(16 nodes) Retina layer formation network (Xenopus laevis)

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:
	A0A1L8EM18	Uncharacterized protein. (2125 aa)
	crb2	Uncharacterized protein. (1472 aa)
	Calb1.S	Uncharacterized protein. (316 aa)
	ptf1a	BHLH domain-containing protein. (270 aa)
	foxn4-2	Forkhead box protein FoxN4. (506 aa)
	Calb1	Calbindin D28k. (260 aa)
	Ahi1.L	Uncharacterized protein. (1124 aa)
	fjx1	Uncharacterized protein. (385 aa)
	fjx1-2	Uncharacterized protein. (386 aa)
	A0A1L8GN74	Uncharacterized protein. (1390 aa)
	A0A1L8GSA8	Uncharacterized protein. (1053 aa)
	tspan12	Tetraspanin. (296 aa)
	tspan12-2	Tetraspanin. (304 aa)
	A0A1L8H163	Uncharacterized protein. (1053 aa)
	Fat3.S	Uncharacterized protein. (3417 aa)
	foxn4	Fork-head domain-containing protein. (505 aa)

Your Current Organism:

Xenopus laevis

NCBI taxonomy Id: 8355
Other names: African clawed frog, Bufo laevis, X. laevis, clawed frog, common platanna, platanna

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
Calb1	ptf1a	B7ZSJ2	A0A1L8FVJ0	Calbindin D28k.	BHLH domain-containing protein.	0.433
Calb1.S	ptf1a	A0A1L8FTI0	A0A1L8FVJ0	Uncharacterized protein.	BHLH domain-containing protein.	0.437
Fat3.S	fjx1	A0A1L8HAY6	A0A1L8GDJ7	Uncharacterized protein.	Uncharacterized protein.	0.651
Fat3.S	fjx1-2	A0A1L8HAY6	A0A1L8GIN4	Uncharacterized protein.	Uncharacterized protein.	0.651
fjx1	Fat3.S	A0A1L8GDJ7	A0A1L8HAY6	Uncharacterized protein.	Uncharacterized protein.	0.651
fjx1-2	Fat3.S	A0A1L8GIN4	A0A1L8HAY6	Uncharacterized protein.	Uncharacterized protein.	0.651
foxn4	ptf1a	A0A1L8I009	A0A1L8FVJ0	Fork-head domain-containing protein.	BHLH domain-containing protein.	0.788
foxn4-2	ptf1a	A5PKP2	A0A1L8FVJ0	Forkhead box protein FoxN4.	BHLH domain-containing protein.	0.788
ptf1a	Calb1	A0A1L8FVJ0	B7ZSJ2	BHLH domain-containing protein.	Calbindin D28k.	0.433
ptf1a	Calb1.S	A0A1L8FVJ0	A0A1L8FTI0	BHLH domain-containing protein.	Uncharacterized protein.	0.437
ptf1a	foxn4	A0A1L8FVJ0	A0A1L8I009	BHLH domain-containing protein.	Fork-head domain-containing protein.	0.788
ptf1a	foxn4-2	A0A1L8FVJ0	A5PKP2	BHLH domain-containing protein.	Forkhead box protein FoxN4.	0.788