@misc{EichSchmaelzlinLoehmannsroeben2013,
  author    = {Eich, Susanne and Schm{\"a}lzlin, Elmar and L{\"o}hmannsr{\"o}ben, Hans-Gerd},
  title     = {Distributed fiber optical sensing of oxygen with optical time domain reflectometry},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  number    = {1085},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-47665},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-476659},
  pages     = {16},
  year      = {2013},
  abstract  = {In many biological and environmental applications spatially resolved sensing of molecular oxygen is desirable. A powerful tool for distributed measurements is optical time domain reflectometry (OTDR) which is often used in the field of telecommunications. We combine this technique with a novel optical oxygen sensor dye, triangular-[4] phenylene (TP), immobilized in a polymer matrix. The TP luminescence decay time is 86 ns. The short decay time of the sensor dye is suitable to achieve a spatial resolution of some meters. In this paper we present the development and characterization of a reflectometer in the UV range of the electromagnetic spectrum as well as optical oxygen sensing with different fiber arrangements.},
  language  = {en}
}
@misc{BuschingKrahe2013,
  author    = {Busching, Robert and Krah{\´e}, Barbara},
  title     = {Charging neutral cues with aggressive meaning through violent video game play},
  series = {Postprints der Universit{\"a}t Potsdam : Humanwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Humanwissenschaftliche Reihe},
  number    = {678},
  issn      = {1866-8364},
  doi       = {10.25932/publishup-47618},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-476181},
  pages     = {14},
  year      = {2013},
  abstract  = {When playing violent video games, aggressive actions are performed against the background of an originally neutral environment, and associations are formed between cues related to violence and contextual features. This experiment examined the hypothesis that neutral contextual features of a virtual environment become associated with aggressive meaning and acquire the function of primes for aggressive cognitions. Seventy-six participants were assigned to one of two violent video game conditions that varied in context (ship vs. city environment) or a control condition. Afterwards, they completed a Lexical Decision Task to measure the accessibility of aggressive cognitions in which they were primed either with ship-related or city-related words. As predicted, participants who had played the violent game in the ship environment had shorter reaction times for aggressive words following the ship primes than the city primes, whereas participants in the city condition responded faster to the aggressive words following the city primes compared to the ship primes. No parallel effect was observed for the non-aggressive targets. The findings indicate that the associations between violent and neutral cognitions learned during violent game play facilitate the accessibility of aggressive cognitions.},
  language  = {en}
}
@misc{WessigMatthes2013,
  author    = {Wessig, Pablo and Matthes, Annika},
  title     = {Photochemical synthesis and properties of 1,6- and 1,8-Naphthalenophanes},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  number    = {1042},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-47667},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-476675},
  pages     = {13},
  year      = {2013},
  abstract  = {Various 1,6- and 1,8-naphthalenophanes were synthesized by using the Photo-Dehydro-Diels-Alder (PDDA) reaction of bis-ynones. These compounds are easily accessible from omega-(3-iodophenyl)carboxylic acids in three steps. The obtained naphthalenophanes are axially chiral and the activation barrier for the atropisomerization could be determined in some cases by means of dynamic NMR (DNMR) and/or dynamic HPLC (DHPLC) experiments.},
  language  = {en}
}
@misc{BaumannArndtMueller2013,
  author    = {Baumann, Tobias and Arndt, Katja Maren and M{\"u}ller, Kristian M.},
  title     = {Directional cloning of DNA fragments using deoxyinosine-containing oligonucleotides and endonuclease V},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  number    = {983},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-43108},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-431085},
  pages     = {13},
  year      = {2013},
  abstract  = {Background: DNA fragments carrying internal recognition sites for the restriction endonucleases intended for cloning into a target plasmid pose a challenge for conventional cloning. Results: A method for directional insertion of DNA fragments into plasmid vectors has been developed. The target sequence is amplified from a template DNA sample by PCR using two oligonucleotides each containing a single deoxyinosine base at the third position from the 5' end. Treatment of such PCR products with endonuclease V generates 3' protruding ends suitable for ligation with vector fragments created by conventional restriction endonuclease reactions. Conclusions: The developed approach generates terminal cohesive ends without the use of Type II restriction endonucleases, and is thus independent from the DNA sequence. Due to PCR amplification, minimal amounts of template DNA are required. Using the robust Taq enzyme or a proofreading Pfu DNA polymerase mutant, the method is applicable to a broad range of insert sequences. Appropriate primer design enables direct incorporation of terminal DNA sequence modifications such as tag addition, insertions, deletions and mutations into the cloning strategy. Further, the restriction sites of the target plasmid can be either retained or removed.},
  language  = {en}
}
@misc{ZaourarHamoudiMandeaetal.2013,
  author    = {Zaourar, Naima and Hamoudi, Mohamed and Mandea, Mioara and Balasis, Georgios and Holschneider, Matthias},
  title     = {Wavelet-based multiscale analysis of geomagnetic disturbance},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  volume    = {65},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  number    = {12},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-43691},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-436912},
  pages     = {1525 -- 1540},
  year      = {2013},
