(5 nodes) (2014) Evolution of vertebrate mechanosensory hair cells and inner ears: toward identifying stimuli that select mutation driven altered morphologies. network (Latimeria chalumnae)

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:
	POU4F3	POU domain protein. (337 aa)
	BMP4	Bone morphogenetic protein 4. (460 aa)
	PAX6	Paired box 6. (463 aa)
	FOXG1	Forkhead box G1. (409 aa)
	ATOH1	Atonal bHLH transcription factor 1. (279 aa)

Your Current Organism:

Latimeria chalumnae

NCBI taxonomy Id: 7897
Other names: L. chalumnae, coelacanth

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
ATOH1	PAX6	ENSLACP00000006193	ENSLACP00000017411	Atonal bHLH transcription factor 1.	Paired box 6.	0.443
ATOH1	POU4F3	ENSLACP00000006193	ENSLACP00000009466	Atonal bHLH transcription factor 1.	POU domain protein.	0.610
BMP4	PAX6	ENSLACP00000021723	ENSLACP00000017411	Bone morphogenetic protein 4.	Paired box 6.	0.404
FOXG1	PAX6	ENSLACP00000014746	ENSLACP00000017411	Forkhead box G1.	Paired box 6.	0.614
PAX6	ATOH1	ENSLACP00000017411	ENSLACP00000006193	Paired box 6.	Atonal bHLH transcription factor 1.	0.443
PAX6	BMP4	ENSLACP00000017411	ENSLACP00000021723	Paired box 6.	Bone morphogenetic protein 4.	0.404
PAX6	FOXG1	ENSLACP00000017411	ENSLACP00000014746	Paired box 6.	Forkhead box G1.	0.614
POU4F3	ATOH1	ENSLACP00000009466	ENSLACP00000006193	POU domain protein.	Atonal bHLH transcription factor 1.	0.610