(10 nodes) Paraxial mesoderm formation network (Sinocyclocheilus grahami)

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:
	LOC107569960	Mesogenin-1-like. (114 aa)
	ENSSGRP00000106568	T-box transcription factor 16, like. (495 aa)
	LOC107553925	Visual system homeobox 1-like isoform X1. (343 aa)
	ENSSGRP00000089352	T-box transcription factor TBX6L-like. (362 aa)
	LOC107583698	Visual system homeobox 1 isoform X1. (344 aa)
	LOC107555552	Exocyst complex component 4-like. (971 aa)
	LOC107585070	Exocyst complex component 4-like. (993 aa)
	Lef1	Lymphoid enhancer-binding factor 1. (343 aa)
	LOC107594427	Lymphoid enhancer-binding factor 1-like. (371 aa)
	ENSSGRP00000002948	annotation not available (374 aa)

Your Current Organism:

Sinocyclocheilus grahami

NCBI taxonomy Id: 75366
Other names: S. grahami

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
ENSSGRP00000002948	LOC107569960	ENSSGRP00000002948	ENSSGRP00000052508	annotation not available	Mesogenin-1-like.	0.791
ENSSGRP00000089352	LOC107569960	ENSSGRP00000089352	ENSSGRP00000052508	T-box transcription factor TBX6L-like.	Mesogenin-1-like.	0.791
ENSSGRP00000106568	LOC107569960	ENSSGRP00000106568	ENSSGRP00000052508	T-box transcription factor 16, like.	Mesogenin-1-like.	0.791
LOC107555552	LOC107585070	ENSSGRP00000049186	ENSSGRP00000024816	Exocyst complex component 4-like.	Exocyst complex component 4-like.	0.900
LOC107569960	ENSSGRP00000002948	ENSSGRP00000052508	ENSSGRP00000002948	Mesogenin-1-like.	annotation not available	0.791
LOC107569960	ENSSGRP00000089352	ENSSGRP00000052508	ENSSGRP00000089352	Mesogenin-1-like.	T-box transcription factor TBX6L-like.	0.791
LOC107569960	ENSSGRP00000106568	ENSSGRP00000052508	ENSSGRP00000106568	Mesogenin-1-like.	T-box transcription factor 16, like.	0.791
LOC107585070	LOC107555552	ENSSGRP00000024816	ENSSGRP00000049186	Exocyst complex component 4-like.	Exocyst complex component 4-like.	0.900