(11 nodes) Regulation of tube size network (Caenorhabditis remanei)

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:
	CRE_31620	LIM zinc-binding domain-containing protein. (134 aa)
	Cre-exc-7	CRE-EXC-7 protein. (457 aa)
	Cre-exc-4	CRE-EXC-4 protein. (335 aa)
	Cre-exc-5	CRE-EXC-5 protein. (829 aa)
	Cre-let-653	CRE-LET-653 protein. (775 aa)
	Cre-inft-1	CRE-INFT-1 protein. (868 aa)
	CRE_15452	IRG-type G domain-containing protein. (775 aa)
	Cre-sym-5	CRE-SYM-5 protein. (781 aa)
	Cre-exc-9	CRE-EXC-9 protein. (136 aa)
	Cre-rig-6	CRE-RIG-6 protein. (1216 aa)
	Cre-sma-1	CRE-SMA-1 protein. (4172 aa)

Your Current Organism:

Caenorhabditis remanei

NCBI taxonomy Id: 31234
Other names: C. remanei, Caenorhabditis vulgaris

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
CRE_15452	CRE_31620	E3MCF8	E3NSB9	IRG-type G domain-containing protein.	LIM zinc-binding domain-containing protein.	0.774
CRE_15452	Cre-exc-5	E3MCF8	E3MYK6	IRG-type G domain-containing protein.	CRE-EXC-5 protein.	0.785
CRE_15452	Cre-exc-9	E3MCF8	E3M4Y9	IRG-type G domain-containing protein.	CRE-EXC-9 protein.	0.774
CRE_15452	Cre-inft-1	E3MCF8	E3MSI1	IRG-type G domain-containing protein.	CRE-INFT-1 protein.	0.504
CRE_31620	CRE_15452	E3NSB9	E3MCF8	LIM zinc-binding domain-containing protein.	IRG-type G domain-containing protein.	0.774
CRE_31620	Cre-exc-4	E3NSB9	E3N1N5	LIM zinc-binding domain-containing protein.	CRE-EXC-4 protein.	0.573
CRE_31620	Cre-exc-5	E3NSB9	E3MYK6	LIM zinc-binding domain-containing protein.	CRE-EXC-5 protein.	0.712
CRE_31620	Cre-inft-1	E3NSB9	E3MSI1	LIM zinc-binding domain-containing protein.	CRE-INFT-1 protein.	0.426
Cre-exc-4	CRE_31620	E3N1N5	E3NSB9	CRE-EXC-4 protein.	LIM zinc-binding domain-containing protein.	0.573
Cre-exc-4	Cre-exc-5	E3N1N5	E3MYK6	CRE-EXC-4 protein.	CRE-EXC-5 protein.	0.675
Cre-exc-4	Cre-exc-9	E3N1N5	E3M4Y9	CRE-EXC-4 protein.	CRE-EXC-9 protein.	0.573
Cre-exc-5	CRE_15452	E3MYK6	E3MCF8	CRE-EXC-5 protein.	IRG-type G domain-containing protein.	0.785
Cre-exc-5	CRE_31620	E3MYK6	E3NSB9	CRE-EXC-5 protein.	LIM zinc-binding domain-containing protein.	0.712
Cre-exc-5	Cre-exc-4	E3MYK6	E3N1N5	CRE-EXC-5 protein.	CRE-EXC-4 protein.	0.675
Cre-exc-5	Cre-exc-9	E3MYK6	E3M4Y9	CRE-EXC-5 protein.	CRE-EXC-9 protein.	0.712
Cre-exc-5	Cre-inft-1	E3MYK6	E3MSI1	CRE-EXC-5 protein.	CRE-INFT-1 protein.	0.685
Cre-exc-9	CRE_15452	E3M4Y9	E3MCF8	CRE-EXC-9 protein.	IRG-type G domain-containing protein.	0.774
Cre-exc-9	Cre-exc-4	E3M4Y9	E3N1N5	CRE-EXC-9 protein.	CRE-EXC-4 protein.	0.573
Cre-exc-9	Cre-exc-5	E3M4Y9	E3MYK6	CRE-EXC-9 protein.	CRE-EXC-5 protein.	0.712
Cre-exc-9	Cre-inft-1	E3M4Y9	E3MSI1	CRE-EXC-9 protein.	CRE-INFT-1 protein.	0.426