(11 nodes) Phagosome-lysosome fusion network (Scleropages formosus)

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:
	RAB7A	Ras-related protein Rab-7a-like. (207 aa)
	rab20	Ras-related protein Rab-20-like. (421 aa)
	LOC108923564	Ras-related protein Rab-7a-like. (205 aa)
	Z043_109470	Spatacsin-like. (2303 aa)
	cln3	Battenin. (455 aa)
	Syt7	Synaptotagmin-7-like. (480 aa)
	LOC108929554	Ras-related protein Rab-7-like. (210 aa)
	RAB7B	Ras-related protein Rab-7b-like isoform X1. (198 aa)
	LOC108936966	Ras-related protein Rab-7a-like. (207 aa)
	tmem175	Transmembrane protein 175-like. (507 aa)
	pikfyve	1-phosphatidylinositol 3-phosphate 5-kinase-like. (2063 aa)

Your Current Organism:

Scleropages formosus

NCBI taxonomy Id: 113540
Other names: Asian arowana, Asian bonytongue, Osteoglossum formosum, S. formosus, golden arowana, golden dragon fish

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
LOC108923564	RAB7B	ENSSFOP00015053628	ENSSFOP00015036307	Ras-related protein Rab-7a-like.	Ras-related protein Rab-7b-like isoform X1.	0.618
LOC108929554	RAB7B	ENSSFOP00015018335	ENSSFOP00015036307	Ras-related protein Rab-7-like.	Ras-related protein Rab-7b-like isoform X1.	0.618
LOC108936966	RAB7B	ENSSFOP00015031207	ENSSFOP00015036307	Ras-related protein Rab-7a-like.	Ras-related protein Rab-7b-like isoform X1.	0.616
RAB7A	RAB7B	ENSSFOP00015050437	ENSSFOP00015036307	Ras-related protein Rab-7a-like.	Ras-related protein Rab-7b-like isoform X1.	0.617
RAB7B	LOC108923564	ENSSFOP00015036307	ENSSFOP00015053628	Ras-related protein Rab-7b-like isoform X1.	Ras-related protein Rab-7a-like.	0.618
RAB7B	LOC108929554	ENSSFOP00015036307	ENSSFOP00015018335	Ras-related protein Rab-7b-like isoform X1.	Ras-related protein Rab-7-like.	0.618
RAB7B	LOC108936966	ENSSFOP00015036307	ENSSFOP00015031207	Ras-related protein Rab-7b-like isoform X1.	Ras-related protein Rab-7a-like.	0.616
RAB7B	RAB7A	ENSSFOP00015036307	ENSSFOP00015050437	Ras-related protein Rab-7b-like isoform X1.	Ras-related protein Rab-7a-like.	0.617
RAB7B	rab20	ENSSFOP00015036307	ENSSFOP00015052302	Ras-related protein Rab-7b-like isoform X1.	Ras-related protein Rab-20-like.	0.484
rab20	RAB7B	ENSSFOP00015052302	ENSSFOP00015036307	Ras-related protein Rab-20-like.	Ras-related protein Rab-7b-like isoform X1.	0.484