(7 nodes) (2021) Photoacoustic Neuroimaging - Perspectives on a Maturing Imaging Technique and its Applications in Neuroscience. network (Xenopus laevis)

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:
	casp3.2	Uncharacterized protein; Belongs to the peptidase C14A family. (288 aa)
	LOC100189571	Uncharacterized protein. (608 aa)
	glb1	Uncharacterized protein; Belongs to the glycosyl hydrolase 35 family. (642 aa)
	Glb1l2.S	Beta-galactosidase. (616 aa)
	glb1l2	Beta-galactosidase. (634 aa)
	Glb1l.L	Beta-galactosidase. (645 aa)
	Casp3.L	Uncharacterized protein; Belongs to the peptidase C14A family. (253 aa)

Your Current Organism:

Xenopus laevis

NCBI taxonomy Id: 8355
Other names: African clawed frog, Bufo laevis, X. laevis, clawed frog, common platanna, platanna

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
Casp3.L	LOC100189571	A0A1L8HU08	B7ZRX0	Uncharacterized protein; Belongs to the peptidase C14A family.	Uncharacterized protein.	0.757
Casp3.L	casp3.2	A0A1L8HU08	A0A1L8HLJ6	Uncharacterized protein; Belongs to the peptidase C14A family.	Uncharacterized protein; Belongs to the peptidase C14A family.	0.901
Glb1l.L	glb1	A0A1L8FWQ8	A0A1L8EVM8	Beta-galactosidase.	Uncharacterized protein; Belongs to the glycosyl hydrolase 35 family.	0.902
LOC100189571	Casp3.L	B7ZRX0	A0A1L8HU08	Uncharacterized protein.	Uncharacterized protein; Belongs to the peptidase C14A family.	0.757
LOC100189571	casp3.2	B7ZRX0	A0A1L8HLJ6	Uncharacterized protein.	Uncharacterized protein; Belongs to the peptidase C14A family.	0.758
casp3.2	Casp3.L	A0A1L8HLJ6	A0A1L8HU08	Uncharacterized protein; Belongs to the peptidase C14A family.	Uncharacterized protein; Belongs to the peptidase C14A family.	0.901
casp3.2	LOC100189571	A0A1L8HLJ6	B7ZRX0	Uncharacterized protein; Belongs to the peptidase C14A family.	Uncharacterized protein.	0.758
glb1	Glb1l.L	A0A1L8EVM8	A0A1L8FWQ8	Uncharacterized protein; Belongs to the glycosyl hydrolase 35 family.	Beta-galactosidase.	0.902