--123. |
2003 | Chain, P., Kurtz, S., Ohlebusch, E., Slezak, T. R. (2003) An applications-focused review of comparative genomics tools: Capabilities, limitations and future challenges . Briefings in Bioinformatics, 4(2):105--123. |
Journal Article | 158 | Choudhuri, J. V., Schleiermacher, C., Kurtz, S., Giegerich, R. Genalyzer: Interactive visualization of sequence similarities between entire genomes Bioinformatics, 20(01): 1964--1965. |
2004 | Choudhuri, J. V., Schleiermacher, C., Kurtz, S., Giegerich, R. (2004) Genalyzer: Interactive visualization of sequence similarities between entire genomes . Bioinformatics, 20(01):1964--1965. |
Journal Article | 159 | Dong, Q., Lawrence, C. J., Schlueter, S. D., Wilkerson, M. D., Kurtz, S., Lushbough, C., Brendel, V. Comparative plant genomics resources at PlantGDB Plant Physiology, 139(2): 610--618. |
2005 | Dong, Q., Lawrence, C. J., Schlueter, S. D., Wilkerson, M. D., Kurtz, S., Lushbough, C., Brendel, V. (2005) Comparative plant genomics resources at PlantGDB . Plant Physiology, 139(2):610--618. |
Journal Article | 160 | Fitch, J. P., Gardner, S. N., Kuczmarski, T. A., Kurtz, S., Myers, R., Ott, L. L., Slezak, T. R., Vitalis, E. A., Zemla, A. T., McCready, P. M. Rapid development of nucleic acid diagnostics Proceedings of the IEEE, 90(11): 1708--1721. |
2002 | Fitch, J. P., Gardner, S. N., Kuczmarski, T. A., Kurtz, S., Myers, R., Ott, L. L., Slezak, T. R., Vitalis, E. A., Zemla, A. T., McCready, P. M. (2002) Rapid development of nucleic acid diagnostics . Proceedings of the IEEE, 90(11):1708--1721. |
Conference Proceedings | 161 | Futamura, N., Aluru, S., Kurtz, S. Parallel suffix sorting Proceedings of the Ninth International Conference on Advanced Computing and Communications, Bhubaneshwar, India (Iyengarm, S.S., Sinha, B. P., ed.). Tata McGraw-Hill. |
2001 | Futamura, N., Aluru, S., Kurtz, S. (2001) Parallel suffix sorting . Proceedings of the Ninth International Conference on Advanced Computing and Communications, Bhubaneshwar, India (Iyengarm, S.S., Sinha, B. P., ed.). Tata McGraw-Hill. |
Journal Article | 162 | Abouelhoda, M. I., Kurtz, S., Ohlebusch, E. Replacing suffix trees with enhanced suffix arrays Journal of Discrete Algorithms, 2(01): 53--86. |
2004 | Abouelhoda, M. I., Kurtz, S., Ohlebusch, E. (2004) Replacing suffix trees with enhanced suffix arrays . Journal of Discrete Algorithms, 2(01):53--86. |
Conference Proceedings | 163 | Giegerich, R., Hinze, R., Kurtz, S. Straight to the heart of computer science via functional programming Proceedings of the Workshop on Functional and Declarative Programming in Education (01, ed.). Technical Report Rice COMP TR99-346, Department of Computer Science, Rice University, Editor: Matthias Felleisen. |
1999 | Giegerich, R., Hinze, R., Kurtz, S. (1999) Straight to the heart of computer science via functional programming . Proceedings of the Workshop on Functional and Declarative Programming in Education (01, ed.). Technical Report Rice COMP TR99-346, Department of Computer Science, Rice University, Editor: Matthias Felleisen. |
Conference Proceedings | 164 | Giegerich, R., Hischke, F., Kurtz, S., Ohlebusch, E. A general technique to improve filter algorithms for approximate string matching Proceedings of Fourth South American Workshop on String Processing, Valparaiso, Chile (01, ed.). Carleton University Press. |
1997 | Giegerich, R., Hischke, F., Kurtz, S., Ohlebusch, E. (1997) A general technique to improve filter algorithms for approximate string matching . Proceedings of Fourth South American Workshop on String Processing, Valparaiso, Chile (01, ed.). Carleton University Press. |
Journal Article | 165 | Giegerich, R., Kurtz, S. From Ukkonen to McCreight and Weiner: A unifying view of linear-time suffix tree construction Algorithmica, 19(01): 331--353. |
1997 | Giegerich, R., Kurtz, S. (1997) From Ukkonen to McCreight and Weiner: A unifying view of linear-time suffix tree construction . Algorithmica, 19(01):331--353. |
Journal Article | 166 | Giegerich, R., Kurtz, S. A comparison of imperative and purely functional suffix tree constructions Science of Computer Programming, 25(2-3): 187--218. |
1995 | Giegerich, R., Kurtz, S. (1995) A comparison of imperative and purely functional suffix tree constructions . Science of Computer Programming, 25(2-3):187--218. |
Journal Article | 167 | Giegerich, R., Kurtz, S., Stoye, J. Efficient implementation of lazy suffix trees Software---Practice and Experience, 33(11): 1035--1049. |
2003 | Giegerich, R., Kurtz, S., Stoye, J. (2003) Efficient implementation of lazy suffix trees . Software---Practice and Experience, 33(11):1035--1049. |
Conference Proceedings | 168 | Giegerich, R., Kurtz, S., Stoye, J. Efficient implementation of lazy suffix trees Proceedings of the Third Workshop on Algorithmic Engineering (WAE99) (01, ed.). Lecture Notes in Computer Science 1668. |
1999 | Giegerich, R., Kurtz, S., Stoye, J. (1999) Efficient implementation of lazy suffix trees . Proceedings of the Third Workshop on Algorithmic Engineering (WAE99) (01, ed.). Lecture Notes in Computer Science 1668. |
Conference Proceedings | 169 | Giegerich, R., Kurtz, S., Weiller, G. F. An algebraic dynamic programming approach to the analysis of recombinant DNA sequences Proceedings of Workshop on Algorithmic Ascpects of Advanced Programming Languages (WAAAPL), Paris, September 1999 (01, ed.). 01. |
1999 | Giegerich, R., Kurtz, S., Weiller, G. F. (1999) An algebraic dynamic programming approach to the analysis of recombinant DNA sequences . Proceedings of Workshop on Algorithmic Ascpects of Advanced Programming Languages (WAAAPL), Paris, September 1999 (01, ed.). 01. |
Journal Article | 170 | Gremme, G., Brendel, V., Sparks, M. E., Kurtz, S. Engineering a software tool for gene prediction in higher organisms Information and Software Technology, 47(15): 965--978. |
2005 | Gremme, G., Brendel, V., Sparks, M. E., Kurtz, S. (2005) Engineering a software tool for gene prediction in higher organisms . Information and Software Technology, 47(15):965--978. |
Journal Article | 171 | Gräf, S., Nielsen, F. G. G., Kurtz, S., Huynen, M. A., Birney, E., Stunnenberg, H., Flicek, P. Optimized design and assessment of whole genome tiling arrays Bioinformatics, 23 ISMB/ECCB 2007(01): i195--i204. |
2007 | Gräf, S., Nielsen, F. G. G., Kurtz, S., Huynen, M. A., Birney, E., Stunnenberg, H., Flicek, P. (2007) Optimized design and assessment of whole genome tiling arrays . Bioinformatics, 23 ISMB/ECCB 2007(01):i195--i204. |
Journal Article | 172 | Gräf, S., Strothmann, D., Kurtz, S., Steger, G. HyPaLib: A database of RNAs and RNA structural elements defined by hybrid patterns Nucleic Acids Res., 29(1): 196--198. |
2001 | Gräf, S., Strothmann, D., Kurtz, S., Steger, G. (2001) HyPaLib: A database of RNAs and RNA structural elements defined by hybrid patterns . Nucleic Acids Res., 29(1):196--198. |
