(10 nodes) Apical cortex network (Caenorhabditis remanei)

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:
	CRE_21568	Uncharacterized protein. (172 aa)
	Cre-mtm-1	CRE-MTM-1 protein. (592 aa)
	CRE_21567	Uncharacterized protein. (192 aa)
	Cre-exc-5	CRE-EXC-5 protein. (829 aa)
	Cre-rab-8	CRE-RAB-8 protein. (211 aa)
	CRE_04734	Par3_HAL_N_term domain-containing protein. (114 aa)
	Cre-par-3	CRE-PAR-3 protein. (1301 aa)
	Cre-let-767	CRE-LET-767 protein; Belongs to the short-chain dehydrogenases/reductases (SDR) family. (328 aa)
	Cre-insc-1	CRE-INSC-1 protein. (649 aa)
	Cre-erm-1	CRE-ERM-1 protein. (562 aa)

Your Current Organism:

Caenorhabditis remanei

NCBI taxonomy Id: 31234
Other names: C. remanei, Caenorhabditis vulgaris

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TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

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structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

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node degree of proteins in your network (given the current score cut-off)

... network coordinates:

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a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

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MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

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a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

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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
CRE_04734	Cre-erm-1	E3LYY9	E3LMK9	Par3_HAL_N_term domain-containing protein.	CRE-ERM-1 protein.	0.725
CRE_04734	Cre-insc-1	E3LYY9	E3LQD5	Par3_HAL_N_term domain-containing protein.	CRE-INSC-1 protein.	0.592
Cre-erm-1	CRE_04734	E3LMK9	E3LYY9	CRE-ERM-1 protein.	Par3_HAL_N_term domain-containing protein.	0.725
Cre-erm-1	Cre-par-3	E3LMK9	E3LYY8	CRE-ERM-1 protein.	CRE-PAR-3 protein.	0.725
Cre-insc-1	CRE_04734	E3LQD5	E3LYY9	CRE-INSC-1 protein.	Par3_HAL_N_term domain-containing protein.	0.592
Cre-insc-1	Cre-mtm-1	E3LQD5	E3NKD1	CRE-INSC-1 protein.	CRE-MTM-1 protein.	0.704
Cre-insc-1	Cre-par-3	E3LQD5	E3LYY8	CRE-INSC-1 protein.	CRE-PAR-3 protein.	0.592
Cre-mtm-1	Cre-insc-1	E3NKD1	E3LQD5	CRE-MTM-1 protein.	CRE-INSC-1 protein.	0.704
Cre-par-3	Cre-erm-1	E3LYY8	E3LMK9	CRE-PAR-3 protein.	CRE-ERM-1 protein.	0.725
Cre-par-3	Cre-insc-1	E3LYY8	E3LQD5	CRE-PAR-3 protein.	CRE-INSC-1 protein.	0.592