Publications of Enrico Seiler

Mehringer, S.; Seiler, E.; Droop, F.; Darvish, M.; Rahn, R.; Vingron, M.; Reinert, K.: Hierarchical Interleaved Bloom Filter: enabling ultrafast, approximate sequence queries. Genome Biology: Biology for the Post-Genomic Era 24 (1), 131 (2023)

Darvish, M.; Seiler, E.; Mehringer, S.; Rahn, R.; Reinert, K.: Needle: a fast and space-efficient prefilter for estimating the quantification of very large collections of expression experiments. Bioinformatics 28 (17), pp. 4100 - 4108 (2022)

Meyer, F.; Fritz, A.; Deng, Z.-L.; Koslicki, D.; Lesker, T. R.; Gurevich, A.; Robertson, G.; Alser, M.; Antipov, D.; Beghini, F. et al.; Bertrand, D.; Brito, J. J.; Brown, C. T.; Buchmann, J.; Buluc, A.; Chen, B.; Chikhi, R.; Clausen, P. T. L. C.; Cristian, A.; Dabrowski, P. W.; Darling, A. E.; Egan, R.; Eskin, E.; Georganas, E.; Goltsman, E.; Gray, M. A.; Hansen, L. H.; Hofmeyr, S.; Huang, P.; Irber, L.; Jia, H.; Jorgensen, T. S.; Kieser, S. D.; Klemetsen, T.; Kola, A.; Kolmogorov, M.; Korobeynikov, A.; Kwan, J.; LaPierre, N.; Lemaitre, C.; Li, C.; Limasset, A.; Malcher-Miranda, F.; Mangul, S.; Marcelino, V. R.; Marchet, C.; Marijon, P.; Meleshko, D.; Mende, D. R.; Milanese, A.; Nagarajan, N.; Nissen, J.; Nurk, S.; Oliker, L.; Paoli, L.; Peterlongo, P.; Piro, V. C.; Porter, J. S.; Rasmussen, S.; Rees, E. R.; Reinert, K.; Renard, B.; Robertsen, E. M.; Rosen, G. L.; Ruscheweyh, H.-J.; Sarwal, V.; Segata, N.; Seiler, E.; Shi, L.; Sun, F.; Sunagawa, S.; Sorensen, S. J.; Thomas, A.; Tong, C.; Trajkovski, M.; Tremblay, J.; Uritskiy, G.; Vicedomini, R.; Wang, Z.; Wang, Z.; Wang, Z.; Warren, A.; Willassen, N.; Yelick, K.; You, R.; Zeller, G.; Zhao, Z.; Zhu, S.; Zhu, J.; Garrido-Oter, R.; Gastmeier, P.; Hacquard, S.; Haeussler, S.; Khaledi, A.; Maechler, F.; Mesny, F.; Radutoiu, S.; Schulze-Lefert, P.; Smit, N.; Strowig, T.; Bremges, A.; Sczyrba, A.; McHardy, A. C.: Critical Assessment of Metagenome Interpretation: the second round of challenges. Nature Methods 19 (4), pp. 429 - 440 (2022)

Seiler, E.; Mehringer, S.; Darvish, M.; Turc, E.; Reinert, K.: Raptor: A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences. iScience 24 (7), 102782 (2021)

Piro, V. C.; Dadi, T. H.; Seiler, E.; Reinert, K.; Renard, B. Y.: ganon: precise metagenomics classification against large and up-to-date sets of reference sequences. Bioinformatics 36 (suppl.1), pp. i12 - i20 (2020)

Seiler, E.; Trappe, K.; Renard, B. Y.: Where did you come from, where did you go: Refining metagenomic analysis tools for horizontal gene transfer characterisation. PLOS Computational Biology 15 (7), e1007208 (2019)

Dadi, T. H.; Siragusa, E.; Piro, V. C.; Andrusch, A.; Seiler, E.; Renard, B. Y.; Reinert, K.: DREAM-Yara: an exact read mapper for very large databases with short update time. Bioinformatics 34 (17), pp. i766 - 1772 (2018)

Knaust, M.; Seiler, E.; Reinert, K.; Steinke, T.: Co-Design for Energy Efficient and Fast Genomic Search: Interleaved Bloom Filter on FPGA. In: FPGA '22, pp. 180 - 189. FPGA '22: Proceedings of the 2022 ACM/SIGDA International Symposium on Field-Programmable Gate Arrays, Virtual Event, February 27, 2022 - March 01, 2022. Association for Computing Machinery, New York, NY (2022)