Conference Proceedings | 173 | Abouelhoda, M. I., Kurtz, S., Ohlebusch, E. The enhanced suffix array and its applications to genome analysis Proceedings of the Second Workshop on Algorithms in Bioinformatics (01, ed.). Lecture Notes in Computer Science 2452, Springer-Verlag. |
2002 | Abouelhoda, M. I., Kurtz, S., Ohlebusch, E. (2002) The enhanced suffix array and its applications to genome analysis . Proceedings of the Second Workshop on Algorithms in Bioinformatics (01, ed.). Lecture Notes in Computer Science 2452, Springer-Verlag. |
Book Section | 174 | Gräf, S., Teune, J. H., Strothmann, D., Kurtz, S., Steger, G. A computational approach to search for non-coding RNAs in genomic data 01 In Small RNAs: Analysis and Regulatory Functions. (Nellen, W., Hammann, C., ed.), Vol. 17, pp. 57--74. Springer Verlag. |
2006 | Gräf, S., Teune, J. H., Strothmann, D., Kurtz, S., Steger, G. (2006) A computational approach to search for non-coding RNAs in genomic data 01. In Small RNAs: Analysis and Regulatory Functions. (Nellen, W., Hammann, C., ed.), Vol. 17, pp. 57--74. Springer Verlag. |
Journal Article | 175 | Hanauske, A. R., Eismann, U., Oberschmidt, O., Pospisil, H., Hoffmann, S., Hanauske-Abel, H., Ma, D., Chen, V., Paoletti, P., Niyikiza, C. In vitro chemosensitivity of freshly explanted tumor cells to pemetrexed is correlated with target gene expression Investigational New Drugs, 25(5): 417-23. |
2007 | Hanauske, A. R., Eismann, U., Oberschmidt, O., Pospisil, H., Hoffmann, S., Hanauske-Abel, H., Ma, D., Chen, V., Paoletti, P., Niyikiza, C. (2007) In vitro chemosensitivity of freshly explanted tumor cells to pemetrexed is correlated with target gene expression . Investigational New Drugs, 25(5):417-23. |
Journal Article | 176 | Hegasy, G. A., Willhoeft, U., Majno, S. A., Seeberger, H., Zipfel, P. F., Hellwage, J. Pig complement regulator factor H: Molecular cloning and functional characterization Immunogenetics, 55(01): 462--471. |
2003 | Hegasy, G. A., Willhoeft, U., Majno, S. A., Seeberger, H., Zipfel, P. F., Hellwage, J. (2003) Pig complement regulator factor H: Molecular cloning and functional characterization . Immunogenetics, 55(01):462--471. |
Conference Proceedings | 177 | Höchsmann, M., Töller, T., Giegerich, R., Kurtz, S. Local similarity in RNA secondary structures Proc of the Computational Systems Bioinformatics Conference, Stanford, CA, August 2003 (CSB 2003) (01, ed.). 01. |
2003 | Höchsmann, M., Töller, T., Giegerich, R., Kurtz, S. (2003) Local similarity in RNA secondary structures . Proc of the Computational Systems Bioinformatics Conference, Stanford, CA, August 2003 (CSB 2003) (01, ed.). 01. |
Journal Article | 178 | Höhl, M., Kurtz, S., Ohlebusch, E. Efficient multiple genome alignment Bioinformatics, 18(Suppl. 1): S312--S320. |
2002 | Höhl, M., Kurtz, S., Ohlebusch, E. (2002) Efficient multiple genome alignment . Bioinformatics, 18(Suppl. 1):S312--S320. |
Journal Article | 179 | Krüger, J., Sczyrba, A., Kurtz, S., Giegerich, R. e2g: An interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences Nucleic Acids Res., 32(01): W301--W304. |
2004 | Krüger, J., Sczyrba, A., Kurtz, S., Giegerich, R. (2004) e2g: An interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences . Nucleic Acids Res., 32(01):W301--W304. |
Journal Article | 180 | Kurtz, S. Reducing the space requirement of suffix trees Software---Practice and Experience, 29(13): 1149--1171. |
1999 | Kurtz, S. (1999) Reducing the space requirement of suffix trees . Software---Practice and Experience, 29(13):1149--1171. |
Conference Proceedings | 181 | Kurtz, S. Approximate string searching under weighted edit distance Proceedings of Third South American Workshop on String Processing, Recife, Brazil (01, ed.). Carleton University Press. |
1996 | Kurtz, S. (1996) Approximate string searching under weighted edit distance . Proceedings of Third South American Workshop on String Processing, Recife, Brazil (01, ed.). Carleton University Press. |
Book Section | 182 | Kurtz, S., Balkenhol, B. Space efficient linear time computation of the Burrows and Wheeler transformation In Numbers, Information and Complexity (Althöfer, I., Cai, N., Dueck, G., Khachatrian, L., Pinsker, M. S., Sarközy, A., Wegener, I., Zhang, Z., ed.), Vol. 01, pp. 375--383. Kluwer Academic Publishers. |
2000 | Kurtz, S., Balkenhol, B. (2000) Space efficient linear time computation of the Burrows and Wheeler transformation . In Numbers, Information and Complexity (Althöfer, I., Cai, N., Dueck, G., Khachatrian, L., Pinsker, M. S., Sarközy, A., Wegener, I., Zhang, Z., ed.), Vol. 01, pp. 375--383. Kluwer Academic Publishers. |
Journal Article | 183 | Kurtz, S., Choudhuri, J. V., Ohlebusch, E., Schleiermacher, C., Stoye, J., Giegerich, R. REPuter: The manifold applications of repeat analysis on a genomic scale Nucleic Acids Res., 29(22): 4633--4642. |
2001 | Kurtz, S., Choudhuri, J. V., Ohlebusch, E., Schleiermacher, C., Stoye, J., Giegerich, R. (2001) REPuter: The manifold applications of repeat analysis on a genomic scale . Nucleic Acids Res., 29(22):4633--4642. |
Conference Proceedings | 184 | Abouelhoda, M. I., Ohlebusch, E., Kurtz, S. Optimal exact string matching based on suffix arrays Proceedings of the Ninth International Symposium on String Processing and Information Retrieval (01, ed.). Lecture Notes in Computer Science 2476, Springer-Verlag. |
2002 | Abouelhoda, M. I., Ohlebusch, E., Kurtz, S. (2002) Optimal exact string matching based on suffix arrays . Proceedings of the Ninth International Symposium on String Processing and Information Retrieval (01, ed.). Lecture Notes in Computer Science 2476, Springer-Verlag. |
Book Section | 185 | Kurtz, S., Lonardi, S. Computational Biology 01 In Handbook on Data Structures and Applications (Mehta, D. P., Sahni, S., ed.), Vol. 01, pp. 58-1 -- 58-17. Chapman and Hall/CRC. |
2004 | Kurtz, S., Lonardi, S. (2004) Computational Biology 01. In Handbook on Data Structures and Applications (Mehta, D. P., Sahni, S., ed.), Vol. 01, pp. 58-1 -- 58-17. Chapman and Hall/CRC. |
Conference Proceedings | 186 | Kurtz, S., Myers, G. Estimating the probability of approximate matches Proceedings of the Annual Symposium on Combinatorial Pattern Matching (CPM'97), Lecture Notes in Computer Science 1075 (01, ed.). Springer Verlag. |
1997 | Kurtz, S., Myers, G. (1997) Estimating the probability of approximate matches . Proceedings of the Annual Symposium on Combinatorial Pattern Matching (CPM'97), Lecture Notes in Computer Science 1075 (01, ed.). Springer Verlag. |
Conference Proceedings | 187 | Kurtz, S., Ohlebusch, E., Schleiermacher, C., Stoye, J., Giegerich, R. Computation and visualization of degenerate repeats in complete genomes Proceedings of the International Conference on Intelligent Systems for Molecular Biology (01, ed.). AAAI Press. |
2000 | Kurtz, S., Ohlebusch, E., Schleiermacher, C., Stoye, J., Giegerich, R. (2000) Computation and visualization of degenerate repeats in complete genomes . Proceedings of the International Conference on Intelligent Systems for Molecular Biology (01, ed.). AAAI Press. |
