title: microProtein Prediction Program (miP3): A Software for Predicting microProteins and Their Target Transcription Factors.
abstract: An emerging concept in transcriptional regulation is that a class of truncated transcription factors (TFs), called microProteins (miPs), engages in protein-protein interactions with TF complexes and provides feedback controls. A handful of miP examples have been described in the literature but the extent of their prevalence is unclear. Here we present an algorithm that predicts miPs and their target TFs from a sequenced genome. The algorithm is called miP prediction program (miP3), which is implemented in Python. The software will help shed light on the prevalence, biological roles, and evolution of miPs. Moreover, miP3 can be used to predict other types of miP-like proteins that may have evolved from other functional classes such as kinases and receptors. The program is freely available and can be applied to any sequenced genome.
authors.affiliation: Carnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USA ; Department of Genetics, University Medical Center Groningen, CB50, P.O. Box 30001, 9700 RB Groningen, Netherlands.
authors.forename: Niek
authors.initials: N
authors.lastname: de Klein
authors.affiliation: Carnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USA ; Institut Jean-Pierre Bourgin, INRA Centre de Versailles-Grignon, route de St-Cyr (RD10), 78026 Versailles Cedex, France.
authors.forename: Enrico
authors.initials: E
authors.lastname: Magnani
authors.affiliation: Carnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USA.
authors.forename: Michael
authors.initials: M
authors.lastname: Banf
authors.affiliation: Carnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USA.
authors.forename: Seung Yon
authors.initials: SY
authors.lastname: Rhee