(11 nodes) Mesodermal cell fate commitment network (Tursiops truncatus)

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:
	SMAD1	Mothers against decapentaplegic homolog. (465 aa)
	ENSTTRP00000000710	annotation not available (306 aa)
	SIX2	Homeobox protein SIX2. (168 aa)
	ETV2	ETS translocation variant 2. (362 aa)
	NODAL	Nodal homolog. (348 aa)
	HOXA11	Homeobox protein Hox-A11. (311 aa)
	SFRP2	Secreted frizzled-related protein 2. (294 aa)
	EYA1	Eyes absent homolog; Belongs to the HAD-like hydrolase superfamily. EYA family. (589 aa)
	BMP4	Bone morphogenetic protein 4. (407 aa)
	TBX6	T-box transcription factor 6. (435 aa)
	ENSTTRP00000006381	annotation not available (382 aa)

Your Current Organism:

Tursiops truncatus

NCBI taxonomy Id: 9739
Other names: Atlantic bottlenose dolphin, T. truncatus, bottle-nosed dolphin, common bottlenose dolphin

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
BMP4	ENSTTRP00000000710	ENSTTRP00000008787	ENSTTRP00000000710	Bone morphogenetic protein 4.	annotation not available	0.799
BMP4	ENSTTRP00000006381	ENSTTRP00000008787	ENSTTRP00000006381	Bone morphogenetic protein 4.	annotation not available	0.708
BMP4	EYA1	ENSTTRP00000008787	ENSTTRP00000011780	Bone morphogenetic protein 4.	Eyes absent homolog; Belongs to the HAD-like hydrolase superfamily. EYA family.	0.438
BMP4	SMAD1	ENSTTRP00000008787	ENSTTRP00000007646	Bone morphogenetic protein 4.	Mothers against decapentaplegic homolog.	0.791
BMP4	TBX6	ENSTTRP00000008787	ENSTTRP00000005221	Bone morphogenetic protein 4.	T-box transcription factor 6.	0.562
ENSTTRP00000000710	BMP4	ENSTTRP00000000710	ENSTTRP00000008787	annotation not available	Bone morphogenetic protein 4.	0.799
ENSTTRP00000000710	ENSTTRP00000006381	ENSTTRP00000000710	ENSTTRP00000006381	annotation not available	annotation not available	0.493
ENSTTRP00000000710	NODAL	ENSTTRP00000000710	ENSTTRP00000002983	annotation not available	Nodal homolog.	0.539
ENSTTRP00000006381	BMP4	ENSTTRP00000006381	ENSTTRP00000008787	annotation not available	Bone morphogenetic protein 4.	0.708
ENSTTRP00000006381	ENSTTRP00000000710	ENSTTRP00000006381	ENSTTRP00000000710	annotation not available	annotation not available	0.493
ENSTTRP00000006381	SFRP2	ENSTTRP00000006381	ENSTTRP00000004282	annotation not available	Secreted frizzled-related protein 2.	0.964
ENSTTRP00000006381	TBX6	ENSTTRP00000006381	ENSTTRP00000005221	annotation not available	T-box transcription factor 6.	0.632
EYA1	BMP4	ENSTTRP00000011780	ENSTTRP00000008787	Eyes absent homolog; Belongs to the HAD-like hydrolase superfamily. EYA family.	Bone morphogenetic protein 4.	0.438
EYA1	SIX2	ENSTTRP00000011780	ENSTTRP00000001018	Eyes absent homolog; Belongs to the HAD-like hydrolase superfamily. EYA family.	Homeobox protein SIX2.	0.836
EYA1	TBX6	ENSTTRP00000011780	ENSTTRP00000005221	Eyes absent homolog; Belongs to the HAD-like hydrolase superfamily. EYA family.	T-box transcription factor 6.	0.405
NODAL	ENSTTRP00000000710	ENSTTRP00000002983	ENSTTRP00000000710	Nodal homolog.	annotation not available	0.539
SFRP2	ENSTTRP00000006381	ENSTTRP00000004282	ENSTTRP00000006381	Secreted frizzled-related protein 2.	annotation not available	0.964
SIX2	EYA1	ENSTTRP00000001018	ENSTTRP00000011780	Homeobox protein SIX2.	Eyes absent homolog; Belongs to the HAD-like hydrolase superfamily. EYA family.	0.836
SMAD1	BMP4	ENSTTRP00000007646	ENSTTRP00000008787	Mothers against decapentaplegic homolog.	Bone morphogenetic protein 4.	0.791
TBX6	BMP4	ENSTTRP00000005221	ENSTTRP00000008787	T-box transcription factor 6.	Bone morphogenetic protein 4.	0.562