Automated, unsupervised textmining - searching for proteins that are frequently mentioned together.
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Fusion
Genes that are sometimes fused into single open reading frames.
STRING allows inspection of the interaction evidence for any given network. Choose any of the viewers above (disabled if not applicable in your network).
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:
Neighborhood
Gene Fusion
Cooccurrence
Coexpression
Experiments
Databases
Textmining
[Homology]
Score
PRU_1737
Peptidase, M42 (glutamyl aminopeptidase) family; Identified by similarity to PIR:JC5634; match to protein family HMM PF01546; match to protein family HMM PF02127; match to protein family HMM PF05343. (348 aa)
Predicted Functional Partners:
PRU_1739
Putative Fe-S oxidoreductase; Identified by match to protein family HMM PF04055.
0.438
Your Current Organism:
Prevotella ruminicola
NCBI taxonomy Id: 264731 Other names: P. ruminicola 23, Prevotella ruminicola 23, Prevotella ruminicola Bryant 23, Prevotella ruminicola str. 23, Prevotella ruminicola strain 23
a tab-delimited file containing all known functional terms of protiens in your network
Browse interactions in tabular form:
node1
node2
node1 annotation
node2 annotation
score
PRU_1737
PRU_1739
Peptidase, M42 (glutamyl aminopeptidase) family; Identified by similarity to PIR:JC5634; match to protein family HMM PF01546; match to protein family HMM PF02127; match to protein family HMM PF05343.
Putative Fe-S oxidoreductase; Identified by match to protein family HMM PF04055.
0.438
PRU_1739
PRU_1737
Putative Fe-S oxidoreductase; Identified by match to protein family HMM PF04055.
Peptidase, M42 (glutamyl aminopeptidase) family; Identified by similarity to PIR:JC5634; match to protein family HMM PF01546; match to protein family HMM PF02127; match to protein family HMM PF05343.
0.438
Network Stats
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Functional enrichments in your networkNote: some enrichments may be expected here (why?) disable highlightexplain columns
Enrichment analysis is still ongoing, please wait ...
Statistical background
For the above enrichment analysis, the following statistical background is assumed: