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
PP_5221
Conserved protein of unknown function, UPF0178 family; Homologs of previously reported genes of unknown function; Unknown function; Belongs to the UPF0178 family. (162 aa)
Predicted Functional Partners:
cyaA
Adenylate cyclase; Function experimentally demonstrated in the studied strain; enzyme.
0.535
Your Current Organism:
Pseudomonas putida KT2440
NCBI taxonomy Id: 160488 Other names: P. putida KT2440, Pseudomonas putida (strain KT2440), Pseudomonas putida str. KT2440
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
PP_5221
cyaA
PP_5221
PP_5222
Conserved protein of unknown function, UPF0178 family; Homologs of previously reported genes of unknown function; Unknown function; Belongs to the UPF0178 family.
Adenylate cyclase; Function experimentally demonstrated in the studied strain; enzyme.
0.535
cyaA
PP_5221
PP_5222
PP_5221
Adenylate cyclase; Function experimentally demonstrated in the studied strain; enzyme.
Conserved protein of unknown function, UPF0178 family; Homologs of previously reported genes of unknown function; Unknown function; Belongs to the UPF0178 family.
0.535
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: