(28 nodes) Camera-type eye photoreceptor cell differentiation 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:
	STAT3	Signal transducer and activator of transcription. (781 aa)
	HCN1	Hyperpolarization activated cyclic nucleotide gated potassium channel 1. (883 aa)
	CNTF	Ciliary neurotrophic factor. (200 aa)
	RPGRIP1L	RPGRIP1 like. (1309 aa)
	TOPORS	TOP1 binding arginine/serine rich protein. (1044 aa)
	NOTCH1	Notch receptor 1. (2573 aa)
	NTRK2	Tyrosine-protein kinase receptor. (838 aa)
	LOC100975953	Uncharacterized protein. (678 aa)
	RP1	RP1 axonemal microtubule associated. (2152 aa)
	ROM1	Retinal outer segment membrane protein 1. (351 aa)
	RPGRIP1	RPGR interacting protein 1. (1239 aa)
	IHH	Hedgehog protein; Intercellular signal essential for a variety of patterning events during development. (402 aa)
	BBS4	Bardet-Biedl syndrome 4. (547 aa)
	PROM1	Prominin 1. (865 aa)
	NRL	Neural retina leucine zipper. (237 aa)
	CABP4	Calcium binding protein 4. (275 aa)
	CRB2	Crumbs cell polarity complex component 2. (1083 aa)
	THY1	Thy-1 cell surface antigen. (161 aa)
	SDK2	Sidekick cell adhesion molecule 2. (2172 aa)
	ENSPPAP00000011900	HMG box domain-containing protein. (291 aa)
	USH1C	USH1 protein network component harmonin. (899 aa)
	THRB	Uncharacterized protein. (476 aa)
	GNAT2	G protein subunit alpha transducin 2. (354 aa)
	RORB	RAR related orphan receptor B. (482 aa)
	NAGLU	N-acetyl-alpha-glucosaminidase. (682 aa)
	PDE6C	Phosphodiesterase. (858 aa)
	TTC8	Tetratricopeptide repeat domain 8. (531 aa)
	DSCAM	DS cell adhesion molecule. (1895 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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
BBS4	RPGRIP1L	ENSPPAP00000021436	ENSPPAP00000033449	Bardet-Biedl syndrome 4.	RPGRIP1 like.	0.554
BBS4	TTC8	ENSPPAP00000021436	ENSPPAP00000005836	Bardet-Biedl syndrome 4.	Tetratricopeptide repeat domain 8.	0.998
CABP4	ROM1	ENSPPAP00000015933	ENSPPAP00000024593	Calcium binding protein 4.	Retinal outer segment membrane protein 1.	0.418
CABP4	RPGRIP1	ENSPPAP00000015933	ENSPPAP00000023589	Calcium binding protein 4.	RPGR interacting protein 1.	0.489
CNTF	NTRK2	ENSPPAP00000034660	ENSPPAP00000029510	Ciliary neurotrophic factor.	Tyrosine-protein kinase receptor.	0.571
CNTF	STAT3	ENSPPAP00000034660	ENSPPAP00000035951	Ciliary neurotrophic factor.	Signal transducer and activator of transcription.	0.614
GNAT2	PDE6C	ENSPPAP00000008039	ENSPPAP00000007569	G protein subunit alpha transducin 2.	Phosphodiesterase.	0.940
GNAT2	ROM1	ENSPPAP00000008039	ENSPPAP00000024593	G protein subunit alpha transducin 2.	Retinal outer segment membrane protein 1.	0.676
NOTCH1	PROM1	ENSPPAP00000033437	ENSPPAP00000019268	Notch receptor 1.	Prominin 1.	0.485
NOTCH1	STAT3	ENSPPAP00000033437	ENSPPAP00000035951	Notch receptor 1.	Signal transducer and activator of transcription.	0.527
NRL	ROM1	ENSPPAP00000017252	ENSPPAP00000024593	Neural retina leucine zipper.	Retinal outer segment membrane protein 1.	0.507
NRL	TOPORS	ENSPPAP00000017252	ENSPPAP00000041140	Neural retina leucine zipper.	TOP1 binding arginine/serine rich protein.	0.535
NTRK2	CNTF	ENSPPAP00000029510	ENSPPAP00000034660	Tyrosine-protein kinase receptor.	Ciliary neurotrophic factor.	0.571
PDE6C	GNAT2	ENSPPAP00000007569	ENSPPAP00000008039	Phosphodiesterase.	G protein subunit alpha transducin 2.	0.940
PDE6C	ROM1	ENSPPAP00000007569	ENSPPAP00000024593	Phosphodiesterase.	Retinal outer segment membrane protein 1.	0.712
PDE6C	RPGRIP1	ENSPPAP00000007569	ENSPPAP00000023589	Phosphodiesterase.	RPGR interacting protein 1.	0.414
PROM1	NOTCH1	ENSPPAP00000019268	ENSPPAP00000033437	Prominin 1.	Notch receptor 1.	0.485
PROM1	STAT3	ENSPPAP00000019268	ENSPPAP00000035951	Prominin 1.	Signal transducer and activator of transcription.	0.483
PROM1	THY1	ENSPPAP00000019268	ENSPPAP00000014078	Prominin 1.	Thy-1 cell surface antigen.	0.585
ROM1	CABP4	ENSPPAP00000024593	ENSPPAP00000015933	Retinal outer segment membrane protein 1.	Calcium binding protein 4.	0.418