Journal Article | 188 | Kurtz, S., Phillippy, A., Delcher, A. L., Smoot, M., Shumway, M., Antonescu, C., Salzberg, S. L. Versatile and open software for comparing large genomes Genome Biology, 5(R12): 01. |
2004 | Kurtz, S., Phillippy, A., Delcher, A. L., Smoot, M., Shumway, M., Antonescu, C., Salzberg, S. L. (2004) Versatile and open software for comparing large genomes . Genome Biology, 5(R12):01. |
Journal Article | 189 | Kurtz, S., Schleiermacher, C. REPuter: Fast computation of maximal repeats in complete genomes Bioinformatics, 15(5): 426--427. |
1999 | Kurtz, S., Schleiermacher, C. (1999) REPuter: Fast computation of maximal repeats in complete genomes . Bioinformatics, 15(5):426--427. |
Journal Article | 190 | Loftus, B., Anderson, I., Davies, R., Alsmark, U. C., Samuelson, J., Amedeo, P., Roncaglia, P., Berriman, M., Hirt, R. P., J, B., Nozaki, T., Suh, B., Pop, M., Duchene, M., Ackers, J., Tannich, E., Leippe, M., Hofer, M., Bruchhaus, I., Willhoeft, U., Bhattacharya, A., Chillingworth, T., Churcher, C., Hance, Z., Harris, B., Harris, D., Jagels, K., Moule, S., Mungall, K., Ormond, D., Squares, R., Whitehead, S., A, M., Rabbinowitsch, E., Norbertczak, H., Price, C., Wang, Z., Guillen, N., Gilchrist, C., Stroup, S. E., Bhattacharya, S., Lohia, A., Foster, P. G., Sicheritz-Ponten, T., Weber, C., Singh, U., Mukherjee, C., El-Sayed, N. M., Petri, W. A., Jr., Clark, C. G., Embley, T. M., Barrell, B., Fraser, C. M., Hall, N. The Genome of the protist parasite Entamoeba histolytica Nature, 433(01): 865--868. |
2005 | Loftus, B., Anderson, I., Davies, R., Alsmark, U. C., Samuelson, J., Amedeo, P., Roncaglia, P., Berriman, M., Hirt, R. P., J, B., Nozaki, T., Suh, B., Pop, M., Duchene, M., Ackers, J., Tannich, E., Leippe, M., Hofer, M., Bruchhaus, I., Willhoeft, U., Bhattacharya, A., Chillingworth, T., Churcher, C., Hance, Z., Harris, B., Harris, D., Jagels, K., Moule, S., Mungall, K., Ormond, D., Squares, R., Whitehead, S., A, M., Rabbinowitsch, E., Norbertczak, H., Price, C., Wang, Z., Guillen, N., Gilchrist, C., Stroup, S. E., Bhattacharya, S., Lohia, A., Foster, P. G., Sicheritz-Ponten, T., Weber, C., Singh, U., Mukherjee, C., El-Sayed, N. M., Petri, W. A., Jr., Clark, C. G., Embley, T. M., Barrell, B., Fraser, C. M., Hall, N. (2005) The Genome of the protist parasite Entamoeba histolytica . Nature, 433(01):865--868. |
Journal Article | 191 | Meyer, S., Pospisil, H., Scholten, S. Heterosis associated gene expression in maize embryos 6 days after fertilization exhibits additive, dominant and overdominant pattern Plant Mol Biol, 63(3): 381--391. |
2007 | Meyer, S., Pospisil, H., Scholten, S. (2007) Heterosis associated gene expression in maize embryos 6 days after fertilization exhibits additive, dominant and overdominant pattern . Plant Mol Biol, 63(3):381--391. |
Journal Article | 192 | Pobigaylo, N., Wetter, D., Szymczak, S., Schiller, U., Kurtz, S., Meyer, F., Nattkemper, T. W., Becker, A. Construction of a large signature-tagged mini-Tn5 transposon library and its application to mutagenesis of Sinorhizobium meliloti Appl Environ Microbiol., 72(6): 4329--4337. |
2006 | Pobigaylo, N., Wetter, D., Szymczak, S., Schiller, U., Kurtz, S., Meyer, F., Nattkemper, T. W., Becker, A. (2006) Construction of a large signature-tagged mini-Tn5 transposon library and its application to mutagenesis of Sinorhizobium meliloti . Appl Environ Microbiol., 72(6):4329--4337. |
Journal Article | 193 | Pospisil, H. Identification of embryo specific human isoforms using a database of predicted alternative splice forms Journal of Integrative Bioinformatics, 17(01): 01. |
2006 | Pospisil, H. (2006) Identification of embryo specific human isoforms using a database of predicted alternative splice forms . Journal of Integrative Bioinformatics, 17(01):01. |
Journal Article | 194 | Pospisil, H., Herrmann, A., Bortfeldt, R. H., Reich, J. EASED: Extended alternatively spliced EST database Nucleic Acid Res., 32(1): Database Issue 70--74. |
2004 | Pospisil, H., Herrmann, A., Bortfeldt, R. H., Reich, J. (2004) EASED: Extended alternatively spliced EST database . Nucleic Acid Res., 32(1):Database Issue 70--74. |
Journal Article | 195 | Balkenhol, B., Kurtz, S. Universal data compression based on the Burrows and Wheeler transformation: Theory and practice IEEE Trans. on Computers, 49(1): 1043--1053. |
2000 | Balkenhol, B., Kurtz, S. (2000) Universal data compression based on the Burrows and Wheeler transformation: Theory and practice . IEEE Trans. on Computers, 49(1):1043--1053. |
Journal Article | 196 | Pospisil, H., Herrmann, A., Butherus, K., Pirson, S., Reich, J. G., Kemmner, W. Verification of predicted alternatively spliced Wnt genes reveals two new splice variants (CTNNB1 and LRP5) and the altered Axin-1 expression euring tumour progression BMC Genomics, 7(01): 148. |
2006 | Pospisil, H., Herrmann, A., Butherus, K., Pirson, S., Reich, J. G., Kemmner, W. (2006) Verification of predicted alternatively spliced Wnt genes reveals two new splice variants (CTNNB1 and LRP5) and the altered Axin-1 expression euring tumour progression . BMC Genomics, 7(01):148. |
Journal Article | 197 | Pospisil, H., Herrmann, A., Pankow, H., Reich, J. A database on alternative splice forms on the Integrated Genetic Map Service (IGMS) In Silico Biology, 3(01): 229--234. |
2003 | Pospisil, H., Herrmann, A., Pankow, H., Reich, J. (2003) A database on alternative splice forms on the Integrated Genetic Map Service (IGMS) . In Silico Biology, 3(01):229--234. |
Journal Article | 198 | Pospisil, H., Holzhütter, H. G. A compartment model to calculate time-dependent concentration profiles of topically applied chemical compounds in the anterior compartments of the rabbit eye ATLA, 29(3): 347--365. |
2001 | Pospisil, H., Holzhütter, H. G. (2001) A compartment model to calculate time-dependent concentration profiles of topically applied chemical compounds in the anterior compartments of the rabbit eye . ATLA, 29(3):347--365. |
Conference Proceedings | 199 | Reich, J., Pospisil, H. Splice variants of gene expression---a source for diversity of the human proteome Proceedings of the XIIth International Congress on Genes, Gene Families and Isozymes (01, ed.). Moduzzi Editore International Proceedings Division. |
2003 | Reich, J., Pospisil, H. (2003) Splice variants of gene expression---a source for diversity of the human proteome . Proceedings of the XIIth International Congress on Genes, Gene Families and Isozymes (01, ed.). Moduzzi Editore International Proceedings Division. |
Journal Article | 200 | Sarkar, A., Coates, C. J., Whyard, S., Willhoeft, U. Atkinson P. W., O'Brochta, D. A. The Hermes element from Musca domestica can transpose in four families of cyclorrhaphan flies Genetica, 99(01): 15-29. |
