(11 nodes) Mixed, incl. Regulation of expression of SLITs and ROBOs, and Branching morphogenesis of a nerve 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-ceh-14	CRE-CEH-14 protein. (409 aa)
	CRE_00191	Homeobox domain-containing protein. (228 aa)
	Cre-hlh-3	CRE-HLH-3 protein. (168 aa)
	Cre-ldb-1	CRE-LDB-1 protein. (660 aa)
	Cre-alr-1	CRE-ALR-1 protein. (362 aa)
	Cre-hlh-10	CRE-HLH-10 protein. (211 aa)
	CRE_04073	LisH domain-containing protein. (461 aa)
	CRE_19959	Homeobox domain-containing protein. (261 aa)
	Cre-ttx-3	CRE-TTX-3 protein. (460 aa)
	Cre-lim-7	CRE-LIM-7 protein. (462 aa)
	med3	GATA transcription factor MED3. (192 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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
CRE_00191	CRE_04073	E3LDN5	E3MMS3	Homeobox domain-containing protein.	LisH domain-containing protein.	0.475
CRE_00191	Cre-alr-1	E3LDN5	E3M2P7	Homeobox domain-containing protein.	CRE-ALR-1 protein.	0.883
CRE_00191	Cre-ceh-14	E3LDN5	E3LCT8	Homeobox domain-containing protein.	CRE-CEH-14 protein.	0.805
CRE_00191	Cre-hlh-10	E3LDN5	E3MD89	Homeobox domain-containing protein.	CRE-HLH-10 protein.	0.725
CRE_00191	Cre-hlh-3	E3LDN5	E3LG64	Homeobox domain-containing protein.	CRE-HLH-3 protein.	0.672
CRE_00191	Cre-ldb-1	E3LDN5	E3M2M2	Homeobox domain-containing protein.	CRE-LDB-1 protein.	0.867
CRE_00191	med3	E3LDN5	Q2PZG9	Homeobox domain-containing protein.	GATA transcription factor MED3.	0.441
CRE_04073	CRE_00191	E3MMS3	E3LDN5	LisH domain-containing protein.	Homeobox domain-containing protein.	0.475
CRE_04073	CRE_19959	E3MMS3	E3N8D6	LisH domain-containing protein.	Homeobox domain-containing protein.	0.475
CRE_04073	Cre-alr-1	E3MMS3	E3M2P7	LisH domain-containing protein.	CRE-ALR-1 protein.	0.475
CRE_04073	Cre-ceh-14	E3MMS3	E3LCT8	LisH domain-containing protein.	CRE-CEH-14 protein.	0.864
CRE_04073	Cre-ldb-1	E3MMS3	E3M2M2	LisH domain-containing protein.	CRE-LDB-1 protein.	0.968
CRE_04073	Cre-lim-7	E3MMS3	E3NFD1	LisH domain-containing protein.	CRE-LIM-7 protein.	0.698
CRE_04073	Cre-ttx-3	E3MMS3	E3NAT2	LisH domain-containing protein.	CRE-TTX-3 protein.	0.753
CRE_19959	CRE_04073	E3N8D6	E3MMS3	Homeobox domain-containing protein.	LisH domain-containing protein.	0.475
CRE_19959	Cre-ceh-14	E3N8D6	E3LCT8	Homeobox domain-containing protein.	CRE-CEH-14 protein.	0.758
CRE_19959	Cre-hlh-10	E3N8D6	E3MD89	Homeobox domain-containing protein.	CRE-HLH-10 protein.	0.702
CRE_19959	Cre-hlh-3	E3N8D6	E3LG64	Homeobox domain-containing protein.	CRE-HLH-3 protein.	0.664
CRE_19959	Cre-ldb-1	E3N8D6	E3M2M2	Homeobox domain-containing protein.	CRE-LDB-1 protein.	0.867
CRE_19959	med3	E3N8D6	Q2PZG9	Homeobox domain-containing protein.	GATA transcription factor MED3.	0.441