(7 nodes) Regulation of Fc receptor mediated stimulatory signaling pathway 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:
	RABGEF1	RAB guanine nucleotide exchange factor (GEF) 1. (532 aa)
	LOC102354752	VPS9 domain-containing protein. (197 aa)
	H3AUL4_LATCH	Ig-like domain-containing protein. (268 aa)
	APPL1	Adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 1. (709 aa)
	LYN	Tyrosine-protein kinase. (515 aa)
	PTPRC	Protein tyrosine phosphatase receptor type C. (830 aa)
	APPL2	Adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 2. (484 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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
APPL1	APPL2	ENSLACP00000012610	ENSLACP00000000307	Adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 1.	Adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 2.	0.997
APPL2	APPL1	ENSLACP00000000307	ENSLACP00000012610	Adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 2.	Adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 1.	0.997
LOC102354752	RABGEF1	ENSLACP00000020287	ENSLACP00000021436	VPS9 domain-containing protein.	RAB guanine nucleotide exchange factor (GEF) 1.	0.648
LYN	PTPRC	ENSLACP00000006462	ENSLACP00000003518	Tyrosine-protein kinase.	Protein tyrosine phosphatase receptor type C.	0.614
PTPRC	LYN	ENSLACP00000003518	ENSLACP00000006462	Protein tyrosine phosphatase receptor type C.	Tyrosine-protein kinase.	0.614
RABGEF1	LOC102354752	ENSLACP00000021436	ENSLACP00000020287	RAB guanine nucleotide exchange factor (GEF) 1.	VPS9 domain-containing protein.	0.648