1997 | Sarkar, A., Coates, C. J., Whyard, S., Willhoeft, U. Atkinson P. W., O'Brochta, D. A. (1997) The Hermes element from Musca domestica can transpose in four families of cyclorrhaphan flies . Genetica, 99(01):15-29. |
Journal Article | 201 | Sczyrba, A., Krüger, J., Mersch, H., Kurtz, S., Giegerich, R. RNA-related tools on the Bielefeld Bioinformatics Server Nucleic Acids Res., 31(13): 3767--3770. |
2003 | Sczyrba, A., Krüger, J., Mersch, H., Kurtz, S., Giegerich, R. (2003) RNA-related tools on the Bielefeld Bioinformatics Server . Nucleic Acids Res., 31(13):3767--3770. |
Journal Article | 202 | Traut, W., Willhoeft, U. A jumping sex determining factor in the fly Megaselia scalaris 01 Chromosoma, 99(01): 407--412. |
1990 | Traut, W., Willhoeft, U. (1990) A jumping sex determining factor in the fly Megaselia scalaris 01. Chromosoma, 99(01):407--412. |
Journal Article | 203 | Willhoeft, U. Fluorescence in situ hybridization of ribosomal DNA to mitotic chromosomes of tsetse flies (Diptera: Glossinidae: Glossina) Chromosome Res., 5(01): 262--267. |
1997 | Willhoeft, U. (1997) Fluorescence in situ hybridization of ribosomal DNA to mitotic chromosomes of tsetse flies (Diptera: Glossinidae: Glossina) . Chromosome Res., 5(01):262--267. |
Journal Article | 204 | Willhoeft, U., Buss, H., Tannich, E. Genetic differences between Entamoeba histolytica and Entamoeba dispar Arch. Med. Res., 31(01): S254. |
2000 | Willhoeft, U., Buss, H., Tannich, E. (2000) Genetic differences between Entamoeba histolytica and Entamoeba dispar . Arch. Med. Res., 31(01):S254. |
Journal Article | 205 | Willhoeft, U., Buß, H., Tannich, E. The abundant polyadenylated transcript 2 DNA sequence of the pathogenic protozoan parasite Entamoeba histolytica represents a nonautonomous non-long-terminal-repeat retrotransposon-like element which is absent in the closely related nonpathogenic species Entamoeba dispar Infect. Immun., 70(01): 6798--6804. |
2002 | Willhoeft, U., Buß, H., Tannich, E. (2002) The abundant polyadenylated transcript 2 DNA sequence of the pathogenic protozoan parasite Entamoeba histolytica represents a nonautonomous non-long-terminal-repeat retrotransposon-like element which is absent in the closely related nonpathogenic species Entamoeba dispar . Infect. Immun., 70(01):6798--6804. |
Conference Proceedings | 206 | Balkenhol, B., Kurtz, S., Shtarkov, Y. M. Modification of the Burrows and Wheeler data compression algorithm Proceedings of the IEEE Data Compression Conference, Snowbird, Utah (01, ed.). IEEE Computer Society Press. |
1999 | Balkenhol, B., Kurtz, S., Shtarkov, Y. M. (1999) Modification of the Burrows and Wheeler data compression algorithm . Proceedings of the IEEE Data Compression Conference, Snowbird, Utah (01, ed.). IEEE Computer Society Press. |
Journal Article | 207 | Willhoeft, U., Buß, H., Tannich, E. Analysis of cDNA expressed sequence tags from Entamoeba histolytica: Identification of two highly abundant polyadenylated transcripts with no overt open reading frames Protist, 150(01): 61--70. |
1999 | Willhoeft, U., Buß, H., Tannich, E. (1999) Analysis of cDNA expressed sequence tags from Entamoeba histolytica: Identification of two highly abundant polyadenylated transcripts with no overt open reading frames . Protist, 150(01):61--70. |
Journal Article | 208 | Willhoeft, U., Buß, H., Tannich, E. DNA sequences corresponding to the ariel gene family of Entamoeba histolytica are not present in E. dispar Parasitol. Res., 85(01): 787--789. |
1999 | Willhoeft, U., Buß, H., Tannich, E. (1999) DNA sequences corresponding to the ariel gene family of Entamoeba histolytica are not present in E. dispar . Parasitol. Res., 85(01):787--789. |
Journal Article | 209 | Willhoeft, U., Campos-Congares, E., Touzni, S., Bruchhaus, I., Tannich, E. Introns of Entamoeba histolytica and Entamoeba dispar Protist, 152(01): 149--156. |
2001 | Willhoeft, U., Campos-Congares, E., Touzni, S., Bruchhaus, I., Tannich, E. (2001) Introns of Entamoeba histolytica and Entamoeba dispar . Protist, 152(01):149--156. |
Journal Article | 210 | Willhoeft, U., Franz, G. Identification of the sex determining region of the Ceratitis capitata Y chromosome by deletion mapping Genetics, 144(01): 739--745. |
1996 | Willhoeft, U., Franz, G. (1996) Identification of the sex determining region of the Ceratitis capitata Y chromosome by deletion mapping . Genetics, 144(01):739--745. |
Journal Article | 211 | Willhoeft, U., Franz, G. Comparison of the mitotic karyotypes of Ceratitis capitata, Ceratitis rosa and Trirhithrum coffeae (Diptera: Tephritidae) by C-banding and FISH 01 Genome, 39(01): 884--889. |
1996 | Willhoeft, U., Franz, G. (1996) Comparison of the mitotic karyotypes of Ceratitis capitata, Ceratitis rosa and Trirhithrum coffeae (Diptera: Tephritidae) by C-banding and FISH 01. Genome, 39(01):884--889. |
Conference Proceedings | 212 | Willhoeft, U., Franz, G., McInnis, D. Towards the application of genetic sexing in tephritid fruit fly SIT programs 01 Fruit Flies Pests: A World Assessment of their Biology and Management, Proceedings of the 4th Int. Symp. on Fruit Flies of Economic Importance (McPheron, B. A., Steck, G. J., ed.). St. Lucie Press, Delray Beach, Florida. |
1996 | Willhoeft, U., Franz, G., McInnis, D. (1996) Towards the application of genetic sexing in tephritid fruit fly SIT programs 01. Fruit Flies Pests: A World Assessment of their Biology and Management, Proceedings of the 4th Int. Symp. on Fruit Flies of Economic Importance (McPheron, B. A., Steck, G. J., ed.). St. Lucie Press, Delray Beach, Florida. |
Journal Article | 213 | Willhoeft, U., Hamann, L., Tannich, E. A DNA sequence corresponding to the gene encoding cysteine proteinase 5 in Entamoeba histolytica is present and positionally conserved but highly degenerated in Entamoeba dispar Infect. Immun., 67(01): 5925--5929. |
1999 | Willhoeft, U., Hamann, L., Tannich, E. (1999) A DNA sequence corresponding to the gene encoding cysteine proteinase 5 in Entamoeba histolytica is present and positionally conserved but highly degenerated in Entamoeba dispar . Infect. Immun., 67(01):5925--5929. |
Journal Article | 214 | Willhoeft, U., Mueller-Navia, J., Franz, G. Analysis of the sex chromosomes of the Mediterranean fruit fly by microdissected DNA probes 01 Genome, 41(01): 74--78. |
1998 | Willhoeft, U., Mueller-Navia, J., Franz, G. (1998) Analysis of the sex chromosomes of the Mediterranean fruit fly by microdissected DNA probes 01. Genome, 41(01):74--78. |
Journal Article | 215 | Willhoeft, U., Tannich, E. Fluorescence microscopy and fluorescence in situ hybridization of Entamoeba histolytica nuclei to analyse mitosis and localization of repetitive DNA Mol. Biochem. Parasitol., 105(01): 291--296. |
2000 | Willhoeft, U., Tannich, E. (2000) Fluorescence microscopy and fluorescence in situ hybridization of Entamoeba histolytica nuclei to analyse mitosis and localization of repetitive DNA . Mol. Biochem. Parasitol., 105(01):291--296. |
