(37 nodes) Cerebellar cortex formation network (Cricetulus griseus)

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:
	Prox1	Prospero homeobox protein 1. (738 aa)
	Map2k1	Dual specificity mitogen-activated protein kinase kinase 1. (101 aa)
	I79_024010	Oligophrenin-1. (243 aa)
	Rora	Nuclear receptor ROR-alpha. (959 aa)
	I79_022599	Fas apoptotic inhibitory molecule 2. (360 aa)
	I79_022050	Oligophrenin-1. (93 aa)
	Agtpbp1	Cytosolic carboxypeptidase 1. (1087 aa)
	I79_020650	Protein very KIND. (1485 aa)
	I79_019287	Oligophrenin-1. (371 aa)
	Slc25a46	Solute carrier family 25 member 46; Belongs to the mitochondrial carrier (TC 2.A.29) family. (289 aa)
	Lhx5	LIM/homeobox protein Lhx5. (402 aa)
	Cend1	Cell cycle exit and neuronal differentiation protein 1. (149 aa)
	Psap	Sulfated glycoprotein 1. (249 aa)
	I79_016797	Dual specificity mitogen-activated protein kinase kinase 1. (129 aa)
	Ldb1	LIM domain-binding protein 1. (375 aa)
	I79_015849	Putative tubulin polyglutamylase TTLL1. (345 aa)
	Ttc21b	Tetratricopeptide repeat protein 21B. (1315 aa)
	Atp7a	Copper-transporting ATPase 1. (1457 aa)
	Dll1	Delta-like protein; Putative Notch ligand involved in the mediation of Notch signaling. (741 aa)
	Nrxn1	Neurexin-1-alpha. (849 aa)
	I79_008360	Voltage-dependent P/Q-type calcium channel subunit alpha-1A. (79 aa)
	I79_008358	Voltage-dependent P/Q-type calcium channel subunit alpha; Voltage-sensitive calcium channels (VSCC) mediate the entry of calcium ions into excitable cells and are also involved in a variety of calcium-dependent processes, including muscle contraction, hormone or neurotransmitter release, gene expression, cell motility, cell division and cell death. The isoform alpha-1A gives rise to P and/or Q- type calcium currents. (1774 aa)
	Ulk1	Serine/threonine-protein kinase ULK1. (999 aa)
	Gba	Glucosylceramidase. (515 aa)
	Cdk5	Cell division protein kinase 5; Belongs to the protein kinase superfamily. (292 aa)
	Lhx1	LIM/homeobox protein Lhx1. (84 aa)
	Cbln1	Cerebellin-1. (172 aa)
	I79_005394	Putative E3 ubiquitin-protein ligase HERC1. (328 aa)
	I79_005393	Putative E3 ubiquitin-protein ligase HERC1. (501 aa)
	Herc1	Putative E3 ubiquitin-protein ligase HERC1. (1016 aa)
	Grid2	Glutamate receptor delta-2 subunit. (211 aa)
	I79_004263	Ataxin-2. (904 aa)
	I79_004244	Tyrosine-protein phosphatase non-receptor type 11. (583 aa)
	I79_002457	Fas apoptotic inhibitory molecule 2; Belongs to the BI1 family. (134 aa)
	I79_002357	Calcium-transporting ATPase; This magnesium-dependent enzyme catalyzes the hydrolysis of ATP coupled with the transport of calcium. (1295 aa)
	Foxp2	Forkhead box protein P2. (492 aa)
	Wnt7a	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family. (282 aa)

Your Current Organism:

Cricetulus griseus

NCBI taxonomy Id: 10029
Other names: C. griseus, CHO cell lines, Chinese hamster, Chinese hamsters, Cricetulus aureus, Cricetulus barabensis griseus

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
Cbln1	Grid2	G3H5N4	G3H3N3	Cerebellin-1.	Glutamate receptor delta-2 subunit.	0.720
Cbln1	Nrxn1	G3H5N4	G3HMP2	Cerebellin-1.	Neurexin-1-alpha.	0.707
Gba	I79_004263	G3HC47	G3H292	Glucosylceramidase.	Ataxin-2.	0.493
Gba	Psap	G3HC47	G3I1Y9	Glucosylceramidase.	Sulfated glycoprotein 1.	0.858
Grid2	Cbln1	G3H3N3	G3H5N4	Glutamate receptor delta-2 subunit.	Cerebellin-1.	0.720
Grid2	Nrxn1	G3H3N3	G3HMP2	Glutamate receptor delta-2 subunit.	Neurexin-1-alpha.	0.619
Herc1	I79_005393	G3H523	G3H524	Putative E3 ubiquitin-protein ligase HERC1.	Putative E3 ubiquitin-protein ligase HERC1.	0.804
Herc1	I79_005394	G3H523	G3H525	Putative E3 ubiquitin-protein ligase HERC1.	Putative E3 ubiquitin-protein ligase HERC1.	0.899
I79_004244	I79_016797	G3H277	G3I0B8	Tyrosine-protein phosphatase non-receptor type 11.	Dual specificity mitogen-activated protein kinase kinase 1.	0.514
I79_004244	Map2k1	G3H277	G3INJ6	Tyrosine-protein phosphatase non-receptor type 11.	Dual specificity mitogen-activated protein kinase kinase 1.	0.514
I79_004263	Gba	G3H292	G3HC47	Ataxin-2.	Glucosylceramidase.	0.493
I79_005393	Herc1	G3H524	G3H523	Putative E3 ubiquitin-protein ligase HERC1.	Putative E3 ubiquitin-protein ligase HERC1.	0.804
I79_005393	I79_005394	G3H524	G3H525	Putative E3 ubiquitin-protein ligase HERC1.	Putative E3 ubiquitin-protein ligase HERC1.	0.799
I79_005394	Herc1	G3H525	G3H523	Putative E3 ubiquitin-protein ligase HERC1.	Putative E3 ubiquitin-protein ligase HERC1.	0.899
I79_005394	I79_005393	G3H525	G3H524	Putative E3 ubiquitin-protein ligase HERC1.	Putative E3 ubiquitin-protein ligase HERC1.	0.799
I79_016797	I79_004244	G3I0B8	G3H277	Dual specificity mitogen-activated protein kinase kinase 1.	Tyrosine-protein phosphatase non-receptor type 11.	0.514
I79_019287	I79_024010	G3I706	G3IJH5	Oligophrenin-1.	Oligophrenin-1.	0.910
I79_024010	I79_019287	G3IJH5	G3I706	Oligophrenin-1.	Oligophrenin-1.	0.910
Ldb1	Lhx1	G3HXV3	G3H9D2	LIM domain-binding protein 1.	LIM/homeobox protein Lhx1.	0.578
Ldb1	Lhx5	G3HXV3	G3I6S7	LIM domain-binding protein 1.	LIM/homeobox protein Lhx5.	0.526