(62 nodes) Mesenchymal cell migration network (Mus caroli)

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:
	Sema5b	Semaphorin-5B. (1093 aa)
	Efnb1	Ephrin-B1 isoform X1. (345 aa)
	Sema3f	Semaphorin-3F isoform X1. (785 aa)
	Sema3b	Semaphorin-3B. (172 aa)
	Tpbg	Trophoblast glycoprotein. (426 aa)
	Sema7a	Semaphorin-7A. (664 aa)
	Nrp1	Neuropilin-1 isoform X1. (923 aa)
	Ednra	Endothelin receptor type A. (427 aa)
	Hand2	Heart- and neural crest derivatives-expressed protein 2. (217 aa)
	Fgf15	Fibroblast growth factor 19. (218 aa)
	Folr1	Folate receptor alpha. (255 aa)
	Sema4b	Semaphorin-4B. (824 aa)
	MGP_CAROLIEiJ_P0075713	annotation not available (1024 aa)
	Sema4f	Semaphorin-4F isoform X1. (777 aa)
	Smo	Smoothened homolog. (793 aa)
	Radil	Ras-associating and dilute domain-containing protein. (1099 aa)
	Coro1c	Coronin-1B/1C/6. (474 aa)
	Phox2b	Paired mesoderm homeobox protein 2B. (314 aa)
	Shh	Sonic hedgehog protein isoform X1. (438 aa)
	Sema3c	Semaphorin-3C. (752 aa)
	Sema3e	Semaphorin-3E. (775 aa)
	Sema3a	Semaphorin-3A. (772 aa)
	Sema3d	Semaphorin-3D. (777 aa)
	Cdc42	Cell division control protein 42 homolog isoform X1. (191 aa)
	Phactr4	Phosphatase and actin regulator 4. (681 aa)
	Pitx2	Paired-like homeodomain transcription factor 2. (324 aa)
	Sema6c	Semaphorin-6C isoform X1. (932 aa)
	Sema4a	Semaphorin-4A. (760 aa)
	Lama5	Laminin subunit alpha-5. (3264 aa)
	Edn3	Endothelin-3. (214 aa)
	Ovol2	Transcription factor Ovo-like 2 isoform X1. (274 aa)
	Sema6d	Semaphorin-6D isoform X1. (1069 aa)
	Pax6	Paired box protein Pax-6 isoform X1. (436 aa)
	Acvr1	Activin receptor type-1. (509 aa)
	Zeb2	Zinc finger E-box-binding homeobox 2. (1259 aa)
	Cfl1	Cofilin-1. (166 aa)
	Sema6a	Semaphorin-6A isoform X1. (1048 aa)
	Cdh2	Cadherin 2, type 1, N-cadherin. (906 aa)
	Nrtn	Neurturin isoform X1. (195 aa)
	Sema6b	Semaphorin-6B isoform X1. (886 aa)
	Sox8	Transcription factor SOX7/8/10/18 (SOX group E/F). (464 aa)
	Tbx1	T-box transcription factor TBX1 isoform X1. (488 aa)
	Sox10	Transcription factor SOX7/8/10/18 (SOX group E/F). (466 aa)
	Sema5a	Semaphorin-5A. (1074 aa)
	Gdnf	Glial cell line-derived neurotrophic factor isoform X1. (240 aa)
	Ednrb	Endothelin receptor type B. (442 aa)
	Sema3g	Semaphorin-3G isoform X1. (780 aa)
	Isl1	Insulin gene enhancer protein ISL-1 isoform X1. (349 aa)
	Sema4d	Semaphorin-4D isoform X1. (859 aa)
	Edn1	Endothelin-1. (202 aa)
	Hif1a	Hypoxia-inducible factor 1-alpha isoform X1. (839 aa)
	Twist1	Twist-related protein 1. (206 aa)
	Anxa6	Annexin A6 isoform X1. (673 aa)
	Alx1	Cartilage homeoprotein 1. (326 aa)
	Kitl	Kit ligand isoform X1. (273 aa)
	Gbx2	Homeobox protein GBX-2 isoform X1. (348 aa)
	Htr2b	5-hydroxytryptamine receptor 2B. (479 aa)
	Pax3	Paired box protein Pax-3 isoform X1. (484 aa)
	Fn1	Fibronectin 1. (2477 aa)
	Erbb4	Receptor tyrosine-protein kinase erbB-4 isoform X1. (1308 aa)
	Nrp2	Neuropilin-2 isoform X1. (931 aa)
	Sema4c	Semaphorin-4C. (834 aa)