Journal Article | 216 | Willhoeft, U., Tannich, E. The electrophoretic karyotype of Entamoeba histolytica Mol. Biochem. Parasitol., 99(01): 41--53. |
1999 | Willhoeft, U., Tannich, E. (1999) The electrophoretic karyotype of Entamoeba histolytica . Mol. Biochem. Parasitol., 99(01):41--53. |
Journal Article | 217 | Beckstette, M., Homann, R., Giegerich, R., Kurtz, S. Fast index based algorithms and software for matching position specific scoring matrices BMC Bioinformatics, 7(01): 389. |
2006 | Beckstette, M., Homann, R., Giegerich, R., Kurtz, S. (2006) Fast index based algorithms and software for matching position specific scoring matrices . BMC Bioinformatics, 7(01):389. |
Journal Article | 218 | Willhoeft, U., Traut, W. The sex-determining region of the Megaselia scalaris (Diptera) Y chromosome Chromosome Res., 3(01): 59--65. |
1995 | Willhoeft, U., Traut, W. (1995) The sex-determining region of the Megaselia scalaris (Diptera) Y chromosome . Chromosome Res., 3(01):59--65. |
Journal Article | 219 | Willhoeft, U., Traut, W. Molecular differentiation of the homomorphic sex chromosomes in Megaselia scalaris (Diptera) detected by random DNA probes Chromosoma, 99(01): 237--242. |
1990 | Willhoeft, U., Traut, W. (1990) Molecular differentiation of the homomorphic sex chromosomes in Megaselia scalaris (Diptera) detected by random DNA probes . Chromosoma, 99(01):237--242. |
Journal Article | 220 | Zingler, N., Willhoeft, U., Brose, H. P., Schoder, V., Jahns, T., Hanschmann, K. M. O., Morrish, T. A., Löwer, J., Schumann, G. Analysis of 5' junctions of human LINE-1 and Alu retrotransposons suggests an alternative model for 5' end attachment requiring microhomology-mediated end joining Genome Research, 15(01): 780--789. |
2005 | Zingler, N., Willhoeft, U., Brose, H. P., Schoder, V., Jahns, T., Hanschmann, K. M. O., Morrish, T. A., Löwer, J., Schumann, G. (2005) Analysis of 5' junctions of human LINE-1 and Alu retrotransposons suggests an alternative model for 5' end attachment requiring microhomology-mediated end joining . Genome Research, 15(01):780--789. |
Journal Article | 221 | Hanauske, A. R., Eismann, U., Oberschmidt, O., Pospisil, H., Hanauske-Abel, H. M., Blatter, J., Ma, D., Chen, V., Lahn, M. Correlations of mRNA expression and in vitro chemosensitivity to enzastaurin in freshly explanted human tumor cells Invest New Drugs, 26(3): 215-22. |
2007 | Hanauske, A. R., Eismann, U., Oberschmidt, O., Pospisil, H., Hanauske-Abel, H. M., Blatter, J., Ma, D., Chen, V., Lahn, M. (2007) Correlations of mRNA expression and in vitro chemosensitivity to enzastaurin in freshly explanted human tumor cells . Invest New Drugs, 26(3):215-22. |
Book Section | 222 | Brendel, V., Kurtz, S., Pan, X. Visualization of syntenic relationships with SynBrowse In Comparative Genomics (Bergmann, N.H., ed.), Vol. 2, pp. 153-164. Humana Press. |
2007 | Brendel, V., Kurtz, S., Pan, X. (2007) Visualization of syntenic relationships with SynBrowse . In Comparative Genomics (Bergmann, N.H., ed.), Vol. 2, pp. 153-164. Humana Press. |
Journal Article | 223 | Ellinghaus, D., Kurtz, S., Willhoeft, U. LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons BMC Bioinformatics, 9(1): 18. |
2008 | Ellinghaus, D., Kurtz, S., Willhoeft, U. (2008) LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons . BMC Bioinformatics, 9(1):18. |
Journal Article | 224 | Ohlebusch, E., Kurtz, S. Space efficient computation of rare maximal exact matches between multiple sequences Journal of Computational Biology, 15(4): 357-377. |
2008 | Ohlebusch, E., Kurtz, S. (2008) Space efficient computation of rare maximal exact matches between multiple sequences . Journal of Computational Biology, 15(4):357-377. |
Journal Article | 225 | Herold, J., Kurtz, S., Giegerich, R. Efficient computation of absent words in genomic sequences BMC Bioinformatics, 9: 167. |
2008 | Herold, J., Kurtz, S., Giegerich, R. (2008) Efficient computation of absent words in genomic sequences . BMC Bioinformatics, 9:167. |
Journal Article | 226 | Scheja, L., Heese, B., Zitzer, H., Michael, M.D., Siesky, A.M., Pospisil, H., Beisiegel, U., Seedorf, K. Acute-Phase Serum Amyloid A as a Marker of Insulin Resistance in Mice Experimental Diabetes Research, Volume 2008, Article ID 230837(01): 1--11. |
2008 | Scheja, L., Heese, B., Zitzer, H., Michael, M.D., Siesky, A.M., Pospisil, H., Beisiegel, U., Seedorf, K. (2008) Acute-Phase Serum Amyloid A as a Marker of Insulin Resistance in Mice . Experimental Diabetes Research, Volume 2008, Article ID 230837(01):1--11. |
Journal Article | 227 | Helms, M., Kemming, D., Pospisil, H., Vogt, U., Buerger, H., Korsching, E., Liedtke, C., Schlotter, C.M., Brandt, H.B. Squalene epoxidase, located at chromosome 8q24.1, is upregulated in 8q+ breast cancer and indicates poor clinical outcome in stage I and II disease British Journal of Cancer, 99(01): 774--780. |
2008 | Helms, M., Kemming, D., Pospisil, H., Vogt, U., Buerger, H., Korsching, E., Liedtke, C., Schlotter, C.M., Brandt, H.B. (2008) Squalene epoxidase, located at chromosome 8q24.1, is upregulated in 8q+ breast cancer and indicates poor clinical
outcome in stage I and II disease . British Journal of Cancer, 99(01):774--780. |
Conference Proceedings | 228 | Beckstette, M., Strothmann, D., Homann, R., Giegerich, R., Kurtz, S. PoSSuMsearch: Fast and sensitive matching of position specific scoring matrices using enhanced suffix arrays Proc. of the German Conference on Bioinformatics (Giegerich, R., Stoye, J., ed.) |
2004 | Beckstette, M., Strothmann, D., Homann, R., Giegerich, R., Kurtz, S. (2004) PoSSuMsearch: Fast and sensitive matching of position specific scoring matrices using enhanced suffix arrays . Proc. of the German Conference on Bioinformatics (Giegerich, R., Stoye, J., ed.) |
Journal Article | 229 | Scheja, L., Toedter, K., Mohr, R., Niederfellner, G., Michael, M.D., Meissner, A., Schoettler, A., Pospisil, H., Beisiegel, U., Heeren, J. Liver TAG Transiently decreases While PL n-3 and n-6 Fatty Acids are Persistently Elevated in Insulin Resistant Mice Lipids, 43(01): 1039 -1051. |
2008 | Scheja, L., Toedter, K., Mohr, R., Niederfellner, G., Michael, M.D., Meissner, A., Schoettler, A., Pospisil, H., Beisiegel, U., Heeren, J. (2008) Liver TAG Transiently decreases While PL n-3 and n-6 Fatty Acids are Persistently Elevated in Insulin Resistant Mice . Lipids, 43(01):1039 -1051. |
Journal Article | 230 | Kurtz, S., Narechania, A., Stein, J.C., Ware, D. A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes BMC Genomics, 9: 517. |
2008 | Kurtz, S., Narechania, A., Stein, J.C., Ware, D. (2008) A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes . BMC Genomics, 9:517. |
Journal Article | 231 | Abouelhoda, M.I., Kurtz, S., Ohlebusch, E. CoCoNUT: an efficient system for the comparison and analysis of genomes BMC Bioinformatics, 9: 476. |
2008 | Abouelhoda, M.I., Kurtz, S., Ohlebusch, E. (2008) CoCoNUT: an efficient system for the comparison and analysis of genomes . BMC Bioinformatics, 9:476. |
