(24 nodes) Negative regulation of endocytosis network (Oryzias latipes)

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:
	ankrd13b	Ankyrin repeat domain 13B. (644 aa)
	wdr54	WD repeat domain 54. (336 aa)
	LOC101161201	Galectin. (373 aa)
	LOC101167654	Zgc:91999. (387 aa)
	LOC101162800	VPS9 domain-containing protein. (1038 aa)
	lrrtm2	Leucine rich repeat transmembrane neuronal 2. (547 aa)
	pacsin2	Protein kinase C and casein kinase substrate in neurons 2. (500 aa)
	ENSORLP00000045591	Caveolin; May act as a scaffolding protein within caveolar membranes. Interacts directly with G-protein alpha subunits and can functionally regulate their activity; Belongs to the caveolin family. (130 aa)
	lrsam1	Leucine rich repeat and sterile alpha motif containing 1. (734 aa)
	neu3	Sialidase 3a. (410 aa)
	LOC101174364	RAB guanine nucleotide exchange factor (GEF) 1, like. (501 aa)
	lrrtm1	Leucine rich repeat transmembrane neuronal 1. (525 aa)
	lrpap1	Low density lipoprotein receptor-related protein associated protein 1. (476 aa)
	pacsin3	Protein kinase C and casein kinase substrate in neurons 3. (442 aa)
	unc119	Unc-119 lipid binding chaperone. (204 aa)
	ankrd13d	Ankyrin repeat domain 13 family, member D. (637 aa)
	LOC101168567	RAB guanine nucleotide exchange factor (GEF) 1. (495 aa)
	LOC101159552	Galectin. (314 aa)
	atxn2	Ataxin 2. (1011 aa)
	nr1h3	Nuclear receptor subfamily 1, group H, member 3. (462 aa)
	pcsk9	Proprotein convertase subtilisin/kexin type 9; Belongs to the peptidase S8 family. (642 aa)
	LOC101165059	Si:ch211-51c14.1. (413 aa)
	LOC101157313	GMP_PDE_delta domain-containing protein. (249 aa)
	ankrd13a	Ankyrin repeat domain 13A. (595 aa)

Your Current Organism:

Oryzias latipes

NCBI taxonomy Id: 8090
Other names: Japanese medaka, Japanese rice fish, O. latipes, Poecilia latipes, medaka

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
LOC101162800	LOC101168567	ENSORLP00000027569	ENSORLP00000017697	VPS9 domain-containing protein.	RAB guanine nucleotide exchange factor (GEF) 1.	0.648
LOC101162800	LOC101174364	ENSORLP00000027569	ENSORLP00000026278	VPS9 domain-containing protein.	RAB guanine nucleotide exchange factor (GEF) 1, like.	0.648
LOC101168567	LOC101162800	ENSORLP00000017697	ENSORLP00000027569	RAB guanine nucleotide exchange factor (GEF) 1.	VPS9 domain-containing protein.	0.648
LOC101168567	LOC101174364	ENSORLP00000017697	ENSORLP00000026278	RAB guanine nucleotide exchange factor (GEF) 1.	RAB guanine nucleotide exchange factor (GEF) 1, like.	0.590
LOC101174364	LOC101162800	ENSORLP00000026278	ENSORLP00000027569	RAB guanine nucleotide exchange factor (GEF) 1, like.	VPS9 domain-containing protein.	0.648
LOC101174364	LOC101168567	ENSORLP00000026278	ENSORLP00000017697	RAB guanine nucleotide exchange factor (GEF) 1, like.	RAB guanine nucleotide exchange factor (GEF) 1.	0.590