Your Current Organism:

Mus caroli

NCBI taxonomy Id: 10089
Other names: M. caroli, Mus formosanus, Ryukyu mouse, ricefield mouse

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
Cdc42	Cdh2	MGP_CAROLIEiJ_P0065296	MGP_CAROLIEiJ_P0046112	Cell division control protein 42 homolog isoform X1.	Cadherin 2, type 1, N-cadherin.	0.752
Cdc42	Cfl1	MGP_CAROLIEiJ_P0065296	MGP_CAROLIEiJ_P0047634	Cell division control protein 42 homolog isoform X1.	Cofilin-1.	0.757
Cdc42	Edn1	MGP_CAROLIEiJ_P0065296	MGP_CAROLIEiJ_P0034179	Cell division control protein 42 homolog isoform X1.	Endothelin-1.	0.429
Cdc42	Efnb1	MGP_CAROLIEiJ_P0065296	MGP_CAROLIEiJ_P0092226	Cell division control protein 42 homolog isoform X1.	Ephrin-B1 isoform X1.	0.455
Cdc42	Erbb4	MGP_CAROLIEiJ_P0065296	MGP_CAROLIEiJ_P0018141	Cell division control protein 42 homolog isoform X1.	Receptor tyrosine-protein kinase erbB-4 isoform X1.	0.473
Cdc42	Sema3a	MGP_CAROLIEiJ_P0065296	MGP_CAROLIEiJ_P0066714	Cell division control protein 42 homolog isoform X1.	Semaphorin-3A.	0.401
Cdh2	Cdc42	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0065296	Cadherin 2, type 1, N-cadherin.	Cell division control protein 42 homolog isoform X1.	0.752
Cdh2	Fgf15	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0083558	Cadherin 2, type 1, N-cadherin.	Fibroblast growth factor 19.	0.703
Cdh2	Fn1	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0018183	Cadherin 2, type 1, N-cadherin.	Fibronectin 1.	0.428
Cdh2	Hif1a	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0032540	Cadherin 2, type 1, N-cadherin.	Hypoxia-inducible factor 1-alpha isoform X1.	0.558
Cdh2	Lama5	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0056592	Cadherin 2, type 1, N-cadherin.	Laminin subunit alpha-5.	0.436
Cdh2	Nrp1	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0086608	Cadherin 2, type 1, N-cadherin.	Neuropilin-1 isoform X1.	0.414
Cdh2	Pax6	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0053507	Cadherin 2, type 1, N-cadherin.	Paired box protein Pax-6 isoform X1.	0.420
Cdh2	Sema3a	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0066714	Cadherin 2, type 1, N-cadherin.	Semaphorin-3A.	0.450
Cdh2	Shh	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0067069	Cadherin 2, type 1, N-cadherin.	Sonic hedgehog protein isoform X1.	0.463
Cdh2	Twist1	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0032133	Cadherin 2, type 1, N-cadherin.	Twist-related protein 1.	0.705
Cdh2	Zeb2	MGP_CAROLIEiJ_P0046112	MGP_CAROLIEiJ_P0051651	Cadherin 2, type 1, N-cadherin.	Zinc finger E-box-binding homeobox 2.	0.670
Cfl1	Cdc42	MGP_CAROLIEiJ_P0047634	MGP_CAROLIEiJ_P0065296	Cofilin-1.	Cell division control protein 42 homolog isoform X1.	0.757
Edn1	Cdc42	MGP_CAROLIEiJ_P0034179	MGP_CAROLIEiJ_P0065296	Endothelin-1.	Cell division control protein 42 homolog isoform X1.	0.429
Edn1	Edn3	MGP_CAROLIEiJ_P0034179	MGP_CAROLIEiJ_P0056538	Endothelin-1.	Endothelin-3.	0.962