(11 nodes) Dorsal aorta development network (Scleropages formosus)

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:
	Z043_104341	Neurogenic locus notch protein-like. (2445 aa)
	nkx3-1	Homeobox domain-containing protein. (221 aa)
	hey2	Hairy/enhancer-of-split related with YRPW motif protein 2-like. (334 aa)
	LOC108927085	Serum response factor-like. (578 aa)
	vegfa	PDGF_2 domain-containing protein; Belongs to the PDGF/VEGF growth factor family. (184 aa)
	LOC108933568	Uncharacterized protein. (604 aa)
	notch1	Neurogenic locus notch protein-like. (2530 aa)
	Z043_109457	Vascular endothelial growth factor A-A-like; Belongs to the PDGF/VEGF growth factor family. (194 aa)
	Z043_101005	Tumor necrosis factor receptor superfamily member 16-like. (423 aa)
	LOC108921768	Angiomotin-like 2a-like. (706 aa)
	LOC108937135	Angiomotin-like 2a-like. (725 aa)

Your Current Organism:

Scleropages formosus

NCBI taxonomy Id: 113540
Other names: Asian arowana, Asian bonytongue, Osteoglossum formosum, S. formosus, golden arowana, golden dragon fish

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
LOC108927085	LOC108933568	ENSSFOP00015062466	ENSSFOP00015040522	Serum response factor-like.	Uncharacterized protein.	0.901
LOC108933568	LOC108927085	ENSSFOP00015040522	ENSSFOP00015062466	Uncharacterized protein.	Serum response factor-like.	0.901
Z043_104341	hey2	ENSSFOP00015051303	ENSSFOP00015062845	Neurogenic locus notch protein-like.	Hairy/enhancer-of-split related with YRPW motif protein 2-like.	0.472
hey2	Z043_104341	ENSSFOP00015062845	ENSSFOP00015051303	Hairy/enhancer-of-split related with YRPW motif protein 2-like.	Neurogenic locus notch protein-like.	0.472
hey2	notch1	ENSSFOP00015062845	ENSSFOP00015067493	Hairy/enhancer-of-split related with YRPW motif protein 2-like.	Neurogenic locus notch protein-like.	0.472
notch1	hey2	ENSSFOP00015067493	ENSSFOP00015062845	Neurogenic locus notch protein-like.	Hairy/enhancer-of-split related with YRPW motif protein 2-like.	0.472