(20 nodes) HDL assembly network (Poecilia reticulata)

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:
	prkacb	Uncharacterized protein; Belongs to the protein kinase superfamily. (380 aa)
	zdhhc5	Palmitoyltransferase; Belongs to the DHHC palmitoyltransferase family. (728 aa)
	ptchd1	Patched domain containing 1. (969 aa)
	LOC103470784	Palmitoyltransferase; Belongs to the DHHC palmitoyltransferase family. (809 aa)
	ptchd4	Patched domain containing 4. (921 aa)
	zdhhc8	Palmitoyltransferase; Belongs to the DHHC palmitoyltransferase family. (783 aa)
	smpdl3a	Sphingomyelin phosphodiesterase, acid-like 3A. (477 aa)
	LOC103469417	ATP-binding cassette, sub-family A (ABC1), member 1A. (2269 aa)
	prkaca	Uncharacterized protein; Belongs to the protein kinase superfamily. (327 aa)
	ENSPREP00000000775	Uncharacterized protein. (175 aa)
	LOC103468785	Protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a; Belongs to the protein kinase superfamily. (351 aa)
	LOC103474828	Apolipoprotein A-Ib. (263 aa)
	plekhd1	Pleckstrin homology domain containing, family D (with coiled-coil domains) member 1. (499 aa)
	LOC103479663	Protein kinase, cAMP-dependent, catalytic, beta b; Belongs to the protein kinase superfamily. (351 aa)
	abca2	ATP-binding cassette, sub-family A (ABC1), member 2. (2386 aa)
	LOC103471778	ATP binding cassette subfamily A member 1. (2155 aa)
	LOC103474953	Uncharacterized protein. (1423 aa)
	LOC103473779	Palmitoyltransferase; Belongs to the DHHC palmitoyltransferase family. (650 aa)
	LOC103474285	Uncharacterized protein. (1417 aa)
	ENSPREP00000021257	A2M_recep domain-containing protein. (524 aa)

Your Current Organism:

Poecilia reticulata

NCBI taxonomy Id: 8081
Other names: Acanthophacelus reticulata, P. reticulata, Poecilia (Acanthophacelus) reticulata, Poecilia latipinna reticulata, guppy

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
LOC103468785	LOC103479663	ENSPREP00000006192	ENSPREP00000014181	Protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a; Belongs to the protein kinase superfamily.	Protein kinase, cAMP-dependent, catalytic, beta b; Belongs to the protein kinase superfamily.	0.900
LOC103468785	prkaca	ENSPREP00000006192	ENSPREP00000000445	Protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a; Belongs to the protein kinase superfamily.	Uncharacterized protein; Belongs to the protein kinase superfamily.	0.900
LOC103468785	prkacb	ENSPREP00000006192	ENSPREP00000021366	Protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a; Belongs to the protein kinase superfamily.	Uncharacterized protein; Belongs to the protein kinase superfamily.	0.900
LOC103469417	LOC103474828	ENSPREP00000000339	ENSPREP00000010904	ATP-binding cassette, sub-family A (ABC1), member 1A.	Apolipoprotein A-Ib.	0.527
LOC103471778	LOC103474828	ENSPREP00000017184	ENSPREP00000010904	ATP binding cassette subfamily A member 1.	Apolipoprotein A-Ib.	0.527
LOC103474828	LOC103469417	ENSPREP00000010904	ENSPREP00000000339	Apolipoprotein A-Ib.	ATP-binding cassette, sub-family A (ABC1), member 1A.	0.527
LOC103474828	LOC103471778	ENSPREP00000010904	ENSPREP00000017184	Apolipoprotein A-Ib.	ATP binding cassette subfamily A member 1.	0.527
LOC103474828	abca2	ENSPREP00000010904	ENSPREP00000016364	Apolipoprotein A-Ib.	ATP-binding cassette, sub-family A (ABC1), member 2.	0.527
LOC103479663	LOC103468785	ENSPREP00000014181	ENSPREP00000006192	Protein kinase, cAMP-dependent, catalytic, beta b; Belongs to the protein kinase superfamily.	Protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a; Belongs to the protein kinase superfamily.	0.900
LOC103479663	prkaca	ENSPREP00000014181	ENSPREP00000000445	Protein kinase, cAMP-dependent, catalytic, beta b; Belongs to the protein kinase superfamily.	Uncharacterized protein; Belongs to the protein kinase superfamily.	0.900
LOC103479663	prkacb	ENSPREP00000014181	ENSPREP00000021366	Protein kinase, cAMP-dependent, catalytic, beta b; Belongs to the protein kinase superfamily.	Uncharacterized protein; Belongs to the protein kinase superfamily.	0.900
abca2	LOC103474828	ENSPREP00000016364	ENSPREP00000010904	ATP-binding cassette, sub-family A (ABC1), member 2.	Apolipoprotein A-Ib.	0.527
prkaca	LOC103468785	ENSPREP00000000445	ENSPREP00000006192	Uncharacterized protein; Belongs to the protein kinase superfamily.	Protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a; Belongs to the protein kinase superfamily.	0.900
prkaca	LOC103479663	ENSPREP00000000445	ENSPREP00000014181	Uncharacterized protein; Belongs to the protein kinase superfamily.	Protein kinase, cAMP-dependent, catalytic, beta b; Belongs to the protein kinase superfamily.	0.900
prkaca	prkacb	ENSPREP00000000445	ENSPREP00000021366	Uncharacterized protein; Belongs to the protein kinase superfamily.	Uncharacterized protein; Belongs to the protein kinase superfamily.	0.900
prkacb	LOC103468785	ENSPREP00000021366	ENSPREP00000006192	Uncharacterized protein; Belongs to the protein kinase superfamily.	Protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a; Belongs to the protein kinase superfamily.	0.900
prkacb	LOC103479663	ENSPREP00000021366	ENSPREP00000014181	Uncharacterized protein; Belongs to the protein kinase superfamily.	Protein kinase, cAMP-dependent, catalytic, beta b; Belongs to the protein kinase superfamily.	0.900
prkacb	prkaca	ENSPREP00000021366	ENSPREP00000000445	Uncharacterized protein; Belongs to the protein kinase superfamily.	Uncharacterized protein; Belongs to the protein kinase superfamily.	0.900