Hub characteristics extraction of human proteins using tumor protein P53 – A case study

This paper addresses the characteristic extraction of hub protein based on Tumor Protein P53 whose properties are already established and known to have key functionalities. These characteristics can throw some light in the direction of hub classification in a cost effective manner. Current methods in this line use Gene Ontology database or sequence homology which are time consuming and complex. The proposed method uses a 420 element vector for the characteristic filtering of hub character from HPRD database and has shown some positive results.

[1]  S. L. Wong,et al.  Towards a proteome-scale map of the human protein–protein interaction network , 2005, Nature.

[2]  Ziv Bar-Joseph,et al.  Evaluation of different biological data and computational classification methods for use in protein interaction prediction , 2006, Proteins.

[3]  Reza Salavati,et al.  Sequence-based prediction of protein-protein interactions by means of codon usage , 2008, Genome Biology.

[4]  Artem Cherkasov,et al.  The use of Gene Ontology terms for predicting highly-connected 'hub' nodes in protein-protein interaction networks , 2008, BMC Systems Biology.

[5]  Alexei Vazquez,et al.  The genetics of the p53 pathway, apoptosis and cancer therapy , 2008, Nature Reviews Drug Discovery.

[6]  Lilia M. Iakoucheva,et al.  Intrinsic Disorder Is a Common Feature of Hub Proteins from Four Eukaryotic Interactomes , 2006, PLoS Comput. Biol..

[7]  Hon Wai Leong,et al.  Detecting hubs and quasi cliques in scale-free networks , 2008, 2008 19th International Conference on Pattern Recognition.

[8]  Yuko Makita,et al.  Amino-Acid Residue Association Models for Large Scale Protein-Protein Interaction Prediction , 2009, Silico Biol..

[9]  Mike Tyers,et al.  Evolutionary and Physiological Importance of Hub Proteins , 2006, PLoS Comput. Biol..

[10]  Philip M. Kim,et al.  Relating Three-Dimensional Structures to Protein Networks Provides Evolutionary Insights , 2006, Science.

[11]  D. Pim,et al.  Isolation and characterization of a human p53 cDNA clone: expression of the human p53 gene. , 1984, The EMBO journal.

[12]  C. Prives,et al.  The p53 pathway , 1999, The Journal of pathology.

[13]  R. Albert Scale-free networks in cell biology , 2005, Journal of Cell Science.

[14]  A. Barabasi,et al.  Network biology: understanding the cell's functional organization , 2004, Nature Reviews Genetics.