(10 nodes) Activation of innate immune response, and Lupus La protein network (Oreochromis niloticus)

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:
	ENSONIP00000005565	Matrin 3-like 1.1. (872 aa)
	ro60	Ro60, Y RNA binding protein. (553 aa)
	nono	Non-POU domain containing, octamer-binding. (442 aa)
	ssb	Small RNA binding exonuclease protection factor La. (380 aa)
	ilf2	Interleukin enhancer binding factor 2. (387 aa)
	LOC100701112	RNA binding motif protein 4.3. (358 aa)
	ENSONIP00000051958	Enhancer of rudimentary homolog. (110 aa)
	ENSONIP00000061557	annotation not available (350 aa)
	ilf3	Interleukin enhancer binding factor 3b. (848 aa)
	sfpq	Splicing factor proline/glutamine-rich. (676 aa)

Your Current Organism:

Oreochromis niloticus

NCBI taxonomy Id: 8128
Other names: Nile tilapia, O. niloticus, Oreochromis nilotica, Tilapia nilotica

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
ENSONIP00000005565	ilf2	ENSONIP00000005565	ENSONIP00000030400	Matrin 3-like 1.1.	Interleukin enhancer binding factor 2.	0.473
ENSONIP00000005565	ilf3	ENSONIP00000005565	ENSONIP00000069799	Matrin 3-like 1.1.	Interleukin enhancer binding factor 3b.	0.436
ENSONIP00000005565	nono	ENSONIP00000005565	ENSONIP00000025802	Matrin 3-like 1.1.	Non-POU domain containing, octamer-binding.	0.535
ENSONIP00000051958	LOC100701112	ENSONIP00000051958	ENSONIP00000044023	Enhancer of rudimentary homolog.	RNA binding motif protein 4.3.	0.430
ENSONIP00000051958	ilf2	ENSONIP00000051958	ENSONIP00000030400	Enhancer of rudimentary homolog.	Interleukin enhancer binding factor 2.	0.493
ENSONIP00000051958	ssb	ENSONIP00000051958	ENSONIP00000028829	Enhancer of rudimentary homolog.	Small RNA binding exonuclease protection factor La.	0.504
ENSONIP00000061557	ilf2	ENSONIP00000061557	ENSONIP00000030400	annotation not available	Interleukin enhancer binding factor 2.	0.473
ENSONIP00000061557	ilf3	ENSONIP00000061557	ENSONIP00000069799	annotation not available	Interleukin enhancer binding factor 3b.	0.436
LOC100701112	ENSONIP00000051958	ENSONIP00000044023	ENSONIP00000051958	RNA binding motif protein 4.3.	Enhancer of rudimentary homolog.	0.430
LOC100701112	ilf2	ENSONIP00000044023	ENSONIP00000030400	RNA binding motif protein 4.3.	Interleukin enhancer binding factor 2.	0.615
LOC100701112	ilf3	ENSONIP00000044023	ENSONIP00000069799	RNA binding motif protein 4.3.	Interleukin enhancer binding factor 3b.	0.400
LOC100701112	nono	ENSONIP00000044023	ENSONIP00000025802	RNA binding motif protein 4.3.	Non-POU domain containing, octamer-binding.	0.440
LOC100701112	sfpq	ENSONIP00000044023	ENSONIP00000072315	RNA binding motif protein 4.3.	Splicing factor proline/glutamine-rich.	0.440
ilf2	ENSONIP00000005565	ENSONIP00000030400	ENSONIP00000005565	Interleukin enhancer binding factor 2.	Matrin 3-like 1.1.	0.473
ilf2	ENSONIP00000051958	ENSONIP00000030400	ENSONIP00000051958	Interleukin enhancer binding factor 2.	Enhancer of rudimentary homolog.	0.493
ilf2	ENSONIP00000061557	ENSONIP00000030400	ENSONIP00000061557	Interleukin enhancer binding factor 2.	annotation not available	0.473
ilf2	LOC100701112	ENSONIP00000030400	ENSONIP00000044023	Interleukin enhancer binding factor 2.	RNA binding motif protein 4.3.	0.615
ilf2	ilf3	ENSONIP00000030400	ENSONIP00000069799	Interleukin enhancer binding factor 2.	Interleukin enhancer binding factor 3b.	0.979
ilf2	ssb	ENSONIP00000030400	ENSONIP00000028829	Interleukin enhancer binding factor 2.	Small RNA binding exonuclease protection factor La.	0.639
ilf3	ENSONIP00000005565	ENSONIP00000069799	ENSONIP00000005565	Interleukin enhancer binding factor 3b.	Matrin 3-like 1.1.	0.436