Journal Article | 232 | Steinbiss, S., Gremme, G., Schaerfer, C., Mader, M., Kurtz, S. AnnotationSketch: a genome annotation drawing library Bioinformatics, 25(4): 533-534. |
2009 | Steinbiss, S., Gremme, G., Schaerfer, C., Mader, M., Kurtz, S. (2009) AnnotationSketch: a genome annotation drawing library . Bioinformatics, 25(4):533-534. |
Journal Article | 233 | Koscielny, G., Texier, V. Le, Gopalakrishnan, C., Kumanduri, V., Riethoven, J.-J., Nardone, F., Stanley, E., Fallsehr, C., Hofmann, O., Kull, M., Harrington, E., Boué, S., Eyras, E., Plass, M., Lopez, F., Ritchie, W., Moucadel, V., Ara, T., Pospisil, H., Herrmann, A., Reich, J. G., Guigó, R., Bork, P., Knebel Doeberitz, M. von, Vilo, J., Hide, W., Apweiler, R., Thanaraj, T. A., Gautheret, D. ASTD: The Alternative Splicing and Transcript Diversity Database Genomics, 93(3): 213-220. |
2009 | Koscielny, G., Texier, V. Le, Gopalakrishnan, C., Kumanduri, V., Riethoven, J.-J., Nardone, F., Stanley, E., Fallsehr, C., Hofmann, O., Kull, M., Harrington, E., Boué, S., Eyras, E., Plass, M., Lopez, F., Ritchie, W., Moucadel, V., Ara, T., Pospisil, H., Herrmann, A., Reich, J. G., Guigó, R., Bork, P., Knebel Doeberitz, M. von, Vilo, J., Hide, W., Apweiler, R., Thanaraj, T. A., Gautheret, D. (2009) ASTD: The Alternative Splicing and Transcript Diversity Database . Genomics, 93(3):213-220. |
Book Section | 234 | Bortfeld, R., Herrmann, A., Pospisil, H., Schuster, S. Validation of human alternative splice forms using the EASED platform and multiple splice site discriminating features In Mathematical Modeling of Biological Systems, Volume I Cellular Biophysics, Regulatory Networks, Development, Biomedicine, and Data Analysis (Series: Modeling and Simulation in Science, Engineering and Technology) (Deutsch, A., Brusch, L., Byrne, H., de Vries, G., Herzel, H., ed.) |
2007 | Bortfeld, R., Herrmann, A., Pospisil, H., Schuster, S. (2007) Validation of human alternative splice forms using the EASED platform and multiple splice site discriminating features . In Mathematical Modeling of Biological Systems, Volume I Cellular Biophysics, Regulatory Networks, Development, Biomedicine, and Data Analysis (Series: Modeling and Simulation in Science, Engineering and Technology) (Deutsch, A., Brusch, L., Byrne, H., de Vries, G., Herzel, H., ed.) |
Journal Article | 235 | Helms, M. W., Kemming, D., Contag, C. H., Pospisil, H., Bartkowiak, K., Wang, A., Chang, S.-Y., Buerger, H., Brandt, B. H. TOB1 Is Regulated by EGF-Dependent HER2 and EGFR Signaling, Is Highly Phosphorylated, and Indicates Poor Prognosis in Node-Negative Breast Cancer Cancer Res, 69(12): 5049--5056. |
2009 | Helms, M. W., Kemming, D., Contag, C. H., Pospisil, H., Bartkowiak, K., Wang, A., Chang, S.-Y., Buerger, H., Brandt, B. H. (2009) TOB1 Is Regulated by EGF-Dependent HER2 and EGFR Signaling, Is Highly Phosphorylated, and Indicates Poor Prognosis in Node-Negative Breast Cancer . Cancer Res, 69(12):5049--5056. |
Journal Article | 236 | Dancau, A.-M., Wuth, L., Waschow, M., Holst, F., Krohn, A., Choschzick, M., Terracciano, L., Politis, S., Kurtz, S., Lebeau, A., Friedrichs, K., Wencke, K., Monni, O., Simon, R. PPFIAI and CCNDI are Frequently Coamplified in Breast Cancer Genes, Chromosomes & Cancer, 49(1): 1--8. |
2010 | Dancau, A.-M., Wuth, L., Waschow, M., Holst, F., Krohn, A., Choschzick, M., Terracciano, L., Politis, S., Kurtz, S., Lebeau, A., Friedrichs, K., Wencke, K., Monni, O., Simon, R. (2010) PPFIAI and CCNDI are Frequently Coamplified in Breast Cancer . Genes, Chromosomes & Cancer, 49(1):1--8. |
Journal Article | 237 | Steinbiss, S., Willhoeft, U., Gremme, G., Kurtz, S. Fine-grained annotation and classification of de novo predicted LTR retrotransposons Nucleic Acids Research, 37(21): 7002 - 7013. |
2009 | Steinbiss, S., Willhoeft, U., Gremme, G., Kurtz, S. (2009) Fine-grained annotation and classification of de novo predicted LTR retrotransposons . Nucleic Acids Research, 37(21):7002 - 7013. |
Journal Article | 278 | Steinbiss, S., Kurtz, S. A New Efficient Data Structure for Storage and Retrieval of Multiple Biosequences IEEE/ACM Trans Comput Biol Bioinform, 9(2): 345-357. |
2012 | Steinbiss, S., Kurtz, S. (2012) A New Efficient Data Structure for Storage and Retrieval of Multiple Biosequences . IEEE/ACM Trans Comput Biol Bioinform, 9(2):345-357. |
Journal Article | 279 | Hannemann, J., Meyer-Staeckling, S., Kemming, D., Alpers, I., Joosse, S.A., Pospisil, H., Kurtz, S., Görndt, J., Püschel, K., Riethdorf, S., Pantel, K., Brandt, B. Quantitative High-Resolution Genomic Analysis of Single Cancer Cells PLoS ONE, 6(11): e26362. |
2011 | Hannemann, J., Meyer-Staeckling, S., Kemming, D., Alpers, I., Joosse, S.A., Pospisil, H., Kurtz, S., Görndt, J., Püschel, K., Riethdorf, S., Pantel, K., Brandt, B. (2011) Quantitative High-Resolution Genomic Analysis of Single Cancer Cells . PLoS ONE, 6(11):e26362. |
Conference Proceedings | 292 | Meyer, F., Kurtz, S., Backofen, R., Will, S., Beckstette, M. Structator: fast index-based search for RNA sequence-structure patterns International German Conference on Bioinformatics. Highlight Track, Research Highlights |
2011 | Meyer, F., Kurtz, S., Backofen, R., Will, S., Beckstette, M. (2011) Structator: fast index-based search for RNA sequence-structure patterns . International German Conference on Bioinformatics. Highlight Track, Research Highlights |
Journal Article | 304 | Gonnella, G., Kurtz, S. Readjoiner: a fast and memory efficient string graph-based sequence assembler BMC Bioinformatics, 13(82) |
2012 | Gonnella, G., Kurtz, S. (2012) Readjoiner: a fast and memory efficient string graph-based sequence assembler . BMC Bioinformatics, 13(82) |
Journal Article | 309 | Krohn, A., Diedler, T., Burkhardt, L., Mayer, P.-S., De Silva, C., Meyer-Kornblum, M., Kötschau, D., Tennstedt, P., Huang, J., Gerhäuser, C., Mader, M., Kurtz, S., Sirma, H., Saad, F., Steuber, T., Graefen, M., Plass, C., Sauter, G., Simon, R., Minner, S., Schlomm, T. Genomic Deletion of PTEN Is Associated with Tumor Progression and Early PSA Recurrence in ERG Fusion-Positive and Fusion-Negative Prostate Cancer The American journal of pathology, 181(2): 401-412. |
2012 | Krohn, A., Diedler, T., Burkhardt, L., Mayer, P.-S., De Silva, C., Meyer-Kornblum, M., Kötschau, D., Tennstedt, P., Huang, J., Gerhäuser, C., Mader, M., Kurtz, S., Sirma, H., Saad, F., Steuber, T., Graefen, M., Plass, C., Sauter, G., Simon, R., Minner, S., Schlomm, T. (2012) Genomic Deletion of PTEN Is Associated with Tumor Progression and Early PSA Recurrence in ERG Fusion-Positive and Fusion-Negative Prostate Cancer . The American journal of pathology, 181(2):401-412. |
Journal Article | 318 | Perner, M.; Gonnella, G.; Hourdez, S.; Böhnke, S.; Kurtz, S.; Girguis, P. In-situ chemistry and microbial community compositions in five deep-sea hydrothermal fluid samples from Irina II in the Logatchev field Environmental Microbiology , 15(5): 1551-60. |
