(12 nodes) Negative regulation of stem cell differentiation network (Taeniopygia guttata)

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:
	TBX3	T-box transcription factor TBX3. (731 aa)
	NFE2L2	Nuclear factor, erythroid 2 like 2. (623 aa)
	NELFB-2	Negative elongation factor complex member B. (577 aa)
	CDK13	Cyclin dependent kinase 13. (1462 aa)
	CDK12	Protein kinase domain-containing protein. (1454 aa)
	NELFB	Negative elongation factor complex member B. (577 aa)
	JAG1	Delta-like protein; Putative Notch ligand involved in the mediation of Notch signaling. (1216 aa)
	TBX2	TBX domain-containing protein. (653 aa)
	HSPA9	Heat shock protein family A (Hsp70) member 9; Belongs to the heat shock protein 70 family. (670 aa)
	REST	RE1 silencing transcription factor. (893 aa)
	BBS12	Bardet-Biedl syndrome 12. (703 aa)
	N4BP2L2	Uncharacterized protein. (1304 aa)

Your Current Organism:

Taeniopygia guttata

NCBI taxonomy Id: 59729
Other names: Poephila guttata, T. guttata, Taenopygia guttata, zebra finch

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
CDK12	NELFB	ENSTGUP00000002283	ENSTGUP00000002886	Protein kinase domain-containing protein.	Negative elongation factor complex member B.	0.531
CDK12	NELFB-2	ENSTGUP00000002283	ENSTGUP00000037253	Protein kinase domain-containing protein.	Negative elongation factor complex member B.	0.531
CDK13	NELFB	ENSTGUP00000001909	ENSTGUP00000002886	Cyclin dependent kinase 13.	Negative elongation factor complex member B.	0.531
CDK13	NELFB-2	ENSTGUP00000001909	ENSTGUP00000037253	Cyclin dependent kinase 13.	Negative elongation factor complex member B.	0.531
NELFB	CDK12	ENSTGUP00000002886	ENSTGUP00000002283	Negative elongation factor complex member B.	Protein kinase domain-containing protein.	0.531
NELFB	CDK13	ENSTGUP00000002886	ENSTGUP00000001909	Negative elongation factor complex member B.	Cyclin dependent kinase 13.	0.531
NELFB-2	CDK12	ENSTGUP00000037253	ENSTGUP00000002283	Negative elongation factor complex member B.	Protein kinase domain-containing protein.	0.531
NELFB-2	CDK13	ENSTGUP00000037253	ENSTGUP00000001909	Negative elongation factor complex member B.	Cyclin dependent kinase 13.	0.531