(39 nodes) Regulation of phagocytosis 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:
	letmd1	LETM1 domain containing 1. (365 aa)
	appl2	Adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2. (666 aa)
	LOC101163907	Uncharacterized protein. (386 aa)
	gas6	Growth arrest-specific 6. (684 aa)
	tmem147	Transmembrane protein 147. (225 aa)
	LYAR	Ly1 antibody reactive. (394 aa)
	LOC101168652	Alpha-2-HS-glycoprotein 2. (397 aa)
	LOC101172593	Tumor necrosis factor a (TNF superfamily, member 2). (279 aa)
	LOC101164291	Uncharacterized protein. (354 aa)
	ano6	Anoctamin. (924 aa)
	LOC101165891	IL2RB_N1 domain-containing protein. (492 aa)
	atg5	Autophagy protein 5; Involved in autophagic vesicle formation. (275 aa)
	LOC101169721	Apolipoprotein A-Ib. (323 aa)
	appl1	Adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 1. (663 aa)
	H2MXS3_ORYLA	Uncharacterized protein. (339 aa)
	LOC101169011	Uncharacterized protein. (351 aa)
	H2MXW2_ORYLA	Uncharacterized protein. (345 aa)
	LOC101169508	Uncharacterized protein. (348 aa)
	LOC101157010	Uncharacterized protein. (323 aa)
	H2N266_ORYLA	Uncharacterized protein. (324 aa)
	LOC101164041	Uncharacterized protein. (354 aa)
	H2N269_ORYLA	Uncharacterized protein. (351 aa)
	LOC101164541	Uncharacterized protein. (354 aa)
	LOC101165792	Uncharacterized protein. (341 aa)
	nitr17	Uncharacterized protein. (341 aa)
	LOC101157252	Uncharacterized protein. (329 aa)
	ENSORLP00000027886	C-type lectin domain-containing protein. (224 aa)
	ptx3	Pentraxin 3, long b. (449 aa)
	LOC101166118	Synaptotagmin VIIb. (671 aa)
	ENSORLP00000034044	Interleukin; Belongs to the IL-15/IL-21 family. (168 aa)
	LOC101169108	Synaptotagmin VIIa. (742 aa)
	ptprc	Protein tyrosine phosphatase receptor type C. (1343 aa)
	LOC101170577	Cytochrome b-245 light chain; Critical component of the membrane-bound oxidase of phagocytes that generates superoxide. Associates with NOX3 to form a functional NADPH oxidase constitutively generating superoxide. (186 aa)
	ENSORLP00000036566	Uncharacterized protein. (323 aa)
	LOC101169209	Uncharacterized protein. (283 aa)
	ENSORLP00000037892	Uncharacterized protein. (275 aa)
	LOC101161189	Uncharacterized protein. (274 aa)
	LOC101161439	Uncharacterized protein. (272 aa)
	nitr2	Uncharacterized protein. (343 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
ENSORLP00000027886	ptx3	ENSORLP00000027886	ENSORLP00000030320	C-type lectin domain-containing protein.	Pentraxin 3, long b.	0.473
ENSORLP00000034044	LOC101165891	ENSORLP00000034044	ENSORLP00000016953	Interleukin; Belongs to the IL-15/IL-21 family.	IL2RB_N1 domain-containing protein.	0.979
ENSORLP00000034044	LOC101169209	ENSORLP00000034044	ENSORLP00000036862	Interleukin; Belongs to the IL-15/IL-21 family.	Uncharacterized protein.	0.569
ENSORLP00000034044	LOC101172593	ENSORLP00000034044	ENSORLP00000013121	Interleukin; Belongs to the IL-15/IL-21 family.	Tumor necrosis factor a (TNF superfamily, member 2).	0.588
LOC101161189	LOC101168652	ENSORLP00000042776	ENSORLP00000011437	Uncharacterized protein.	Alpha-2-HS-glycoprotein 2.	0.631
LOC101161189	LOC101169721	ENSORLP00000042776	ENSORLP00000019715	Uncharacterized protein.	Apolipoprotein A-Ib.	0.701
LOC101161439	LOC101168652	ENSORLP00000043682	ENSORLP00000011437	Uncharacterized protein.	Alpha-2-HS-glycoprotein 2.	0.631
LOC101161439	LOC101169721	ENSORLP00000043682	ENSORLP00000019715	Uncharacterized protein.	Apolipoprotein A-Ib.	0.717
LOC101165891	ENSORLP00000034044	ENSORLP00000016953	ENSORLP00000034044	IL2RB_N1 domain-containing protein.	Interleukin; Belongs to the IL-15/IL-21 family.	0.979
LOC101165891	ptprc	ENSORLP00000016953	ENSORLP00000035490	IL2RB_N1 domain-containing protein.	Protein tyrosine phosphatase receptor type C.	0.499
LOC101168652	LOC101161189	ENSORLP00000011437	ENSORLP00000042776	Alpha-2-HS-glycoprotein 2.	Uncharacterized protein.	0.631
LOC101168652	LOC101161439	ENSORLP00000011437	ENSORLP00000043682	Alpha-2-HS-glycoprotein 2.	Uncharacterized protein.	0.631
LOC101168652	LOC101169721	ENSORLP00000011437	ENSORLP00000019715	Alpha-2-HS-glycoprotein 2.	Apolipoprotein A-Ib.	0.608
LOC101169209	ENSORLP00000034044	ENSORLP00000036862	ENSORLP00000034044	Uncharacterized protein.	Interleukin; Belongs to the IL-15/IL-21 family.	0.569
LOC101169209	LOC101170577	ENSORLP00000036862	ENSORLP00000035573	Uncharacterized protein.	Cytochrome b-245 light chain; Critical component of the membrane-bound oxidase of phagocytes that generates superoxide. Associates with NOX3 to form a functional NADPH oxidase constitutively generating superoxide.	0.410
LOC101169209	LOC101172593	ENSORLP00000036862	ENSORLP00000013121	Uncharacterized protein.	Tumor necrosis factor a (TNF superfamily, member 2).	0.860
LOC101169209	ptprc	ENSORLP00000036862	ENSORLP00000035490	Uncharacterized protein.	Protein tyrosine phosphatase receptor type C.	0.463
LOC101169721	LOC101161189	ENSORLP00000019715	ENSORLP00000042776	Apolipoprotein A-Ib.	Uncharacterized protein.	0.701
LOC101169721	LOC101161439	ENSORLP00000019715	ENSORLP00000043682	Apolipoprotein A-Ib.	Uncharacterized protein.	0.717
LOC101169721	LOC101168652	ENSORLP00000019715	ENSORLP00000011437	Apolipoprotein A-Ib.	Alpha-2-HS-glycoprotein 2.	0.608