(16 nodes) Trophectodermal cell differentiation 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:
	CTR9	RNA polymerase-associated protein CTR9 homolog isoform X2. (1173 aa)
	ADA	Adenosine deaminase isoform X3. (406 aa)
	BYSL	Bystin like. (435 aa)
	CITED2	Cbp/p300-interacting transactivator 2. (272 aa)
	CNOT1	CCR4-NOT transcription complex subunit 1 isoform X4. (2376 aa)
	TEAD4	TEA domain transcription factor 4. (431 aa)
	SRF	Serum response factor isoform X2. (509 aa)
	CNOT3	CCR4-NOT transcription complex subunit 3. (559 aa)
	CNOT2	CCR4-NOT transcription complex subunit 2 isoform X2. (542 aa)
	JUNB	JunB proto-oncogene, AP-1 transcription factor subunit. (347 aa)
	NODAL	Nodal homolog. (348 aa)
	HAND1	Heart- and neural crest derivatives-expressed protein 1. (218 aa)
	RBM46	Probable RNA-binding protein 46. (533 aa)
	CUL3	Cullin-3 isoform X1; Belongs to the cullin family. (745 aa)
	SP3	Transcription factor Sp3. (781 aa)
	YAP1	Transcriptional coactivator YAP1 isoform X4. (488 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
CNOT1	CNOT2	ENSTTRP00000008020	ENSTTRP00000004552	CCR4-NOT transcription complex subunit 1 isoform X4.	CCR4-NOT transcription complex subunit 2 isoform X2.	0.999
CNOT1	CNOT3	ENSTTRP00000008020	ENSTTRP00000006213	CCR4-NOT transcription complex subunit 1 isoform X4.	CCR4-NOT transcription complex subunit 3.	0.999
CNOT2	CNOT1	ENSTTRP00000004552	ENSTTRP00000008020	CCR4-NOT transcription complex subunit 2 isoform X2.	CCR4-NOT transcription complex subunit 1 isoform X4.	0.999
CNOT2	CNOT3	ENSTTRP00000004552	ENSTTRP00000006213	CCR4-NOT transcription complex subunit 2 isoform X2.	CCR4-NOT transcription complex subunit 3.	0.999
CNOT3	CNOT1	ENSTTRP00000006213	ENSTTRP00000008020	CCR4-NOT transcription complex subunit 3.	CCR4-NOT transcription complex subunit 1 isoform X4.	0.999
CNOT3	CNOT2	ENSTTRP00000006213	ENSTTRP00000004552	CCR4-NOT transcription complex subunit 3.	CCR4-NOT transcription complex subunit 2 isoform X2.	0.999
TEAD4	YAP1	ENSTTRP00000007350	ENSTTRP00000011064	TEA domain transcription factor 4.	Transcriptional coactivator YAP1 isoform X4.	0.995
YAP1	TEAD4	ENSTTRP00000011064	ENSTTRP00000007350	Transcriptional coactivator YAP1 isoform X4.	TEA domain transcription factor 4.	0.995