KPV - KEGG Pathway Viewer

Term	Meaning
Metabolic pathway	In biochemistry, a metabolic pathway is a linked series of chemical reactions occurring within a cell. The term network is sometimes defined to mean a graph in which attributes (e.g. names) are associated with the vertices and edges, and the subject that expresses and understands the real-world systems as a network is called network science.
Network/Graphs	In mathematics, graph theory is the study of graphs, which are mathematical structures used to model pairwise relations between objects.
Network visualization	Graph visualization is a way of representing structural information as diagrams of abstract graphs and networks. It has important applications in networking, bioinformatics, software engineering, database and web design, machine learning, and in visual interfaces for other technical domains.
Node	In mathematics, and more specifically in graph theory, a vertex (plural vertices) or node is the fundamental unit of which graphs are formed.
Edge	For an undirected graph, an unordered pair of nodes that specify a line joining these two nodes are said to form an edge. For a directed graph, the edge is an ordered pair of nodes. The terms "arc," "branch," "line," "link," and "1-simplex" are sometimes used instead of edge.
KEGG	KEGG: Kyoto Encyclopedia of Genes and Genomes is a Japanese database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies.
KEGG Pathway	KEGG PATHWAY is a collection of manually drawn pathway maps representing the knowledge on the molecular interaction, reaction and relation.
Pathway code	Each pathway map is identified by the combination of 2-4 letter prefix code and 5 digit number.
Articulation point	In a graph, a vertex is called an articulation point if removing it and all the edges associated with it results in the increase of the number of connected components in the graph.
Articulation point impact	The impact is defined as the number of vertices that get disconnected from the main (largest) surviving connected component after the removal of the articulation point node.
AP node	AP is the abbreviation for Articulation point.
HAP node	AP is the abbreviation for Hub and Articulation point.
HUB node	In network science, a hub is a node with a number of links that greatly exceeds the average.
Other nodes	In the context of this tool, other nodes represent nodes without classification.

Network metrics

Nodes	Edges
115	370

Articulation point with highest impact	Disconnected nodes when remove it
ec:2.1.3.5	107

Global metrics
Communities	Avg. degree	Avg. betweenness
15	6.4000	0.0256

Nodes classification
Articulation points (AP)	Hub & AP	Hubs	Other nodes
8	2	23	107

PRPP biosynthesis, ribose 5P => PRPP [PATH:map00230], Inosine monophosphate biosynthesis, PRPP + glutamine => IMP [PATH:map00230], Adenine ribonucleotide biosynthesis, IMP => ADP,ATP [PATH:map00230], Guanine ribonucleotide biosynthesis IMP => GDP,GTP [PATH:map00230], Purine degradation, xanthine => urea [PATH:map00230]

Associated diseases

Hypermethioninemia, Xanthinuria, Lesch-Nyhan syndrome, Adenine phosphoribosyltransferase deficiency, Phosphoribosylpyrophosphate synthetase superactivity, Adenylosuccinate lyase deficiency, Mitochondrial DNA depletion syndrome, Cone-rod dystrophy and cone dystrophy, Desbuquois syndrome, Anemia due to disorders of nucleotide metabolism, SEMD, Pakistani type, Calcification of joints and arteries, Leber congenital amaurosis, Arts syndrome, AICA-ribosiduria, Generalized arterial calcification of infancy, Pyruvate kinase deficiency, Reticular dysgenesis, Cole disease, Gout, Autosomal dominant striatal degeneration, AMP deaminase deficiency, Adenosine deaminase deficiency

Associated organisms count

Total organisms
6083

Eukaryotes	Prokaryotes
531	5552

Animals	Plants	Fungi	Protists	Bacteria	Archaea
248	105	128	50	5253	299

GO associated terms

GO: 0042278

KO pathway

ko00230

References

list(REFERENCE = "PMID:10601204", AUTHORS = "Cusa E, Obradors N, Baldoma L, Badia J, Aguilar J.", TITLE = "Genetic analysis of a chromosomal region containing genes required for assimilation of allantoin nitrogen and linked glyoxylate metabolism in Escherichia coli.", JOURNAL = "J Bacteriol 181:7479-84 (1999)"), list(REFERENCE = "PMID:10986234", AUTHORS = "Xi H, Schneider BL, Reitzer L.", TITLE = "Purine catabolism in Escherichia coli and function of xanthine dehydrogenase in purine salvage.", JOURNAL = c("J Bacteriol 182:5332-41 (2000)", "DOI:10.1128/JB.182.19.5332-5341.2000"))

KPV - KEGG Pathway Viewer
by Igor Brandão

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00230 Purine metabolism
Metabolism; Nucleotide metabolism

115
NODES

370
EDGES

6083
ORGANISMS

15
COMMUNITIES

6.4000
AVG. DEGREE

0.0256
AVG. BETWEENNESS

8
ARTICULATION POINTS

107
OTHER NODES

Filters

Pathway Viewer

115

370

ec:2.1.3.5

107

15

6.4000

0.0256

8

2

23

107

6083

531

5552

248

105

128

50

5253

299

KPV - KEGG Pathway Viewer by Igor Brandão

Loading..

00230 Purine metabolism Metabolism; Nucleotide metabolism

115 NODES

370 EDGES

6083 ORGANISMS

15 COMMUNITIES

6.4000 AVG. DEGREE

0.0256 AVG. BETWEENNESS

8 ARTICULATION POINTS

107 OTHER NODES