©1996-2019 All Rights
Reserved. Online Journal of Bioinformatics . You may not store these pages in any form except
for your own personal use. All other usage or distribution is illegal under
international copyright treaties. Permission to use any of
these pages in any other way besides the before mentioned must be gained in writing from
the publisher. This article is exclusively copyrighted in its entirety
to OJB publications. This article may be copied once but may not be, reproduced
or re-transmitted without the express permission of the editors. This
journal satisfies the refereeing requirements (DEST) for the Higher Education
Research Data Collection (Australia). Linking:To link to this page or any pages linking to this page you
must link directly to this page only here rather than put up your own page.
OJBTM
Online Journal of Bioinformatics ©
Volume 13(3):382-390, 2012.
K-shell
decomposition based analysis of S. pombe
protein networks
Praveen Kumar Singh1, Madhvi Shakya2
1Department
of Bioinformatics and 2Mathematics, Maulana
Azad National Institute of Technology Bhopal, India
Singh PK, Shakya M., K-shell decomposition based analysis of S. pombe protein networks, Online J Bioinform., 13(3):382-390, 2012. Understanding
protein interaction networks requires a broad range of approaches and methods
from the domains of biology, chemistry, physics, and mathematics. The
fundamental challenge is to decipher the "protein interactome"
associated with different protein functions and structures. This demands the
acquisition and integration of vast amounts of data of many types, at multiple
scales. Here a popular mathematical approach’’ k-shell Decomposition” has been
used to understand protein interactome of modal
organism S. pombe.
K-shell decomposition is shown to be easy method to find the most effective and
influential nodes (proteins) in huge complex networks. Here through k-shell
decomposition method each node is assigned a specific k-shell and then k-shell
based distribution of nodes is compared with known functions of proteins.
Specific patterns of node distribution have been obtained with protein
functions. Ribosomal proteins, backbone of proteome having highest k-shell
index and found in central core. In the similar manner other proteins involved
in translation, transcription, sorting and degradation found to be near to
central core. Nodes involved in metabolic network found in outer k-shell with
lower k-shell index.
Keywords: Protein interaction network, K-shell, protein
functions, metabolic networks
FULL-TEXT(SUBSCRIPTION
OR PURCHASE TITLE $25USD)