Support Vector Machine GPCR Subfamily Classification Results for Affy.ctg12482-000001.0.0

>Affy.ctg12482-000001.0.0 MEEPGAQCAPPPPAGSETWVPQANLSSAPSQNCSAKDYIYQDSISLPWKVLLVMLLALIT LATTLSNAFVIATVYRTRKLHTPANYLIASLAVTDLLVSILVMPISTMYTVTGRWTLGQV VCDFWLSSDITCCTASILHLCVIALDRYWAITDAVEYSAKRTPKRAAVMIALVWVFSISI SLPPFFWRQAKAEEEVSECVVNTDHILYTVYSTVGAFYFPTLLLIALYGRIYVEARSRIL KQTPNRTGKRLTRAQLITDSPGSTSSVTSINSRVPDVPSESGSPVYVNQVKVRVSDALLE KKKLMAARERKATKTLGIILGAFIVCWLPFFIISLVMPICKDACWFHLAIFDFFTWLGYL NSLINPIIYTMSNEDFKQAFHKLIRFKCTS



Here is a list of Class A Rhodopsin like subfamilies with support vector machine models and the score this sequence received with respect to each model.

1.0188714 Amine GPCRDB Amine
  1.0716689 Serotonin GPCRDB Serotonin
   1.1439462 Serotonin Vertebrate type 1 GPCRDB Serotonin Vertebrate type 1
  -0.93731976 Serotonin Other
  -0.955737 Serotonin Vertebrate type 5
  -0.97822666 Serotonin Vertebrate type 2
  -0.9875003 Serotonin Insect type 2
  -1.0050465 Serotonin Vertebrate type 7
  -1.0374308 Serotonin Vertebrate type 6
  -1.134714 Serotonin Vertebrate type 4
  -1.1607151 Serotonin Insect type 1
 -0.93837Acetylcholine (muscarinic)
 -0.96460557Adrenoceptors
 -0.9790562Histamine
 -1.0367172Dopamine
 -1.1572273Octopamine
-1.0057354Class A Orphan/other
-1.0154581Gonadotropin-releasing hormone
-1.0812263Prostanoid
-1.1002631Peptide
-1.1012154Thyrotropin-releasing hormone & Secretagogue
-1.1078901Hormone protein
-1.1176203Melatonin
-1.1184531Cannabis
-1.1401753Lysosphingolipid & LPA (EDG)
-1.1536396(Rhod)opsin
-1.2112601Viral
-1.2456783Olfactory
-1.3156599Nucleotide-like
-1.320294Platelet activating factor


View all predicted Class A Rhodopsin like peptides

HOW TO INTERPRET THE SCORES:

Subfamily Scoring:

The support vector machine for each subfamily is trained to score positive examples (members of the subfamily) as 1.0 and negative examples (non-members) as -1.0

If this sequence receives a negative score with respect to a subfamily, it is probably not a member of the subfamily.

If this sequence receives a positive score with respect to a subfamily, it is probably in the subfamily.

In general, the score's distance from zero gives you the confidence level of the prediction. Positive scores greater than +1.0 mean a classifier has strongly accepted your sequence. Negative scores less than -1.0 mean a classifier has strongly rejected your sequence. For a more detailed evaluation of scores and confidence levels, take a look at Classification Statistics.
SOME ADDITIONAL INFORMATION:

There were 17 Class B Secretin like and 11 Class C Metabotropic glutamate / pheromone and 2 Class D Fungal pheromone and 5 Frizzled/Smoothened family and 77 Class A Rhodopsin like subfamilies whose classifiers were not run, because the families or subfamilies that contain them were rejected by classifiers higher in the hierarchy. For example, if the Amine receptor classifier scores this sequence negatively, it will not be checked with respect to the subfamilies of Amine receptors (Histamine, Serotonin, Dopamine, Octopamine and Acetylcholine (muscarinic) receptors).

Not all subfamilies have models yet. This sequence may be in a subfamily that has not yet been modeled.

Please cite: R. Karchin, K. Karplus and D. Haussler "Classifying G-Protein Coupled Receptors with Support Vector Machines" http://www.cse.ucsc.edu/research/compbio/gpcr-subclass [postscript, pdf]