(13 nodes) Neuron projection regeneration network (Latimeria chalumnae)

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:
	GAP43	Growth associated protein 43. (201 aa)
	APOD	Apolipoprotein D; Belongs to the calycin superfamily. Lipocalin family. (189 aa)
	MTR	Methionine synthase; Catalyzes the transfer of a methyl group from methyl- cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Subsequently, remethylates the cofactor using methyltetrahydrofolate. (1252 aa)
	PTN	Pleiotrophin. (167 aa)
	LAMB2	Laminin subunit beta 2. (1781 aa)
	ULK1	Unc-51 like autophagy activating kinase 1. (1046 aa)
	OMG	Oligodendrocyte myelin glycoprotein. (441 aa)
	NEFL	Neurofilament light; Belongs to the intermediate filament family. (555 aa)
	GFAP	Glial fibrillary acidic protein; Belongs to the intermediate filament family. (449 aa)
	H3AD77_LATCH	JunE proto-oncogene, AP-1 transcription factor subunit. (316 aa)
	MAG	Myelin associated glycoprotein. (633 aa)
	JUN	Jun proto-oncogene, AP-1 transcription factor subunit; Belongs to the bZIP family. (311 aa)
	TNC	Tenascin C. (2213 aa)

Your Current Organism:

Latimeria chalumnae

NCBI taxonomy Id: 7897
Other names: L. chalumnae, coelacanth

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
GAP43	GFAP	ENSLACP00000002714	ENSLACP00000015185	Growth associated protein 43.	Glial fibrillary acidic protein; Belongs to the intermediate filament family.	0.457
GAP43	MAG	ENSLACP00000002714	ENSLACP00000005612	Growth associated protein 43.	Myelin associated glycoprotein.	0.575
GFAP	GAP43	ENSLACP00000015185	ENSLACP00000002714	Glial fibrillary acidic protein; Belongs to the intermediate filament family.	Growth associated protein 43.	0.457
H3AD77_LATCH	JUN	ENSLACP00000007598	ENSLACP00000005596	JunE proto-oncogene, AP-1 transcription factor subunit.	Jun proto-oncogene, AP-1 transcription factor subunit; Belongs to the bZIP family.	0.901
JUN	H3AD77_LATCH	ENSLACP00000005596	ENSLACP00000007598	Jun proto-oncogene, AP-1 transcription factor subunit; Belongs to the bZIP family.	JunE proto-oncogene, AP-1 transcription factor subunit.	0.901
MAG	GAP43	ENSLACP00000005612	ENSLACP00000002714	Myelin associated glycoprotein.	Growth associated protein 43.	0.575
MAG	OMG	ENSLACP00000005612	ENSLACP00000019479	Myelin associated glycoprotein.	Oligodendrocyte myelin glycoprotein.	0.935
OMG	MAG	ENSLACP00000019479	ENSLACP00000005612	Oligodendrocyte myelin glycoprotein.	Myelin associated glycoprotein.	0.935