Self-organizing Trees for visualizing protein dataset

被引：0

作者：

Nhat-Quang Doan ^{[1
]}

Azzag, Hanane ^{[1
]}

Lebbah, Mustapha ^{[1
]}

Santini, Guillaume ^{[1
]}

机构：

[1] Univ Paris 13, LIPN UMR 7030, F-93430 Villetaneuse, France

来源：

2013 INTERNATIONAL JOINT CONFERENCE ON NEURAL NETWORKS (IJCNN) | 2013年

关键词：

Clustering; visualization; self-organizing map; hierarchical trees; protein data; protein domains; DATABASE; CLASSIFICATION; SCOP;

D O I：

暂无

中图分类号：

TP18 [人工智能理论];

学科分类号：

081104 ; 0812 ; 0835 ; 1405 ;

摘要：

Clustering and visualizing multi-dimensional or structured data are important tasks for data analysis, especially in bioinformatics. Self-organizing models are often used to address both of these issues. In this paper we introduce a hierarchical and topological visualization technique called Self-organizing Trees (SoT) which is able to represent data in hierarchical and topological structure. The experiment is conducted on a real-world protein data set.

引用

页数：8

共 19 条

[1] Data growth and its impact on the SCOP database: new developments
Andreeva, Antonina
Howorth, Dave
Chandonia, John-Marc
Brenner, Steven E.
Hubbard, Tim J. P.
Chothia, Cyrus
Murzin, Alexey G.
[J]. NUCLEIC ACIDS RESEARCH, 2008, 36 : D419 - D425
[2] [Anonymous], 1997, C BOARD MATH SCI
[3] Auber D, 2004, MATH VIS, P105
[4] A hierarchical ant based clustering algorithm and its use in three real-world applications
Azzag, Hanene
Venturini, Gilles
Oliver, Antoine
Guinot, Christiane
[J]. EUROPEAN JOURNAL OF OPERATIONAL RESEARCH, 2007, 179 (03) : 906 - 922
[5] PROTEIN DATA BANK - COMPUTER-BASED ARCHIVAL FILE FOR MACROMOLECULAR STRUCTURES
BERNSTEIN, FC
KOETZLE, TF
WILLIAMS, GJB
MEYER, EF
BRICE, MD
RODGERS, JR
KENNARD, O
SHIMANOUCHI, T
TASUMI, M
[J]. EUROPEAN JOURNAL OF BIOCHEMISTRY, 1977, 80 (02): : 319 - 324
[6] The ASTRAL compendium for protein structure and sequence analysis
Brenner, SE
Koehl, P
Levitt, R
[J]. NUCLEIC ACIDS RESEARCH, 2000, 28 (01) : 254 - 256
[7] YAKUSA: A fast structural database scanning method
Carpentier, M
Brouillet, S
Pothier, J
[J]. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2005, 61 (01) : 137 - 151
[8] Kohonen T., 2001, INFORM SCIENCES
[9] SCOP - A STRUCTURAL CLASSIFICATION OF PROTEINS DATABASE FOR THE INVESTIGATION OF SEQUENCES AND STRUCTURES
MURZIN, AG
BRENNER, SE
HUBBARD, T
CHOTHIA, C
[J]. JOURNAL OF MOLECULAR BIOLOGY, 1995, 247 (04) : 536 - 540
[10] AutoSOME: a clustering method for identifying gene expression modules without prior knowledge of cluster number
Newman, Aaron M.
Cooper, James B.
[J]. BMC BIOINFORMATICS, 2010, 11

← 1 2 →