Human proteins (Vidal)

This network represens an initial version of a proteome-scale map of Human binary protein–protein interactions

Metadata

Code		`MV`
Internal name		`maayan-vidal`
Name		Human proteins (Vidal)
Data source		http://research.mssm.edu/maayan/datasets/qualitative_networks.shtml
Availability		Dataset is available for download
Consistency check		Dataset passed all tests
Category		Metabolic network
Node meaning		Protein
Edge meaning		Interaction
Network format		Unipartite, undirected
Edge type		Unweighted, no multiple edges
Loops		Contains loops

Size	n =	3,133
Volume	m =	6,726
Loop count	l =	577
Wedge count	s =	88,809
Claw count	z =	1,399,841
Cross count	x =	27,308,384
Triangle count	t =	1,047
Square count	q =	10,216
4-Tour count	T₄ =	449,262
Maximum degree	d_max =	129
Average degree	d =	4.293 65
Fill	p =	0.001 370 02
Size of LCC	N =	2,783
Diameter	δ =	13
50-Percentile effective diameter	δ_0.5 =	4.264 35
90-Percentile effective diameter	δ_0.9 =	5.872 22
Median distance	δ_M =	5
Mean distance	δ_m =	4.803 13
Gini coefficient	G =	0.540 534
Balanced inequality ratio	P =	0.294 826
Relative edge distribution entropy	H_er =	0.926 225
Power law exponent	γ =	2.114 32
Tail power law exponent	γ_t =	3.031 00
Tail power law exponent with p	γ₃ =	3.031 00
p-value	p =	0.882 000
Degree assortativity	ρ =	−0.125 658
Degree assortativity p-value	p_ρ =	1.817 28 × 10⁻⁴⁴
Clustering coefficient	c =	0.035 368 0
Spectral norm	α =	16.614 4
Algebraic connectivity	a =	0.069 808 5
Spectral separation	\|λ₁[A] / λ₂[A]\| =	1.229 05
Non-bipartivity	b_A =	0.186 364
Normalized non-bipartivity	b_N =	0.060 887 7
Algebraic non-bipartivity	χ =	0.107 163
Spectral bipartite frustration	b_K =	0.005 790 50
Controllability	C =	820
Relative controllability	C_r =	0.261 730

[1]	Jérôme Kunegis. KONECT – The Koblenz Network Collection. In Proc. Int. Conf. on World Wide Web Companion, pages 1343–1350, 2013. [ http ]
[2]	Jean-François Rual, Kavitha Venkatesan, Tong Hao, Tomoko Hirozane-Kishikawa, Amélie Dricot, Ning Li, Gabriel F. Berriz, Francis D. Gibbons, Matija Dreze, and Nono Ayivi-Guedehoussou. Towards a proteome-scale map of the human protein–protein interaction network. Nature, (7062):1173–1178, 2005.