@article{beier-grunwaldSelectionDNAAptamer2014,

title = {Selection of a DNA aptamer against norovirus capsid protein VP1},

author = {Rico Beier-Grunwald and Dirk Labudde},

year  = {2014},

date = {2014-01-01},

journal = {FEMS microbiology letters},

abstract = {Beier, Rico; C Pahlke; P Quenzel; A Henseleit; E Boschke; G Cuniberti; Labudde, Dirk: Selection of a DNA aptamer against norovirus capsid protein VP1, FEMS microbiology letters , 2014},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{beier-grunwaldNewStrategiesEvaluation2014,

title = {New Strategies for Evaluation and Analysis of SELEX Experiments},

author = {Rico Beier-Grunwald and Elke Boschke and Dirk Labudde},

doi = {10.1155/2014/849743},

year  = {2014},

date = {2014-01-01},

journal = {BioMed Research International},

abstract = {<jats:p>Aptamers are an interesting alternative to antibodies in pharmaceutics and biosensorics, because they are able to bind to a multitude of possible target molecules with high affinity. Therefore the process of finding such aptamers, which is commonly a SELEX screening process, becomes crucial. The standard SELEX procedure schedules the validation of certain found aptamers via binding experiments, which is not leading to any detailed specification of the aptamer enrichment during the screening. For the purpose of advanced analysis of the accrued enrichment within the SELEX library we used sequence information gathered by next generation sequencing techniques in addition to the standard SELEX procedure. As sequence motifs are one possibility of enrichment description, the need of finding those recurring sequence motifs corresponding to substructures within the aptamers, which are characteristically fitted to specific binding sites of the target, arises. In this paper a motif search algorithm is presented, which helps to describe the aptamers enrichment in more detail. The extensive characterization of target and binding aptamers may later reveal a functional connection between these molecules, which can be modeled and used to optimize future SELEX runs in case of the generation of target-specific starting libraries.</jats:p>},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{beier-grunwald_selection_2014,

title = {Selection of a DNA aptamer against norovirus capsid protein VP1},

author = {Rico Beier-Grunwald and Dirk Labudde},

year  = {2014},

date = {2014-01-01},

journal = {FEMS microbiology letters},

abstract = {Beier, Rico; C Pahlke; P Quenzel; A Henseleit; E Boschke; G Cuniberti; Labudde, Dirk: Selection of a DNA aptamer against norovirus capsid protein VP1, FEMS microbiology letters , 2014},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{beier-grunwald_new_2014,

title = {New Strategies for Evaluation and Analysis of SELEX Experiments},

author = {Rico Beier-Grunwald and Elke Boschke and Dirk Labudde},

doi = {10.1155/2014/849743},

year  = {2014},

date = {2014-01-01},

journal = {BioMed Research International},

abstract = {<jats:p>Aptamers are an interesting alternative to antibodies in pharmaceutics and biosensorics, because they are able to bind to a multitude of possible target molecules with high affinity. Therefore the process of finding such aptamers, which is commonly a SELEX screening process, becomes crucial. The standard SELEX procedure schedules the validation of certain found aptamers via binding experiments, which is not leading to any detailed specification of the aptamer enrichment during the screening. For the purpose of advanced analysis of the accrued enrichment within the SELEX library we used sequence information gathered by next generation sequencing techniques in addition to the standard SELEX procedure. As sequence motifs are one possibility of enrichment description, the need of finding those recurring sequence motifs corresponding to substructures within the aptamers, which are characteristically fitted to specific binding sites of the target, arises. In this paper a motif search algorithm is presented, which helps to describe the aptamers enrichment in more detail. The extensive characterization of target and binding aptamers may later reveal a functional connection between these molecules, which can be modeled and used to optimize future SELEX runs in case of the generation of target-specific starting libraries.</jats:p>},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{heinkeEProSDatabaseToolbox2013,

title = {eProS—a database and toolbox for investigating protein sequence–structure–function relationships through energy profiles},

author = {Florian Heinke and Stefan Schildbach and Daniel Stockmann and Dirk Labudde},

doi = {10.1093/nar/gks1079},

year  = {2013},

date = {2013-01-01},

journal = {Nucleic Acids Research},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{heinke_eprosdatabase_2013,

title = {eProS—a database and toolbox for investigating protein sequence–structure–function relationships through energy profiles},

author = {Florian Heinke and Stefan Schildbach and Daniel Stockmann and Dirk Labudde},

doi = {10.1093/nar/gks1079},

year  = {2013},

date = {2013-01-01},

journal = {Nucleic Acids Research},

keywords = {},

pubstate = {published},

tppubtype = {article}

}