2013 | Perner, M.; Gonnella, G.; Hourdez, S.; Böhnke, S.; Kurtz, S.; Girguis, P. (2013) In-situ chemistry and microbial community compositions in five deep-sea hydrothermal fluid samples from Irina II in the Logatchev field . Environmental Microbiology , 15(5):1551-60. |
Journal Article | 319 | Steinbiss, S; Kastens, S.; Kurtz, S. LTRsift: a graphical user interface for semi-automatic classification and postprocessing of de novo detected LTR retrotransposons Mobile DNA, 3: 18. |
2012 | Steinbiss, S; Kastens, S.; Kurtz, S. (2012) LTRsift: a graphical user interface for semi-automatic classification and postprocessing of de novo detected LTR retrotransposons . Mobile DNA, 3:18. |
Conference Proceedings | 349 | Abdollahpour, H., Alawi, M., Beckstette, M., Seemanova, E., Komarek, V., Rosenberger, G., Kutsche, K. Exome sequencing identifies a homozygous frameshift mutation in AP481 in two siblings with severe intellectual disability, progressive spastic tetraplegia and microcephaly Proc. of the 24th Jahrestagung der Deutschen Gesellschaft fuer Humangenetik, Dresden 2013 |
2013 | Abdollahpour, H., Alawi, M., Beckstette, M., Seemanova, E., Komarek, V., Rosenberger, G., Kutsche, K. (2013) Exome sequencing identifies a homozygous frameshift mutation in AP481 in two siblings with severe intellectual disability, progressive spastic tetraplegia and microcephaly . Proc. of the 24th Jahrestagung der Deutschen Gesellschaft fuer Humangenetik, Dresden 2013 |
Journal Article | 354 | Niebuhr, B., Kriebitzsch, N., Fischer, M., Behrens, K., Günther, T., Alawi, M., Bergholz, U., Müller, U., Roscher, S., Ziegler, M., Buchholz, F., Grundhoff, A., Stocking, C. Runx1 is essential at two stages of early murine B-cell development. Blood: (Epub ahead of print). |
2013 | Niebuhr, B., Kriebitzsch, N., Fischer, M., Behrens, K., Günther, T., Alawi, M., Bergholz, U., Müller, U., Roscher, S., Ziegler, M., Buchholz, F., Grundhoff, A., Stocking, C. (2013) Runx1 is essential at two stages of early murine B-cell development. . Blood: (Epub ahead of print). |
Journal Article | 355 | Werner, S., Frey, S., Riethdorf, S., Schulze, C., Alawi, M., Kling, L., Vafaizadeh, V., Sauter, G., Terracciano, L., Schumacher, U., Pantel, K., Assmann, V. Dual Roles of the Transcription Factor Grainyhead-like 2 (GRHL2) in Breast Cancer The Journal of Biological Chemistry: (Epub ahead of print). |
2013 | Werner, S., Frey, S., Riethdorf, S., Schulze, C., Alawi, M., Kling, L., Vafaizadeh, V., Sauter, G., Terracciano, L., Schumacher, U., Pantel, K., Assmann, V. (2013) Dual Roles of the Transcription Factor Grainyhead-like 2 (GRHL2) in Breast Cancer . The Journal of Biological Chemistry: (Epub ahead of print). |
Conference Proceedings | 356 | Alawi, M., Mueller, D., Hoehne, M., Bock, CT., Mielke, M., Aepfelbacher, M., Fischer, N., Grundhoff, A.
Viral Metagenomics – next generation sequencing confirms the presence of multiple norovirus genotypes in stool samples collected during the largest gastroenteritis outbreak in Germany in fall 2012 23rd Annual Meeting of the Society for Virology |
2013 | Alawi, M., Mueller, D., Hoehne, M., Bock, CT., Mielke, M., Aepfelbacher, M., Fischer, N., Grundhoff, A.
(2013) Viral Metagenomics – next generation sequencing confirms the presence of multiple norovirus genotypes in stool samples collected during the largest gastroenteritis outbreak in Germany in fall 2012 . 23rd Annual Meeting of the Society for Virology |
Journal Article | 357 | Gremme, G., Steinbiss, S., Kurtz, S. GenomeTools: A Comprehensive Software Library for Efficient Processing of Structured Genome Annotations IEEE/ACM Trans. Comput Biol. Bioinform., 10(3): 645-56. |
2013 | Gremme, G., Steinbiss, S., Kurtz, S. (2013) GenomeTools: A Comprehensive Software Library for Efficient Processing
of Structured Genome Annotations . IEEE/ACM Trans. Comput Biol. Bioinform., 10(3):645-56. |
Journal Article | 358 | Meyer, F., Kurtz, S., Beckstette, M.
Fast online and index-based algorithms for approximate search of RNA sequence-structure patterns BMC Bioinformatics(14): 226. |
2013 | Meyer, F., Kurtz, S., Beckstette, M.
(2013) Fast online and index-based algorithms for approximate search of RNA sequence-structure patterns . BMC Bioinformatics(14):226. |
Journal Article | 363 | Krohn-Molt, I., Wemheuer, B., Alawi, M., Poehlein, A., Güllert, S., Schmeisser, C., Pommerening-Röser, A., Grundhoff, A., Daniel, R., Hanelt, D., Streit, W.R. Metagenome survey of a multispecies and algae-associated biofilm reveals key elements of bacterial-algae interactions in photobioreactors Applied and Environmental Microbiology, Epub ahead of print |
2013 | Krohn-Molt, I., Wemheuer, B., Alawi, M., Poehlein, A., Güllert, S., Schmeisser, C., Pommerening-Röser, A., Grundhoff, A., Daniel, R., Hanelt, D., Streit, W.R. (2013) Metagenome survey of a multispecies and algae-associated biofilm reveals key elements of bacterial-algae interactions in photobioreactors . Applied and Environmental Microbiology, Epub ahead of print |
Conference Proceedings | 364 | Gremme, G., Steinbiss, S., Kurtz, S. GenomeTools: A Comprehensive Software Library for Efficient Processing of Structured Genome Annotations German Conference on Bioinformatics 2013 |
2013 | Gremme, G., Steinbiss, S., Kurtz, S. (2013) GenomeTools: A Comprehensive Software Library for Efficient Processing of Structured Genome Annotations . German Conference on Bioinformatics 2013 |
Journal Article | 369 | Mader, M., Simon, R., Kurtz, S. FISH Oracle 2: A web server for integrative visualization of genomic data in cancer research Journal of Clinical Bioinformatics, 4(1): 5. |
2014 | Mader, M., Simon, R., Kurtz, S. (2014) FISH Oracle 2: A web server for integrative visualization of genomic data in cancer research . Journal of Clinical Bioinformatics, 4(1):5. |
Journal Article | 372 | *Perner, M., *Gonnella, G., Kurtz, S., LaRoche, J. (* = joint first authors) Handling temperature bursts reaching 464 °C: different microbial strategies in the Sisters Peak hydrothermal chimney Applied and Environmental Microbiology, 80(15): 4585-4598. |
2014 | *Perner, M., *Gonnella, G., Kurtz, S., LaRoche, J. (* = joint first authors) (2014) Handling temperature bursts reaching 464 °C: different microbial strategies in the Sisters Peak hydrothermal chimney . Applied and Environmental Microbiology, 80(15):4585-4598. |
Journal Article | 373 | Abdollahpour, H., Alawi, M., Kortüm, F., Beckstette, M., Seemanova, E. , Komárek, V., Rosenberger, G., Kutsche, K. An AP4B1 frameshift mutation in siblings with intellectual disability and spastic tetraplegia further delineates the AP-4 deficiency syndrome Eur J Hum Genet., Epub ahead of print |
2014 | Abdollahpour, H., Alawi, M., Kortüm, F., Beckstette, M., Seemanova, E. , Komárek, V., Rosenberger, G., Kutsche, K. (2014) An AP4B1 frameshift mutation in siblings with intellectual disability and spastic tetraplegia further delineates the AP-4 deficiency syndrome . Eur J Hum Genet., Epub ahead of print |
