(10 nodes) Cytokine-mediated signaling pathway network (Caenorhabditis briggsae)

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:
	trf-1	Protein CBR-TRF-1. (439 aa)
	paqr-2	Protein CBR-PAQR-2. (602 aa)
	trf-2	Protein CBG23748. (294 aa)
	pik-1	Protein CBR-PIK-1; Belongs to the protein kinase superfamily. (399 aa)
	actl-1	Protein CBG05082. (369 aa)
	ilcr-2	Protein CBG02408. (730 aa)
	paqr-1	Progestin and adipoQ receptor-like protein 1; Probable receptor, which may be involved in metabolic pathways that regulate lipid metabolism such as fatty acid oxidation. Belongs to the ADIPOR family. (423 aa)
	CBG07774	Protein CBG07774. (612 aa)
	let-805	Protein CBR-LET-805. (4544 aa)
	ilcr-1	Protein CBG18736. (836 aa)

Your Current Organism:

Caenorhabditis briggsae

NCBI taxonomy Id: 6238
Other names: C. briggsae, Caenorhabditis briggsae AF16

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
CBG07774	actl-1	A8X441	A8WZ44	Protein CBG07774.	Protein CBG05082.	0.627
CBG07774	ilcr-2	A8X441	A8WUE0	Protein CBG07774.	Protein CBG02408.	0.456
actl-1	CBG07774	A8WZ44	A8X441	Protein CBG05082.	Protein CBG07774.	0.627
actl-1	ilcr-1	A8WZ44	A8XU07	Protein CBG05082.	Protein CBG18736.	0.919
actl-1	ilcr-2	A8WZ44	A8WUE0	Protein CBG05082.	Protein CBG02408.	0.880
actl-1	pik-1	A8WZ44	A8WQV8	Protein CBG05082.	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	0.821
ilcr-1	actl-1	A8XU07	A8WZ44	Protein CBG18736.	Protein CBG05082.	0.919
ilcr-1	ilcr-2	A8XU07	A8WUE0	Protein CBG18736.	Protein CBG02408.	0.887
ilcr-1	pik-1	A8XU07	A8WQV8	Protein CBG18736.	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	0.748
ilcr-2	CBG07774	A8WUE0	A8X441	Protein CBG02408.	Protein CBG07774.	0.456
ilcr-2	actl-1	A8WUE0	A8WZ44	Protein CBG02408.	Protein CBG05082.	0.880
ilcr-2	ilcr-1	A8WUE0	A8XU07	Protein CBG02408.	Protein CBG18736.	0.887
ilcr-2	pik-1	A8WUE0	A8WQV8	Protein CBG02408.	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	0.727
pik-1	actl-1	A8WQV8	A8WZ44	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	Protein CBG05082.	0.821
pik-1	ilcr-1	A8WQV8	A8XU07	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	Protein CBG18736.	0.748
pik-1	ilcr-2	A8WQV8	A8WUE0	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	Protein CBG02408.	0.727
pik-1	trf-1	A8WQV8	A8XZK5	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	Protein CBR-TRF-1.	0.856
pik-1	trf-2	A8WQV8	A8WJ73	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	Protein CBG23748.	0.520
trf-1	pik-1	A8XZK5	A8WQV8	Protein CBR-TRF-1.	Protein CBR-PIK-1; Belongs to the protein kinase superfamily.	0.856
trf-1	trf-2	A8XZK5	A8WJ73	Protein CBR-TRF-1.	Protein CBG23748.	0.525