Biology Reference
In-Depth Information
22. Huynen MA, Snel B, von Mering C, Bork P. (2003) Function prediction and
protein networks.
Curr Opin Cell Biol
15
(2): 191-8.
23. Yook SH, Oltvai ZN, Barábasi AL. (2004) Functional and topological charac-
terization of protein interaction networks.
Proteomics
4
(4): 928-42.
24. Brohee S, van Helden J. (2006) Evaluation of clustering algorithms for protein-
protein interaction networks.
BMC Bioinformatics
7
: 488.
25. Wang K, Li M, Bucan M. (2007) Pathway-based approaches for analysis
of genomewide association studies.
Am J Hum Genet
81
(6). Epub ahead
of print.
26. Enright AJ, Van Dongen S, Ouzounis CA. (2002) An efficient algorithm for
large-scale detection of protein families.
Nucleic Acids Res
30
(7): 1575-84.
27. Blatt M, Wiseman S, Domany E. (1996) Superparamagnetic clustering of data.
Phys Rev Lett
76
(18): 3251-4.
28. King AD, Przulj N, Jurisica I. (2004) Protein complex prediction via cost-based
clustering.
Bioinformatics
20
(17): 3013-20.
29. Bader GD, Hogue CW. (2003) An automated method for finding
molecular complexes in large protein interaction networks.
BMC Bioinformatics
4
: 2.
30. von Mering C, Zdobnov EM, Tsoka S
et al
. (2003) Genome evolution reveals
biochemical networks and functional modules.
Proc Natl Acad Sci USA
100
(26): 15428-33.
31. Pereira-Leal JB, Enright AJ, Ouzounis CA. (2004) Detection of functional
modules from protein interaction networks.
Proteins
54
(1): 49-57.
32. Gancedo C, Flores CL. (2008) Moonlighting proteins in yeasts.
Microbiol Mol
Biol Rev
72
(1): 197-210.
33. Gavin AC, Aloy P, Grandi P
et al
. (2006) Proteome survey reveals modularity of
the yeast cell machinery.
Nature
440
(7084): 631-6.
34. Milo R, Shen-Orr S, Itzkovitz S
et al
. (2002) Network motifs: simple building
blocks of complex networks.
Science
298
(5594): 824-7.
35. Alon U. (2007) Network motifs: theory and experimental approaches.
Nat Rev
Genet
8
(6): 450-61.
36. Basu S, Mehreja R, Thiberge S
et al
. (2004) Spatiotemporal control of gene
expression with pulse-generating networks.
Proc Natl Acad Sci USA
101
(17):
6355-60.
37. Kalir S, Mangan S, Alon U. (2005) A coherent feed-forward loop with a SUM
input function prolongs flagella expression in
Escherichia coli
.
Mol Syst Biol
1
:
2005. 0006. Epub ahead of print.
38. Mangan S, Itzkovitz S, Zaslaver R, Alon U. (2006) The incoherent feed-forward
loop accelerates the response-time of the gal system of
Escherichia coli
.
J Mol Biol
356
(5): 1073-81.