Support Vector Machine GPCR Subfamily Classification Results for O55040

>O55040|O55040 MVCNISEFKW PYQPEDLNLT DEALRLKYLG PQQMKQFVPI CVTYLLIFVV GTLGNGLTCT VILRNKTMRT PTNFYLFSLA VSDMLVLLVG LPLELYEMQQ NYPFQLGASA CYFRILLLET VCLASVLNVT ALSVERYVAV VRPLQAKSVM TRAHVRRMVG AIWVLATLFS LPNTSLHGLS QLTVPCRGPV PDSAICSLVG PMDFYKLVVL TTALLFFCLP MVTISVLYLL IGLRLRRERM LLQVEVKGRK TAATQETSHR RIQLQDRGRR QVTKMLFALV VVFGICWAPF HADRIMWSLV YGHSTEGLHL AYQCVHIASG IFFYLGSAAN PVLYSLMSTR FRETFLQALG LGTQCCHRRQ PYHGSHNHIR LTTGSTLCDV GHRNSRDEPL AVNEDPGCQQ ETDPS


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.

-0.3086964Peptide
-0.4522971Class A Orphan/other
 -0.9336703yet even more Class A Orphans
 -0.9880631Mas proto-oncogene
 -1.1063792SREB
 -1.1228865Chemokine receptor-like 2
 -1.1631248GPR37 like (peptide receptor)
 -1.1862247GP40 like
 -1.2018633Adrenomedullin (G10D)
 -1.2103716ORPH
 -1.211915RDC1
 -1.3696892BONZO
 -1.6391726GPR
-0.5719528Thyrotropin-releasing hormone & Secretagogue
-1.0095325Gonadotropin-releasing hormone
-1.035001Prostanoid
-1.0783284Melatonin
-1.1012962Hormone protein
-1.1208081(Rhod)opsin
-1.1466246Nucleotide-like
-1.1616342Amine
-1.1723286Viral
-1.1780682Cannabis
-1.2280718Olfactory
-1.264029Lysosphingolipid & LPA (EDG)
-1.2905431Platelet activating factor


HOW TO INTERPRET THE SCORES:

Subfamily Scoring:

This sequence does not appear to be in any of the subfamilies for which we have models



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 67 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]