(27 nodes) Retina layer formation network (Pan paniscus)

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:
	OBSL1	Obscurin like 1. (1862 aa)
	DSCAM	DS cell adhesion molecule. (1895 aa)
	IGFN1	Uncharacterized protein. (1240 aa)
	RDH13	Retinol dehydrogenase 13; Belongs to the short-chain dehydrogenases/reductases (SDR) family. (331 aa)
	PTPRM	Protein tyrosine phosphatase receptor type M. (1465 aa)
	SLC1A1	Amino acid transporter. (524 aa)
	ATP8A2	Phospholipid-transporting ATPase; Belongs to the cation transport ATPase (P-type) (TC 3.A.3) family. Type IV subfamily. (1162 aa)
	SDK2	Sidekick cell adhesion molecule 2. (2172 aa)
	TFAP2B	Transcription factor AP-2 beta. (467 aa)
	AHI1	Abelson helper integration site 1. (1240 aa)
	PROM1	Prominin 1. (865 aa)
	SDK1	Sidekick cell adhesion molecule 1. (2113 aa)
	TSPAN12	Tetraspanin. (305 aa)
	HIPK1	Homeodomain interacting protein kinase 1. (1210 aa)
	CRB1	Crumbs cell polarity complex component 1. (1406 aa)
	LOC100975953	Uncharacterized protein. (678 aa)
	FOXN4	Forkhead box N4. (512 aa)
	LHX1	LIM homeobox 1. (406 aa)
	RS1	Retinoschisin 1. (224 aa)
	IGSF22	Immunoglobulin superfamily member 22. (1326 aa)
	FJX1	Uncharacterized protein. (378 aa)
	FAT3	Uncharacterized protein. (892 aa)
	CALB1	Calbindin 1. (261 aa)
	TOPORS	TOP1 binding arginine/serine rich protein. (1044 aa)
	HIPK2	Protein kinase domain-containing protein. (954 aa)
	TFAP2A	TF_AP-2 domain-containing protein. (328 aa)
	MEGF11	Multiple EGF like domains 11. (990 aa)

Your Current Organism:

Pan paniscus

NCBI taxonomy Id: 9597
Other names: P. paniscus, bonobo, pygmy chimpanzee

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
FAT3	FJX1	ENSPPAP00000038838	ENSPPAP00000037587	Uncharacterized protein.	Uncharacterized protein.	0.726
FJX1	FAT3	ENSPPAP00000037587	ENSPPAP00000038838	Uncharacterized protein.	Uncharacterized protein.	0.726
HIPK1	HIPK2	ENSPPAP00000027189	ENSPPAP00000041295	Homeodomain interacting protein kinase 1.	Protein kinase domain-containing protein.	0.901
HIPK2	HIPK1	ENSPPAP00000041295	ENSPPAP00000027189	Protein kinase domain-containing protein.	Homeodomain interacting protein kinase 1.	0.901
HIPK2	TOPORS	ENSPPAP00000041295	ENSPPAP00000041140	Protein kinase domain-containing protein.	TOP1 binding arginine/serine rich protein.	0.554
TFAP2A	TFAP2B	ENSPPAP00000041376	ENSPPAP00000016193	TF_AP-2 domain-containing protein.	Transcription factor AP-2 beta.	0.950
TFAP2B	TFAP2A	ENSPPAP00000016193	ENSPPAP00000041376	Transcription factor AP-2 beta.	TF_AP-2 domain-containing protein.	0.950
TOPORS	HIPK2	ENSPPAP00000041140	ENSPPAP00000041295	TOP1 binding arginine/serine rich protein.	Protein kinase domain-containing protein.	0.554