(20 nodes) FCERI mediated MAPK activation 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:
	jun-1	Protein CBG03270, isoform a. (323 aa)
	CBG26549	Protein CBG26549. (74 aa)
	CBG00447	Protein CBG00447. (388 aa)
	mkk-4	Protein CBR-MKK-4; Belongs to the protein kinase superfamily. (363 aa)
	CBG03271	Protein CBG03271. (197 aa)
	let-60	Protein CBR-LET-60. (184 aa)
	jnk-1	Mitogen-activated protein kinase. (464 aa)
	CBG06585	Protein CBG06585. (534 aa)
	kgb-1	Mitogen-activated protein kinase. (382 aa)
	CBG14588	Protein CBG14588. (689 aa)
	jkk-1	Protein CBR-JKK-1. (435 aa)
	ral-1	Protein CBR-RAL-1. (213 aa)
	vav-1	Protein CBR-VAV-1. (971 aa)
	mek-1	Protein CBR-MEK-1. (463 aa)
	sem-5	Protein CBR-SEM-5. (229 aa)
	plc-3	1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma; Mediates the production of the second messenger molecules diacylglycerol (DAG) and inositol 1,4,5-trisphosphate (IP3). Plays an important role in the regulation of intracellular signaling cascades. (1308 aa)
	CBG21256	Protein CBG21256. (378 aa)
	CBG22589	Protein CBG22589. (294 aa)
	CBG23363	Protein CBG23363. (206 aa)
	CBG24701	Ankyrin repeat and KH domain-containing protein CBG24701. (2636 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
CBG00447	CBG03271	A8WN41	A8WSE7	Protein CBG00447.	Protein CBG03271.	0.811
CBG00447	CBG14588	A8WN41	A8XK90	Protein CBG00447.	Protein CBG14588.	0.825
CBG00447	jkk-1	A8WN41	A8XKF4	Protein CBG00447.	Protein CBR-JKK-1.	0.797
CBG00447	jun-1	A8WN41	H8WH96	Protein CBG00447.	Protein CBG03270, isoform a.	0.811
CBG00447	let-60	A8WN41	A8X0X5	Protein CBG00447.	Protein CBR-LET-60.	0.413
CBG00447	mek-1	A8WN41	A8XPM7	Protein CBG00447.	Protein CBR-MEK-1.	0.790
CBG00447	mkk-4	A8WN41	A8WRM6	Protein CBG00447.	Protein CBR-MKK-4; Belongs to the protein kinase superfamily.	0.822
CBG00447	ral-1	A8WN41	A8XMJ1	Protein CBG00447.	Protein CBR-RAL-1.	0.413
CBG03271	CBG00447	A8WSE7	A8WN41	Protein CBG03271.	Protein CBG00447.	0.811
CBG03271	CBG21256	A8WSE7	A8XZP6	Protein CBG03271.	Protein CBG21256.	0.745
CBG03271	jkk-1	A8WSE7	A8XKF4	Protein CBG03271.	Protein CBR-JKK-1.	0.400
CBG03271	jnk-1	A8WSE7	A8X1S0	Protein CBG03271.	Mitogen-activated protein kinase.	0.811
CBG03271	kgb-1	A8WSE7	A8XI46	Protein CBG03271.	Mitogen-activated protein kinase.	0.811
CBG03271	mek-1	A8WSE7	A8XPM7	Protein CBG03271.	Protein CBR-MEK-1.	0.400
CBG14588	CBG00447	A8XK90	A8WN41	Protein CBG14588.	Protein CBG00447.	0.825
CBG14588	CBG21256	A8XK90	A8XZP6	Protein CBG14588.	Protein CBG21256.	0.733
CBG14588	jkk-1	A8XK90	A8XKF4	Protein CBG14588.	Protein CBR-JKK-1.	0.634
CBG14588	jnk-1	A8XK90	A8X1S0	Protein CBG14588.	Mitogen-activated protein kinase.	0.980
CBG14588	kgb-1	A8XK90	A8XI46	Protein CBG14588.	Mitogen-activated protein kinase.	0.981
CBG14588	mek-1	A8XK90	A8XPM7	Protein CBG14588.	Protein CBR-MEK-1.	0.962