molecular immnuocomputing with application to alphabetical pattern recognition mimics the...
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Molecular Immnuocomputing with Application to Alphabetical Pattern Recognition Mimics the
Characterization of ABO Blood Type
Su Dong Kim2 , Ki-Roo Shin1 & Byoung-Tak Zhang1,2*
1 School of Computer Science & Engineering,Seoul National University, Seoul, Korea
2 Interdisciplinary Program in Cognitive Science,Seoul National University, Seoul, Korea
The Structure of Terminal Sugars in the A, B, & O Blood Antigens
(Gal; Galactose, GlcNAc; N-acetylglucosamine, Fuc; Fucose, and GalNAc; N-acetylgalactosamine)
Methods
Designing the peptide sequences
Purifying the corresponding antibodies
Preparation of protein microarray chips
Four Kinds of DNA Code Operators
Operator Operation
WTransition
{C ↔ T}, {A ↔ G}
XMatched-transition
{A ↔ T}, {C ↔ G}
YMismatched-transversion
{A ↔ C}, {G ↔ T}
ZBack-mutation
(null mutation)
Designing the Peptide Sequences
a t c c c t t
t c g g g c t
t c g g g c t
t c g g g c t
t c g g g c t
t c g g g c t
t t c c c t t
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49“O”- DNA template sequence:
5’- a tcc ctt tcg ggc ttc ggg ctt cgg gct tcg ggc ttc ggg ctt tcc ctt – 3’“O”- RNA transcript sequence: 3’ – ugu agg gaa agc ccg aag ccc gaa gcc cga agc ccg aag ccc gaa agg gaa – 5’“O”- peptide sequence: HOOC - *C G K R A E P K P K P S R A E P K G K -NH2
Discussion
(a)
Structures of the peptide CTP3 (VEVPGSQHIDSQKKA) (a),PS1 (HQLDPAFGANSTNPD) (b), SHaPrP (104-113 ; KPKTNMKHMA) (c),and peptide with antigen binding site (d).[(a), (b), and (c): drawed by the Swiss-PdbViewer (Guex & Peitsch, 1997); (d): adapted from Lescar et al. , 1991.]
(b) (c) (d)
Conclusion
Peptide computing Immunocomputing
Alternative toDNA computing
based onMathematical model
Biomolecule → Computation Computation → Biomolecule
= Molecular Immunocomputing (?)
Acknowledgments
This research was supported in part by the Ministry of Education& Human Resources Development under the BK21-IT Program,The Ministry of Commerce, Industry and Energy through the MECproject, and the NRL Program from Korean Ministry of Science &Technology.The ICT at Seoul National University provided research facilitiesfor this study.