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
yeaJ
Similar to Escherichia coli K12 conserved hypothetical protein gi: 1788086 (557 aa). BLAST with identity of 99% in 359 aa. This CDS has been truncated. The sequence has been checked and is believed to be correct. (100 aa)
Predicted Functional Partners:
SF1440
IS600 ORF2; Code: L; COG: COG2801.
0.659
Your Current Organism:
Shigella flexneri
NCBI taxonomy Id: 198214 Other names: S. flexneri 2a str. 301, Shigella flexneri 2a str. 301, Shigella flexneri serotype 2a str. 301
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
SF1440
yeaJ
SF1440
SF1439
IS600 ORF2; Code: L; COG: COG2801.
Similar to Escherichia coli K12 conserved hypothetical protein gi: 1788086 (557 aa). BLAST with identity of 99% in 359 aa. This CDS has been truncated. The sequence has been checked and is believed to be correct.
0.659
yeaJ
SF1440
SF1439
SF1440
Similar to Escherichia coli K12 conserved hypothetical protein gi: 1788086 (557 aa). BLAST with identity of 99% in 359 aa. This CDS has been truncated. The sequence has been checked and is believed to be correct.
IS600 ORF2; Code: L; COG: COG2801.
0.659
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: