malaria_genes — Malaria var DBLa HVR networks

Description

Networks of recombinant antigen genes from the human malaria parasite P. falciparum. Each of the 9 networks shares the same set of vertices but has different edges, corresponding to the 9 highly variable regions (HVRs) in the DBLa domain of the var protein. Nodes are var genes, and two genes are connected if they share a substring whose length is statistically significant. Metadata includes two types of node labels, both based on sequence structure around HVR6.¹

---

1. Description obtained from the ICON project. ↩

Tags

Biological Genetic Unweighted Projection Metadata Multilayer

Citation

• D. B. Larremore, A. Clauset, and C. O. Buckee, "A network approach to analyzing highly recombinant malaria parasite genes." PLOS Computational Biology 9(10), e1003268 (2013)., https://doi.org/10.1371/journal.pcbi.1003268 [@sci-hub]

Upstream URL OK

https://github.com/dblarremore/data_malaria_PLOSCompBiology_2013

Networks

Tip: click on the table header to sort the list. Hover your mouse over it to obtain a legend.

Name	Nodes	Edges	$\left<k\right>$	$\sigma_k$	$\lambda_h$	$\tau$	$r$	$c$	$\oslash$	$S$	Kind	Mode	NPs	EPs	gt	GraphML	GML	csv
HVR_1	307	2,812	18.32	11.05	35.20	76.31	0.60	0.59	8	1.00	Undirected	Unipartite	name CysPoLV UPS		8 KiB	15 KiB	13 KiB	12 KiB
HVR_2	307	1,446	9.42	7.43	22.87	73.31	0.73	0.78	9	0.36	Undirected	Unipartite	name CysPoLV UPS		7 KiB	12 KiB	10 KiB	9 KiB
HVR_3	307	659	4.29	4.29	15.79	10.48	0.98	0.97	5	0.06	Undirected	Unipartite	name CysPoLV UPS		7 KiB	10 KiB	9 KiB	8 KiB
HVR_4	307	1,214	7.91	6.69	17.51	91.92	0.69	0.73	10	0.60	Undirected	Unipartite	name CysPoLV UPS		7 KiB	12 KiB	10 KiB	9 KiB
HVR_5	307	2,684	17.49	11.20	25.86	46.45	0.33	0.36	11	0.97	Undirected	Unipartite	name CysPoLV UPS		9 KiB	16 KiB	14 KiB	12 KiB
HVR_6	307	3,263	21.26	15.78	39.10	62.46	0.64	0.54	10	0.95	Undirected	Unipartite	name CysPoLV UPS		9 KiB	17 KiB	14 KiB	13 KiB
HVR_7	307	11,688	76.14	36.86	98.57	11.89	0.35	0.64	5	1.00	Undirected	Unipartite	name CysPoLV UPS		9 KiB	39 KiB	36 KiB	32 KiB
HVR_8	307	3,961	25.80	23.37	53.69	50.43	0.66	0.67	11	0.89	Undirected	Unipartite	name CysPoLV UPS		8 KiB	18 KiB	16 KiB	15 KiB
HVR_9	307	7,579	49.37	32.06	79.04	5.38	0.48	0.61	5	0.97	Undirected	Unipartite	name CysPoLV UPS		9 KiB	28 KiB	26 KiB	23 KiB
combined	307	35,306	230.01	92.95	159.41	2.34	0.35	0.71	3	1.00	Undirected	Unipartite	name CysPoLV UPS	HRV	25 KiB	104 KiB	94 KiB	90 KiB

Ridiculograms^*

^* These are automatically generated force-directed visualizations, and can be quite meaningless for networks both big and small. They should not be taken seriously as sources of scientific insight. See here for a discussion.