Computational identification of cellular networks and pathways

被引：17

作者：

Markowetz, Florian

Troyanskaya, Olga G. ^{[1
]}

机构：

[1] Princeton Univ, Lewis Sigler Inst Integrat Genon, Princeton, NJ 08544 USA

[2] Princeton Univ, Dept Comp Sci, Princeton, NJ 08544 USA

来源：

MOLECULAR BIOSYSTEMS | 2007年 / 3卷 / 07期

关键词：

D O I：

10.1039/b617014p

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

In this article we highlight recent developments in computational functional genomics to identify networks of functionally related genes and proteins based on diverse sources of genomic data. Our specific focus is on statistical methods to identify genetic networks. We discuss integrated analysis of microarray datasets, methods to combine heterogeneous data sources, the analysis of high-dimensional phenotyping screens and describe efforts to establish a reliable and unbiased gold standard for method comparison and evaluation.

引用

收藏

页码：478 / 482

页数：5

相关论文

共 42 条

[1] Gene Ontology: tool for the unification of biology [J].

Ashburner, M ;

Ball, CA ;

Blake, JA ;

Botstein, D ;

Butler, H ;

Cherry, JM ;

Davis, AP ;

Dolinski, K ;

Dwight, SS ;

Eppig, JT ;

Harris, MA ;

Hill, DP ;

Issel-Tarver, L ;

Kasarskis, A ;

Lewis, S ;

Matese, JC ;

Richardson, JE ;

Ringwald, M ;

Rubin, GM ;

Sherlock, G .

NATURE GENETICS, 2000, 25 (01) :25-29

[2]

AVERY L, 1992, TRENDS GENET, V8, P312, DOI 10.1016/0168-9525(92)90263-4

[3] Hierarchical multi-label prediction of gene function [J].

Barutcuoglu, Z ;

Schapire, RE ;

Troyanskaya, OG .

BIOINFORMATICS, 2006, 22 (07) :830-836

[4] Reverse engineering of regulatory networks in human B cells [J].

Basso, K ;

Margolin, AA ;

Stolovitzky, G ;

Klein, U ;

Dalla-Favera, R ;

Califano, A .

NATURE GENETICS, 2005, 37 (04) :382-390

[5] Sequential activation of signaling pathways during innate immune responses in Drosophila [J].

Boutros, M ;

Agaisse, H ;

Perrimon, N .

DEVELOPMENTAL CELL, 2002, 3 (05) :711-722

[6] Genome-wide RNAi analysis of growth and viability in Drosophila cells [J].

Boutros, M ;

Kiger, AA ;

Armknecht, S ;

Kerr, K ;

Hild, M ;

Koch, B ;

Haas, SA ;

Paro, R ;

Perrimon, N .

SCIENCE, 2004, 303 (5659) :832-835

[7] Global analysis of gene function in yeast by quantitative phenotypic profiling [J].

Brown, James A. ;

Sherlock, Gavin ;

Myers, Chad L. ;

Burrows, Nicola M. ;

Deng, Changchun ;

Wu, H. Irene ;

McCann, Kelly E. ;

Troyanskaya, Olga G. ;

Brown, J. Martin .

MOLECULAR SYSTEMS BIOLOGY, 2006, 2 (1) :2006.0001

[8] Inferring network interactions within a cell [J].

Carter, GW .

BRIEFINGS IN BIOINFORMATICS, 2005, 6 (04) :380-389

[9] Genetic network inference: from co-expression clustering to reverse engineering [J].

D'haeseleer, P ;

Liang, SD ;

Somogyi, R .

BIOINFORMATICS, 2000, 16 (08) :707-726

[10] Derivation of genetic interaction networks from quantitative phenotype data [J].

Drees, BL ;

Thorsson, V ;

Carter, GW ;

Rives, AW ;

Raymond, MZ ;

Avila-Campillo, I ;

Shannon, P ;

Galitski, T .

GENOME BIOLOGY, 2005, 6 (04)

← 1 2 3 4 5 →