(37 nodes) Regulation of axon extension involved in axon guidance 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:
	Plxna3	Plexin-A3. (656 aa)
	Sema4g	Semaphorin-4G; Belongs to the semaphorin family. (757 aa)
	Sema4b	Semaphorin-4B; Belongs to the semaphorin family. (792 aa)
	I79_021038	Plexin-A3. (334 aa)
	Sema4f	Semaphorin-4F; Belongs to the semaphorin family. (751 aa)
	Cxcl12	Stromal cell-derived factor 1. (89 aa)
	I79_018312	Tyrosine-protein kinase RYK. (163 aa)
	I79_018218	Plexin-A4. (498 aa)
	Tmem145	Multiple epidermal growth factor-like domains 8. (2639 aa)
	Nrp1	Neuropilin; Belongs to the neuropilin family. (923 aa)
	Sema3d	Semaphorin-3D; Belongs to the semaphorin family. (759 aa)
	Sema6a	Semaphorin-6A; Belongs to the semaphorin family. (503 aa)
	I79_012498	Semaphorin-6A. (305 aa)
	I79_012231	Plexin-A4. (332 aa)
	Plxna4	Plexin-A4. (1078 aa)
	Sema3e	Semaphorin-3E; Belongs to the semaphorin family. (777 aa)
	Sema3a	Semaphorin-3A-like protein; Belongs to the semaphorin family. (758 aa)
	Sema3c	Semaphorin-3C; Belongs to the semaphorin family. (493 aa)
	I79_011943	Semaphorin-3C. (86 aa)
	I79_011935	Semaphorin-6D; Belongs to the semaphorin family. (780 aa)
	I79_011934	Semaphorin-6D. (150 aa)
	H671_3g8622	Semaphorin-4D; Belongs to the semaphorin family. (833 aa)
	I79_010136	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family. (230 aa)
	Sema4a	Semaphorin-4A; Belongs to the semaphorin family. (761 aa)
	Dscam	Down syndrome cell adhesion molecule. (1231 aa)
	Sema7a	Semaphorin-7A; Belongs to the semaphorin family. (560 aa)
	I79_008405	Tyrosine-protein kinase RYK. (141 aa)
	Sema6b	Semaphorin-6B; Belongs to the semaphorin family. (823 aa)
	Sema3f	Semaphorin-3F; Belongs to the semaphorin family. (785 aa)
	Sema3b	Semaphorin-3B; Belongs to the semaphorin family. (749 aa)
	Sema5a	Semaphorin-5A. (1046 aa)
	Sema6c	Semaphorin-6C; Belongs to the semaphorin family. (331 aa)
	Sema4c	Semaphorin-4C; Belongs to the semaphorin family. (834 aa)
	I79_003408	Slit-like 1 protein. (1482 aa)
	Bmpr2	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily. (1038 aa)
	Wnt5a	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family. (330 aa)
	I79_000669	Semaphorin-5B. (979 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
H671_3g8622	I79_012231	G3HIA8	G3HN94	Semaphorin-4D; Belongs to the semaphorin family.	Plexin-A4.	0.596
H671_3g8622	I79_018218	G3HIA8	G3I443	Semaphorin-4D; Belongs to the semaphorin family.	Plexin-A4.	0.596
H671_3g8622	I79_021038	G3HIA8	G3IBL2	Semaphorin-4D; Belongs to the semaphorin family.	Plexin-A3.	0.565
H671_3g8622	Nrp1	G3HIA8	G3HZ57	Semaphorin-4D; Belongs to the semaphorin family.	Neuropilin; Belongs to the neuropilin family.	0.461
H671_3g8622	Plxna3	G3HIA8	G3IBL1	Semaphorin-4D; Belongs to the semaphorin family.	Plexin-A3.	0.565
H671_3g8622	Plxna4	G3HIA8	G3HN93	Semaphorin-4D; Belongs to the semaphorin family.	Plexin-A4.	0.596
I79_000669	I79_012231	G3GSQ1	G3HN94	Semaphorin-5B.	Plexin-A4.	0.446
I79_000669	I79_018218	G3GSQ1	G3I443	Semaphorin-5B.	Plexin-A4.	0.446
I79_000669	I79_021038	G3GSQ1	G3IBL2	Semaphorin-5B.	Plexin-A3.	0.551
I79_000669	Nrp1	G3GSQ1	G3HZ57	Semaphorin-5B.	Neuropilin; Belongs to the neuropilin family.	0.748
I79_000669	Plxna3	G3GSQ1	G3IBL1	Semaphorin-5B.	Plexin-A3.	0.551
I79_000669	Plxna4	G3GSQ1	G3HN93	Semaphorin-5B.	Plexin-A4.	0.446
I79_003408	Sema4f	G3GZW0	G3I7U4	Slit-like 1 protein.	Semaphorin-4F; Belongs to the semaphorin family.	0.557
I79_008405	I79_010136	G3HD31	G3HHN2	Tyrosine-protein kinase RYK.	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family.	0.729
I79_008405	Wnt5a	G3HD31	G3GUT6	Tyrosine-protein kinase RYK.	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family.	0.773
I79_010136	I79_008405	G3HHN2	G3HD31	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family.	Tyrosine-protein kinase RYK.	0.729
I79_010136	I79_018312	G3HHN2	G3I4D5	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family.	Tyrosine-protein kinase RYK.	0.729
I79_010136	Wnt5a	G3HHN2	G3GUT6	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family.	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family.	0.434
I79_011934	I79_011935	G3HMH1	G3HMH2	Semaphorin-6D.	Semaphorin-6D; Belongs to the semaphorin family.	0.915
I79_011934	I79_012231	G3HMH1	G3HN94	Semaphorin-6D.	Plexin-A4.	0.541