Team:TU-Munich/Results/Software

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The AutoAnnotater

Introduction to the Idea behind our AutoAnnotator

The parts registry contains a wide range of interesting BioBricks from which many have similarity: they are not perfectly described and annotated. This is a real pity because after the identification of the open reading fram a multitude of parameters of the protein can be computed automatically. We are developing a tool which is able to identify the open reading frame of a BioBrick, analyze it for different parameters and export the results in a format that can easily be importet into a part description a a single table.

Import of BioBrick Sequences

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Determination of the Open Reading Frame

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Analyis for Codon Usage

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amino acid frequency
Ala (A) 14.3%
Arg (R) 0.0%
Asn (N) 0.0%
Asp (D) 0.0%
Cys (C) 0.0%
Gln (Q) 0.0%
Glu (E) 0.0%
Gly (G) 14.3%
His (H) 14.3%
Ile (I) 14.3%
Leu (L) 0.0%
Lys (K) 0.0%
Met (M) 0.0%
Phe (F) 0.0%
Pro (P) 0.0%
Pyl (O) 0.0%
Sec (U) 0.0%
Ser (S) 14.3%
Thr (T) 14.3%
Trp (W) 0.0%
Tyr (Y) 0.0%
Val (V) 0.0%
(B) 0.0%
(Z) 14.3%
(X) 0.0%
figure



Analysis for Biochemical Parameters

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Export of the Computed Parameters

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References:

http://www.ncbi.nlm.nih.gov/pubmed/6327079 Edens et al., 1984

  1. http://www.ncbi.nlm.nih.gov/pubmed/6327079 Edens et al., 1984 Edens, L., Bom, I., Ledeboer, A. M., Maat, J., Toonen, M. Y., Visser, C., and Verrips, C. T. (1984). Synthesis and processing of the plant protein thaumatin in yeast. Cell, 37(2):629–33.



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