(10 nodes) Behavioral response to cocaine network (Oryzias latipes)

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:
	drd3	Dopamine receptor D3; Belongs to the G-protein coupled receptor 1 family. (456 aa)
	LOC101164385	Dopamine receptor D4; Belongs to the G-protein coupled receptor 1 family. (383 aa)
	HOMER1	Homer scaffold protein 1. (376 aa)
	LOC101163175	Homer scaffold protein 1b. (359 aa)
	cdk5	Cyclin-dependent kinase 5; Belongs to the protein kinase superfamily. (292 aa)
	LOC101173126	Dopamine receptor D4a; Belongs to the G-protein coupled receptor 1 family. (382 aa)
	LOC101173120	G_PROTEIN_RECEP_F1_2 domain-containing protein; Belongs to the G-protein coupled receptor 1 family. (390 aa)
	LOC101168957	Protein phosphatase 1, regulatory (inhibitor) subunit 1B. (209 aa)
	ENSORLP00000032225	Uncharacterized protein. (67 aa)
	abat	4-aminobutyrate aminotransferase; Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family. (500 aa)

Your Current Organism:

Oryzias latipes

NCBI taxonomy Id: 8090
Other names: Japanese medaka, Japanese rice fish, O. latipes, Poecilia latipes, medaka

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
ENSORLP00000032225	cdk5	ENSORLP00000032225	ENSORLP00000021947	Uncharacterized protein.	Cyclin-dependent kinase 5; Belongs to the protein kinase superfamily.	0.731
LOC101164385	drd3	ENSORLP00000000107	ENSORLP00000042570	Dopamine receptor D4; Belongs to the G-protein coupled receptor 1 family.	Dopamine receptor D3; Belongs to the G-protein coupled receptor 1 family.	0.577
LOC101168957	cdk5	ENSORLP00000028672	ENSORLP00000021947	Protein phosphatase 1, regulatory (inhibitor) subunit 1B.	Cyclin-dependent kinase 5; Belongs to the protein kinase superfamily.	0.731
LOC101173120	drd3	ENSORLP00000024963	ENSORLP00000042570	G_PROTEIN_RECEP_F1_2 domain-containing protein; Belongs to the G-protein coupled receptor 1 family.	Dopamine receptor D3; Belongs to the G-protein coupled receptor 1 family.	0.577
LOC101173126	drd3	ENSORLP00000024111	ENSORLP00000042570	Dopamine receptor D4a; Belongs to the G-protein coupled receptor 1 family.	Dopamine receptor D3; Belongs to the G-protein coupled receptor 1 family.	0.577
cdk5	ENSORLP00000032225	ENSORLP00000021947	ENSORLP00000032225	Cyclin-dependent kinase 5; Belongs to the protein kinase superfamily.	Uncharacterized protein.	0.731
cdk5	LOC101168957	ENSORLP00000021947	ENSORLP00000028672	Cyclin-dependent kinase 5; Belongs to the protein kinase superfamily.	Protein phosphatase 1, regulatory (inhibitor) subunit 1B.	0.731
drd3	LOC101164385	ENSORLP00000042570	ENSORLP00000000107	Dopamine receptor D3; Belongs to the G-protein coupled receptor 1 family.	Dopamine receptor D4; Belongs to the G-protein coupled receptor 1 family.	0.577
drd3	LOC101173120	ENSORLP00000042570	ENSORLP00000024963	Dopamine receptor D3; Belongs to the G-protein coupled receptor 1 family.	G_PROTEIN_RECEP_F1_2 domain-containing protein; Belongs to the G-protein coupled receptor 1 family.	0.577
drd3	LOC101173126	ENSORLP00000042570	ENSORLP00000024111	Dopamine receptor D3; Belongs to the G-protein coupled receptor 1 family.	Dopamine receptor D4a; Belongs to the G-protein coupled receptor 1 family.	0.577