(13 nodes) Blood vessel remodeling network (Fundulus heteroclitus)

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:
	atg5	Autophagy protein 5; Involved in autophagic vesicle formation. (312 aa)
	LOC105915352	Crumbs cell polarity complex component 2b. (1448 aa)
	sema3c	Sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C; Belongs to the semaphorin family. (887 aa)
	crb1	Crumbs cell polarity complex component 1. (1328 aa)
	LOC105915540	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily. (732 aa)
	LOC105927749	R-spondin 3. (330 aa)
	bax	Uncharacterized protein. (240 aa)
	LOC105921308	Endothelin receptor type Ab; Belongs to the G-protein coupled receptor 1 family. (410 aa)
	ednra	G_PROTEIN_RECEP_F1_2 domain-containing protein; Belongs to the G-protein coupled receptor 1 family. (448 aa)
	LOC105917049	Uncharacterized protein. (1411 aa)
	ENSFHEP00000014699	Uncharacterized protein. (673 aa)
	ENSFHEP00000018863	Uncharacterized protein. (153 aa)
	bmpr2	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily. (1050 aa)

Your Current Organism:

Fundulus heteroclitus

NCBI taxonomy Id: 8078
Other names: Atlantic killifish, F. heteroclitus, killifish, mummichog

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
ENSFHEP00000018863	bax	ENSFHEP00000018863	ENSFHEP00000004805	Uncharacterized protein.	Uncharacterized protein.	0.972
LOC105915540	bmpr2	ENSFHEP00000002575	ENSFHEP00000025553	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily.	0.895
LOC105921308	ednra	ENSFHEP00000006082	ENSFHEP00000006902	Endothelin receptor type Ab; Belongs to the G-protein coupled receptor 1 family.	G_PROTEIN_RECEP_F1_2 domain-containing protein; Belongs to the G-protein coupled receptor 1 family.	0.933
bax	ENSFHEP00000018863	ENSFHEP00000004805	ENSFHEP00000018863	Uncharacterized protein.	Uncharacterized protein.	0.972
bmpr2	LOC105915540	ENSFHEP00000025553	ENSFHEP00000002575	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily.	0.895
ednra	LOC105921308	ENSFHEP00000006902	ENSFHEP00000006082	G_PROTEIN_RECEP_F1_2 domain-containing protein; Belongs to the G-protein coupled receptor 1 family.	Endothelin receptor type Ab; Belongs to the G-protein coupled receptor 1 family.	0.933