(11 nodes) Lipoprotein transport network (Takifugu rubripes)

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:
	unc119b	Unc-119 homolog 1. (247 aa)
	VMP1	Vacuole membrane protein 1. (273 aa)
	ENSTRUP00000074430	annotation not available (262 aa)
	surf4	Surfeit locus protein 4; Belongs to the SURF4 family. (270 aa)
	LOC101066818	Apolipoprotein Bb, tandem duplicate 2. (3788 aa)
	H2RM54_TAKRU	Vitellogenin domain-containing protein. (726 aa)
	LOC101074125	Vacuole membrane protein 1. (405 aa)
	mttp	Microsomal triglyceride transfer protein. (890 aa)
	LOC101063823	GMP_PDE_delta domain-containing protein. (243 aa)
	LOC101076198	Unc-119 lipid binding chaperone. (205 aa)
	LOC101063149	Unc-119 lipid binding chaperone. (248 aa)

Your Current Organism:

Takifugu rubripes

NCBI taxonomy Id: 31033
Other names: Fugu rubripes, Sphaeroides rubripes, T. rubripes, Tetraodon rubripes, tiger puffer, torafugu

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
ENSTRUP00000074430	mttp	ENSTRUP00000074430	ENSTRUP00000035443	annotation not available	Microsomal triglyceride transfer protein.	0.895
H2RM54_TAKRU	mttp	ENSTRUP00000001217	ENSTRUP00000035443	Vitellogenin domain-containing protein.	Microsomal triglyceride transfer protein.	0.895
LOC101066818	mttp	ENSTRUP00000087964	ENSTRUP00000035443	Apolipoprotein Bb, tandem duplicate 2.	Microsomal triglyceride transfer protein.	0.895
mttp	ENSTRUP00000074430	ENSTRUP00000035443	ENSTRUP00000074430	Microsomal triglyceride transfer protein.	annotation not available	0.895
mttp	H2RM54_TAKRU	ENSTRUP00000035443	ENSTRUP00000001217	Microsomal triglyceride transfer protein.	Vitellogenin domain-containing protein.	0.895
mttp	LOC101066818	ENSTRUP00000035443	ENSTRUP00000087964	Microsomal triglyceride transfer protein.	Apolipoprotein Bb, tandem duplicate 2.	0.895