Journal of integrative bioinformatics

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The official bioinformatics tool list for the Journal of Integrative Bioinformatics (JIB).

All bioinformatics tools published in JIB are automatically added to with first authors having the ability to edit their entries and directly import the tools information to


A precise experimental identification of transcription factor binding motifs (TFBMs), accurate to a single base pair, is time-consuming and diffcult. For several databases, TFBM annotations are extracted from the literature and stored 5' --> 3' relative to the target gene. Mixing the two possible orientations of a motif results in poor information content of subsequently computed position frequency matrices (PFMs) and sequence logos. Since these PFMs are used to predict further TFBMs, we address the question if the TFBMs underlying a PFM can be re-annotated automatically to improve both the information content of the PFM and subsequent classification performance.

JIB Publications
  • Baumbach J, Wittkop T, Weile J, Kohl T, Rahmann S. MoRAine--a web server for fast computational transcription factor binding motif re-annotation. J Integr Bioinform. 2008;5(2). doi 10.2390/biecoll-jib-2008-91; PubMed 20134062