(15 nodes) (2008) Stem cells in development of therapeutics for Parkinsons disease: a perspective. network (Callithrix jacchus)

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:
	LMX1A	LIM homeobox transcription factor 1 alpha. (382 aa)
	KLF4	Kruppel like factor 4. (507 aa)
	POU5F1	POU-specific domain-containing protein. (484 aa)
	PAX2	Paired box 2. (448 aa)
	OTX2	Uncharacterized protein. (35 aa)
	EN1	Homeobox protein engrailed-like. (391 aa)
	WNT1	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family. (370 aa)
	SHH	Hedgehog protein; Intercellular signal essential for a variety of patterning events during development. (477 aa)
	POU5F1-2	Uncharacterized protein. (146 aa)
	NANOG	Homeobox domain-containing protein. (305 aa)
	CORIN	Corin, serine peptidase. (1042 aa)
	MYC	Myc proto-oncogene protein; Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. Activates the transcription of growth-related genes. Binds to the VEGFA promoter, promoting VEGFA production and subsequent sprouting angiogenesis. Regulator of somatic reprogramming, controls self-renewal of embryonic stem cells. Functions with TAF6L to activate target gene expression through RNA polymerase II pause release (By similarity). (452 aa)
	MSX1	Homeobox protein MSX-1; Acts as a transcriptional repressor. May play a role in limb- pattern formation. Acts in cranofacial development and specifically in odontogenesis (By similarity). (303 aa)
	PINK1	Serine/threonine-protein kinase PINK1, mitochondrial. (581 aa)
	FOXG1	Forkhead box G1. (505 aa)

Your Current Organism:

Callithrix jacchus

NCBI taxonomy Id: 9483
Other names: C. jacchus, Callithrix jacchus jacchus, common marmoset, white ear-tufted marmoset, white-tufted-ear marmoset

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
CORIN	EN1	ENSCJAP00000035182	ENSCJAP00000054534	Corin, serine peptidase.	Homeobox protein engrailed-like.	0.690
CORIN	LMX1A	ENSCJAP00000035182	ENSCJAP00000008539	Corin, serine peptidase.	LIM homeobox transcription factor 1 alpha.	0.706
CORIN	OTX2	ENSCJAP00000035182	ENSCJAP00000057088	Corin, serine peptidase.	Uncharacterized protein.	0.567
CORIN	SHH	ENSCJAP00000035182	ENSCJAP00000037954	Corin, serine peptidase.	Hedgehog protein; Intercellular signal essential for a variety of patterning events during development.	0.611
CORIN	WNT1	ENSCJAP00000035182	ENSCJAP00000038741	Corin, serine peptidase.	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family.	0.506
EN1	CORIN	ENSCJAP00000054534	ENSCJAP00000035182	Homeobox protein engrailed-like.	Corin, serine peptidase.	0.690
EN1	FOXG1	ENSCJAP00000054534	ENSCJAP00000011408	Homeobox protein engrailed-like.	Forkhead box G1.	0.598
EN1	LMX1A	ENSCJAP00000054534	ENSCJAP00000008539	Homeobox protein engrailed-like.	LIM homeobox transcription factor 1 alpha.	0.457
EN1	OTX2	ENSCJAP00000054534	ENSCJAP00000057088	Homeobox protein engrailed-like.	Uncharacterized protein.	0.712
EN1	PAX2	ENSCJAP00000054534	ENSCJAP00000066740	Homeobox protein engrailed-like.	Paired box 2.	0.664
EN1	SHH	ENSCJAP00000054534	ENSCJAP00000037954	Homeobox protein engrailed-like.	Hedgehog protein; Intercellular signal essential for a variety of patterning events during development.	0.691
EN1	WNT1	ENSCJAP00000054534	ENSCJAP00000038741	Homeobox protein engrailed-like.	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family.	0.676
FOXG1	EN1	ENSCJAP00000011408	ENSCJAP00000054534	Forkhead box G1.	Homeobox protein engrailed-like.	0.598
FOXG1	LMX1A	ENSCJAP00000011408	ENSCJAP00000008539	Forkhead box G1.	LIM homeobox transcription factor 1 alpha.	0.463
FOXG1	OTX2	ENSCJAP00000011408	ENSCJAP00000057088	Forkhead box G1.	Uncharacterized protein.	0.767
FOXG1	PAX2	ENSCJAP00000011408	ENSCJAP00000066740	Forkhead box G1.	Paired box 2.	0.427
FOXG1	SHH	ENSCJAP00000011408	ENSCJAP00000037954	Forkhead box G1.	Hedgehog protein; Intercellular signal essential for a variety of patterning events during development.	0.761
KLF4	LMX1A	ENSCJAP00000077416	ENSCJAP00000008539	Kruppel like factor 4.	LIM homeobox transcription factor 1 alpha.	0.400
KLF4	MYC	ENSCJAP00000077416	ENSCJAP00000023101	Kruppel like factor 4.	Myc proto-oncogene protein; Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. Activates the transcription of growth-related genes. Binds to the VEGFA promoter, promoting VEGFA production and subsequent sprouting angiogenesis. Regulator of somatic reprogramming, controls self-renewal of embryonic stem cells. Functions with TAF6L to activate target gene expression through RNA polymerase II pause release (By similarity).	0.922
KLF4	NANOG	ENSCJAP00000077416	ENSCJAP00000035305	Kruppel like factor 4.	Homeobox domain-containing protein.	0.944