  abstract  = {The dynamics of external contributions to the geomagnetic field is investigated by applying time-frequency methods to magnetic observatory data. Fractal models and multiscale analysis enable obtaining maximum quantitative information related to the short-term dynamics of the geomagnetic field activity. The stochastic properties of the horizontal component of the transient external field are determined by searching for scaling laws in the power spectra. The spectrum fits a power law with a scaling exponent β, a typical characteristic of self-affine time-series. Local variations in the power-law exponent are investigated by applying wavelet analysis to the same time-series. These analyses highlight the self-affine properties of geomagnetic perturbations and their persistence. Moreover, they show that the main phases of sudden storm disturbances are uniquely characterized by a scaling exponent varying between 1 and 3, possibly related to the energy contained in the external field. These new findings suggest the existence of a long-range dependence, the scaling exponent being an efficient indicator of geomagnetic activity and singularity detection. These results show that by using magnetogram regularity to reflect the magnetosphere activity, a theoretical analysis of the external geomagnetic field based on local power-law exponents is possible.},
  language  = {en}
}
@misc{KarpuzCevikKoppitzetal.2013,
  author    = {Karpuz, Eylem Guzel and {\c{C}}evik, Ahmet Sinan and Koppitz, J{\"o}rg and Cangul, Ismail Naci},
  title     = {Some fixed-point results on (generalized) Bruck-Reilly ∗-extensions of monoids},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  number    = {942},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-43270},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-432701},
  pages     = {11},
  year      = {2013},
  abstract  = {In this paper, we determine necessary and sufficient conditions for Bruck-Reilly and generalized Bruck-Reilly ∗-extensions of arbitrary monoids to be regular, coregular and strongly π-inverse. These semigroup classes have applications in various field of mathematics, such as matrix theory, discrete mathematics and p-adic analysis (especially in operator theory). In addition, while regularity and coregularity have so many applications in the meaning of boundaries (again in operator theory), inverse monoids and Bruck-Reilly extensions contain a mixture fixed-point results of algebra, topology and geometry within the purposes of this journal.},
  language  = {en}
}
@misc{BenteleSaffertRauscheretal.2013,
  author    = {Bentele, Kajetan and Saffert, Paul and Rauscher, Robert and Ignatova, Zoya and Bluethgen, Nils},
  title     = {Efficient translation initiation dictates codon usage at gene start},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  number    = {912},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-44133},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-441337},
  pages     = {12},
  year      = {2013},
  abstract  = {The genetic code is degenerate; thus, protein evolution does not uniquely determine the coding sequence. One of the puzzles in evolutionary genetics is therefore to uncover evolutionary driving forces that result in specific codon choice. In many bacteria, the first 5-10 codons of protein-coding genes are often codons that are less frequently used in the rest of the genome, an effect that has been argued to arise from selection for slowed early elongation to reduce ribosome traffic jams. However, genome analysis across many species has demonstrated that the region shows reduced mRNA folding consistent with pressure for efficient translation initiation. This raises the possibility that unusual codon usage is a side effect of selection for reduced mRNA structure. Here we discriminate between these two competing hypotheses, and show that in bacteria selection favours codons that reduce mRNA folding around the translation start, regardless of whether these codons are frequent or rare. Experiments confirm that primarily mRNA structure, and not codon usage, at the beginning of genes determines the translation rate.},
  language  = {en}
}
@misc{VanBelProostVanNesteetal.2013,
  author    = {Van Bel, Michiel and Proost, Sebastian and Van Neste, Christophe and Deforce, Dieter and Van de Peer, Yves and Vandepoele, Klaas},
  title     = {TRAPID},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  number    = {900},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-43640},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-436409},
  pages     = {12},
  year      = {2013},
  abstract  = {Transcriptome analysis through next-generation sequencing technologies allows the generation of detailed gene catalogs for non-model species, at the cost of new challenges with regards to computational requirements and bioinformatics expertise. Here, we present TRAPID, an online tool for the fast and efficient processing of assembled RNA-Seq transcriptome data, developed to mitigate these challenges. TRAPID offers high-throughput open reading frame detection, frameshift correction and includes a functional, comparative and phylogenetic toolbox, making use of 175 reference proteomes. Benchmarking and comparison against state-of-the-art transcript analysis tools reveals the efficiency and unique features of the TRAPID system. TRAPID is freely available at http://bioinformatics.psb.ugent.be/webtools/trapid/.},
  language  = {en}
}
@misc{HerrmannKritikos2013,
  author    = {Herrmann, Benedikt and Kritikos, Alexander},
  title     = {Growing out of the crisis},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe},
  number    = {896},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-43480},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-434805},
  pages     = {25},
  year      = {2013},
  abstract  = {Greece's currently planned institutional reforms will help to get the country going with limited economic growth. With an economy based primarily on tourism, trade, and agriculture, Greece lacks an established competitive industry and an innovation-friendly environment, resulting in a low export ratio given the small size of the country and its long-time EU-membership. Instead, Greece exports only its nation's talent, with low returns. To become prosperous, the country must better capitalize on its Eurozone membership and add innovative sectors to its economic structure. Given Greece's hidden assets, such as the attractiveness of the country, a small number of strong research centers and an impressive diaspora in research, finance and business, we envision a Greek "Silicon Valley" and propose a ten point policy plan to achieve that goal.},
  language  = {en}
}
@misc{MolahajlooPirhayati2013,
  author    = {Molahajloo, Shahla and Pirhayati, Mohammad},
  title     = {Traces of pseudo-differential operators on compact and Hausdorff groups},
  series = {Postprints der Universit{\"a}t Potsdam : Mathematisch Naturwissenschaftliche Reihe},
  journal   = {Postprints der Universit{\"a}t Potsdam : Mathematisch Naturwissenschaftliche Reihe},
  number    = {893},
  issn      = {1866-8372},
  doi       = {10.25932/publishup-43637},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-436371},
  pages     = {361 -- 369},
  year      = {2013},
  abstract  = {We give a characterization of and a trace formula for trace class pseudo-differential operators on compact Hausdorff groups.},
  language  = {en}
}