Journal Article | 374 | Thiele, B., Kloster, M., Alawi, M., Indenbirken, D., Trepel, M., Grundhoff, A., Binder, M. Next-generation sequencing of peripheral B-lineage cells pinpoints the circulating clonotypic cell pool in multiple myeloma Blood, Epub ahead of print |
2014 | Thiele, B., Kloster, M., Alawi, M., Indenbirken, D., Trepel, M., Grundhoff, A., Binder, M. (2014) Next-generation sequencing of peripheral B-lineage cells pinpoints the circulating clonotypic cell pool in multiple myeloma . Blood, Epub ahead of print |
Journal Article | 375 | Fischer, N., Rohde, H., Indenbirken, D., Günther, T., Reumann, K., Lütgehetmann, M., Meyer, T., Kluge, S., Aepfelbacher, M., Alawi, M., Grundhoff, A. Rapid Metagenomic Diagnostics for Suspected Outbreak of Severe Pneumonia Emerg Infect Dis |
2014 | Fischer, N., Rohde, H., Indenbirken, D., Günther, T., Reumann, K., Lütgehetmann, M., Meyer, T., Kluge, S., Aepfelbacher, M., Alawi, M., Grundhoff, A. (2014) Rapid Metagenomic Diagnostics for Suspected Outbreak of Severe Pneumonia . Emerg Infect Dis |
Journal Article | 382 | Nagarajan, S., Hossan, T., Alawi, M., Najafova, Z., Idenbirken, D., Bedi, U., Taipaleenmäki, H., Ben-Batalla, I., Scheller, M., Loges, S., Knapp, S., Hesse, E., Chiang, CM., Grundhoff, A., Johnsen, SA. Bromodomain protein BRD4 is required for estrogen receptor-dependent enhancer activation and gene transcription. Cell Rep, 8(2): 460-9. |
2014 | Nagarajan, S., Hossan, T., Alawi, M., Najafova, Z., Idenbirken, D., Bedi, U., Taipaleenmäki, H., Ben-Batalla, I., Scheller, M., Loges, S., Knapp, S., Hesse, E., Chiang, CM., Grundhoff, A., Johnsen, SA. (2014) Bromodomain protein BRD4 is required for estrogen receptor-dependent enhancer activation and gene transcription. . Cell Rep, 8(2):460-9. |
Journal Article | 383 | Kortüm, F., Abdollahpour, H., Alawi, M., Korenke, G.C., Seemanova, E., Tinschert, S., Zenker, M., Rosenberger, G., Kutsche, K. Exomsequenzierung zur Identifizierung von Krankheitsgenen für seltene Syndrome Medizinische genetik, 25(2): 246-254. |
2014 | Kortüm, F., Abdollahpour, H., Alawi, M., Korenke, G.C., Seemanova, E., Tinschert, S., Zenker, M., Rosenberger, G., Kutsche, K. (2014) Exomsequenzierung zur Identifizierung von Krankheitsgenen für seltene Syndrome . Medizinische genetik, 25(2):246-254. |
Journal Article | 384 | Deuse, T., Wang, D., Stubbendorff, M., Itagaki, R., Grabosch, A., Greaves L.C., Alawi, M., Gruenwald, A., Hu, X., Hua, X., Velden, J., Reichenspurner, H., Robbins R.C., Jaenisch, R., Weissman I.L. (Co-Senior author), Schrepfer, S. (Co-Senior author) SCNT-Derived ESCs with Mismatched Mitochondria Trigger an Immune Response in Allogeneic Hosts Cell Stem Cell |
2014 | Deuse, T., Wang, D., Stubbendorff, M., Itagaki, R., Grabosch, A., Greaves L.C., Alawi, M., Gruenwald, A., Hu, X., Hua, X., Velden, J., Reichenspurner, H., Robbins R.C., Jaenisch, R., Weissman I.L. (Co-Senior author), Schrepfer, S. (Co-Senior author) (2014) SCNT-Derived ESCs with Mismatched Mitochondria Trigger an Immune Response in Allogeneic Hosts . Cell Stem Cell |
Journal Article | 385 | Ilmberger, N., Güllert, S., Dannenberg, J., Rabausch, U., Torres, J., Wemheuer, B., Alawi, M., Poehlein, A., Chow, J., Turaev, D., Rattei, T., Schmeisser, C., Salomon, J., Olsen, P.B., Daniel, R., Grundhoff, A., Borchert, M.S., Streit, W.R. A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes. PLoS One, 9(9): e106707. |
2014 | Ilmberger, N., Güllert, S., Dannenberg, J., Rabausch, U., Torres, J., Wemheuer, B., Alawi, M., Poehlein, A., Chow, J., Turaev, D., Rattei, T., Schmeisser, C., Salomon, J., Olsen, P.B., Daniel, R., Grundhoff, A., Borchert, M.S., Streit, W.R. (2014) A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes. . PLoS One, 9(9):e106707. |
Journal Article | 488 | Gonnella, G.; Böhnke, S.; Indenbirken, D.; Garbe-Schönberg, D.; Seifert, R.; Mertens, C.; Kurtz, S.; Perner, M. Endemic hydrothermal vent species identified in the open ocean seed bank Nature microbiology, 1:article number 16086 |
2016 | Gonnella, G.; Böhnke, S.; Indenbirken, D.; Garbe-Schönberg, D.; Seifert, R.; Mertens, C.; Kurtz, S.; Perner, M. (2016) Endemic hydrothermal vent species identified in the open ocean seed bank . Nature microbiology, 1:article number 16086 |
Journal Article | 489 | Gonnella G., Kurtz S. RGFA: powerful and convenient handling of assembly graphs Peer J., 4:e2681 |
2016 | Gonnella G., Kurtz S. (2016) RGFA: powerful and convenient handling of assembly graphs . Peer J., 4:e2681 |
Journal Article | 493 | Giorgio Gonnella;
Stefan Kurtz GfaPy: a flexible and extensible software library for handling sequence graphs in Python Bioinformatics(btx398) |
2017 | Giorgio Gonnella;
Stefan Kurtz (2017) GfaPy: a flexible and extensible software library for handling sequence graphs in Python . Bioinformatics(btx398) |
Journal Article | 513 | Yuchen Han, Giorgio Gonnella, Nicole Adam, Axel Schippers, Lia Burkhardt, Stefan Kurtz, Ulrich Schwarz-Schampera, Henrike Franke, Mirjam Perner Hydrothermal chimneys host habitat-specific microbial communities: analogues for studying the possible impact of mining seafloor massive sulfide deposits Scientific Reports, 8: 10386. |
2018 | Yuchen Han, Giorgio Gonnella, Nicole Adam, Axel Schippers, Lia Burkhardt, Stefan Kurtz, Ulrich Schwarz-Schampera, Henrike Franke, Mirjam Perner (2018) Hydrothermal chimneys host habitat-specific microbial communities: analogues for studying the possible impact of mining seafloor massive sulfide deposits . Scientific Reports, 8:10386. |
Journal Article | 514 | Björn Grüning, Ryan Dale, Andreas Sjödin, Brad A. Chapman, Jillian Rowe, Christopher H. Tomkins-Tinch, Renan Valieris & Johannes Köster - The Bioconda Team Bioconda: sustainable and comprehensive software distribution for the life sciences Nature Methods, 15: 475 - 476. |
2018 | Björn Grüning, Ryan Dale, Andreas Sjödin, Brad A. Chapman, Jillian Rowe, Christopher H. Tomkins-Tinch, Renan Valieris & Johannes Köster - The Bioconda Team (2018) Bioconda: sustainable and comprehensive software distribution for the life sciences . Nature Methods, 15:475 - 476. |
Journal Article | 521 | Nagammal Neelagandan, Giorgio Gonnella, Stefan Dang, Philipp C. Janiesch, Katharine K. Miller, Katrin Küchler, Rita F. Marques, Daniela Indenbirken, Malik Alawi, Adam Grundhoff, Stefan Kurtz, Kent E Duncan TDP-43 enhances translation of specific mRNAs linked to neurodegenerative disease Nucleic Acids Research: gky972. |
2018 | Nagammal Neelagandan, Giorgio Gonnella, Stefan Dang, Philipp C. Janiesch, Katharine K. Miller, Katrin Küchler, Rita F. Marques, Daniela Indenbirken, Malik Alawi, Adam Grundhoff, Stefan Kurtz, Kent E Duncan (2018) TDP-43 enhances translation of specific mRNAs linked to neurodegenerative disease . Nucleic Acids Research:gky972. |
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