(17 nodes) (2019) Comparative Study of Immune Reaction Against Bacterial Infection From Transcriptome Analysis. 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:
	LOC100703919	Uncharacterized protein. (1688 aa)
	hes1	Hairy-related 6. (289 aa)
	il17rb	Interleukin 17 receptor B. (426 aa)
	il17re	Interleukin 17 receptor E. (787 aa)
	TLR5	Toll like receptor 5; Belongs to the Toll-like receptor family. (884 aa)
	socs1	Uncharacterized protein. (215 aa)
	LOC100696189	Toll-like receptor 9; Belongs to the Toll-like receptor family. (1078 aa)
	notch1	Notch receptor 1b. (2519 aa)
	irf4	Interferon regulatory factor 4a. (460 aa)
	LOC100699896	Interleukin 12 receptor, beta 2a. (779 aa)
	LOC100707066	Interleukin-1. (244 aa)
	LOC100703553	Notch receptor 1a. (2480 aa)
	LOC102081429	TNF receptor superfamily member 11b. (417 aa)
	irf8	Interferon regulatory factor 8. (420 aa)
	cxcr4	C-X-C motif chemokine receptor 4; Belongs to the G-protein coupled receptor 1 family. (382 aa)
	LOC100704190	Uncharacterized protein. (1693 aa)
	cd83	Ig-like domain-containing protein. (225 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
LOC100696189	LOC100707066	ENSONIP00000015638	ENSONIP00000010489	Toll-like receptor 9; Belongs to the Toll-like receptor family.	Interleukin-1.	0.412
LOC100699896	il17rb	ENSONIP00000003259	ENSONIP00000078643	Interleukin 12 receptor, beta 2a.	Interleukin 17 receptor B.	0.531
LOC100699896	irf4	ENSONIP00000003259	ENSONIP00000012107	Interleukin 12 receptor, beta 2a.	Interferon regulatory factor 4a.	0.409
LOC100703553	hes1	ENSONIP00000009396	ENSONIP00000003280	Notch receptor 1a.	Hairy-related 6.	0.640
LOC100707066	LOC100696189	ENSONIP00000010489	ENSONIP00000015638	Interleukin-1.	Toll-like receptor 9; Belongs to the Toll-like receptor family.	0.412
LOC100707066	TLR5	ENSONIP00000010489	ENSONIP00000037138	Interleukin-1.	Toll like receptor 5; Belongs to the Toll-like receptor family.	0.643
LOC100707066	cd83	ENSONIP00000010489	ENSONIP00000001891	Interleukin-1.	Ig-like domain-containing protein.	0.506
LOC100707066	cxcr4	ENSONIP00000010489	ENSONIP00000005554	Interleukin-1.	C-X-C motif chemokine receptor 4; Belongs to the G-protein coupled receptor 1 family.	0.423
LOC102081429	irf4	ENSONIP00000008893	ENSONIP00000012107	TNF receptor superfamily member 11b.	Interferon regulatory factor 4a.	0.444
LOC102081429	irf8	ENSONIP00000008893	ENSONIP00000007087	TNF receptor superfamily member 11b.	Interferon regulatory factor 8.	0.444
TLR5	LOC100707066	ENSONIP00000037138	ENSONIP00000010489	Toll like receptor 5; Belongs to the Toll-like receptor family.	Interleukin-1.	0.643
cd83	LOC100707066	ENSONIP00000001891	ENSONIP00000010489	Ig-like domain-containing protein.	Interleukin-1.	0.506
cd83	cxcr4	ENSONIP00000001891	ENSONIP00000005554	Ig-like domain-containing protein.	C-X-C motif chemokine receptor 4; Belongs to the G-protein coupled receptor 1 family.	0.555
cd83	irf8	ENSONIP00000001891	ENSONIP00000007087	Ig-like domain-containing protein.	Interferon regulatory factor 8.	0.406
cxcr4	LOC100707066	ENSONIP00000005554	ENSONIP00000010489	C-X-C motif chemokine receptor 4; Belongs to the G-protein coupled receptor 1 family.	Interleukin-1.	0.423
cxcr4	cd83	ENSONIP00000005554	ENSONIP00000001891	C-X-C motif chemokine receptor 4; Belongs to the G-protein coupled receptor 1 family.	Ig-like domain-containing protein.	0.555
hes1	LOC100703553	ENSONIP00000003280	ENSONIP00000009396	Hairy-related 6.	Notch receptor 1a.	0.640
hes1	notch1	ENSONIP00000003280	ENSONIP00000013435	Hairy-related 6.	Notch receptor 1b.	0.645
il17rb	LOC100699896	ENSONIP00000078643	ENSONIP00000003259	Interleukin 17 receptor B.	Interleukin 12 receptor, beta 2a.	0.531
il17rb	il17re	ENSONIP00000078643	ENSONIP00000069528	Interleukin 17 receptor B.	Interleukin 17 receptor E.	0.861