@article{BordihnFernauHolzeretal.2006,
  author    = {Bordihn, Henning and Fernau, Henning and Holzer, Markus and Manca, Vincenzo and Martin-Vide, Carlos},
  title     = {Iterated sequential transducers as language generating devices},
  series = {Theoretical computer science},
  volume    = {369},
  journal   = {Theoretical computer science},
  number    = {1},
  publisher = {Elsevier},
  address   = {Amsterdam},
  issn      = {0304-3975},
  doi       = {10.1016/j.tcs.2006.07.059},
  pages     = {67 -- 81},
  year      = {2006},
  abstract  = {Iterated finite state sequential transducers are considered as language generating devices. The hierarchy induced by the size of the state alphabet is proved to collapse to the fourth level. The corresponding language families are related to the families of languages generated by Lindenmayer systems and Chomsky grammars. Finally, some results on deterministic and extended iterated finite state transducers are established.},
  language  = {en}
}
@article{BordihnHolzerKutrib2005,
  author    = {Bordihn, Henning and Holzer, Markus and Kutrib, Martin},
  title     = {Unsolvability levels of operation problems for subclasses of context-free languages},
  issn      = {0129-0541},
  year      = {2005},
  abstract  = {We investigate the operation problem for linear and deterministic context-free languages: Fix an operation on formal languages. Given linear (deterministic, respectively) context-free languages, is the application of this operation to the given languages still a linear (deterministic, respectively) context-free language? Besides the classical operations, for which the linear and deterministic context-free languages are not closed, we also consider the recently introduced root and power operation. We show non-semidecidability, to be more precise, we show completeness for the second level of the arithmetic hierarchy for all of the aforementioned operations, except for the power operation, if the underlying alphabet contains at least two letters. The result for the power opera, tion solves an open problem stated in Theoret. Comput. Sci. 314 (2004) 445-449},
  language  = {en}
}
@article{BenschBordihnHolzeretal.2009,
  author    = {Bensch, Suna and Bordihn, Henning and Holzer, Markus and Kutrib, Martin},
  title     = {On input-revolving deterministic and nondeterministic finite automata},
  issn      = {0890-5401},
  doi       = {10.1016/J.Ic.2009.03.002},
  year      = {2009},
  abstract  = {We introduce and investigate input-revolving finite automata, which are (nondeterministic) finite state automata with the additional ability to shift the remaining part of the input. Three different modes of shifting are considered, namely revolving to the left, revolving to the right, and circular-interchanging. We investigate the computational capacities of these three types of automata and their deterministic variants, comparing any of the six classes of automata with each other and with further classes of well-known automata. In particular, it is shown that nondeterminism is better than determinism, that is, for all three modes of shifting there is a language accepted by the nondeterministic model but not accepted by any deterministic automaton of the same type. Concerning the closure properties most of the deterministic language families studied are not closed under standard operations. For example, we show that the family of languages accepted by deterministic right-revolving finite automata is an anti-AFL which is not closed under reversal and intersection.},
  language  = {en}
}
@article{BordihnHolzerKutrib2009,
  author    = {Bordihn, Henning and Holzer, Markus and Kutrib, Martin},
  title     = {Determination of finite automata accepting subregular languages},
  issn      = {0304-3975},
  doi       = {10.1016/j.tcs.2009.05.019},
  year      = {2009},
  abstract  = {We investigate the descriptional complexity of the nondeterministic finite automaton (NFA) to the deterministic finite automaton (DFA) conversion problem, for automata accepting subregular languages such as combinational languages, definite languages and variants thereof, (strictly) locally testable languages, star-free languages, ordered languages, prefix-, suffix-, and infix-closed languages, and prefix-, Suffix-, and infix-free languages. Most of the bounds for the conversion problem are shown to be tight ill the exact number of states, that is, the number is sufficient and necessary in the worst case. Otherwise tight bounds in order of magnitude are shown.},
  language  = {en}
}
@article{BordihnHolzerKutrib2011,
  author    = {Bordihn, Henning and Holzer, Markus and Kutrib, Martin},
  title     = {Decidability of operation problems for TOL languages and subclasses},
  series = {Information and computation},
  volume    = {209},
  journal   = {Information and computation},
  number    = {3},
  publisher = {Elsevier},
  address   = {San Diego},
  issn      = {0890-5401},
  doi       = {10.1016/j.ic.2010.11.008},
  pages     = {344 -- 352},
  year      = {2011},
  abstract  = {We investigate the decidability of the operation problem for TOL languages and subclasses. Fix an operation on formal languages. Given languages from the family considered (OL languages, TOL languages, or their propagating variants), is the application of this operation to the given languages still a language that belongs to the same language family? Observe, that all the Lindenmayer language families in question are anti-AFLs, that is, they are not closed under homomorphisms, inverse homomorphisms, intersection with regular languages, union, concatenation, and Kleene closure. Besides these classical operations we also consider intersection and substitution, since the language families under consideration are not closed under these operations, too. We show that for all of the above mentioned language operations, except for the Kleene closure, the corresponding operation problems of OL and TOL languages and their propagating variants are not even semidecidable. The situation changes for unary OL languages. In this case we prove that the operation problems with respect to Kleene star, complementation, and intersection with regular sets are decidable.},
  language  = {en}
}
@article{WittigMirandaHoelzeretal.2022,
  author    = {Wittig, Alice and Miranda, Fabio Malcher and H{\"o}lzer, Martin and Altenburg, Tom and Bartoszewicz, Jakub Maciej and Beyvers, Sebastian and Dieckmann, Marius Alfred and Genske, Ulrich and Giese, Sven Hans-Joachim and Nowicka, Melania and Richard, Hugues and Schiebenhoefer, Henning and Schmachtenberg, Anna-Juliane and Sieben, Paul and Tang, Ming and Tembrockhaus, Julius and Renard, Bernhard Y. and Fuchs, Stephan},
  title     = {CovRadar},
  series = {Bioinformatics},
  volume    = {38},
  journal   = {Bioinformatics},
  number    = {17},
  publisher = {Oxford Univ. Press},
  address   = {Oxford},
  issn      = {1367-4803},
  doi       = {10.1093/bioinformatics/btac411},
  pages     = {4223 -- 4225},
  year      = {2022},
  abstract  = {The ongoing pandemic caused by SARS-CoV-2 emphasizes the importance of genomic surveillance to understand the evolution of the virus, to monitor the viral population, and plan epidemiological responses. Detailed analysis, easy visualization and intuitive filtering of the latest viral sequences are powerful for this purpose. We present CovRadar, a tool for genomic surveillance of the SARS-CoV-2 Spike protein. CovRadar consists of an analytical pipeline and a web application that enable the analysis and visualization of hundreds of thousand sequences. First, CovRadar extracts the regions of interest using local alignment, then builds a multiple sequence alignment, infers variants and consensus and finally presents the results in an interactive app, making accessing and reporting simple, flexible and fast.},
  language  = {en}
}