Support Vector Machine GPCR Subfamily Classification Results for O77269

>O77269|O77269 MSVYGCGEFS FSTNSAQERA TRLLPTTKCR AMFPPKSGPT PHPISIALPL SDPYATDHMA DQDAVLPVPL SDSLDLDVDV DLNLNMNLNL NVDDRRQVLF EGYSDELLTI AWVACIVFII VGVPGNLLTI VALSRGRQTR NSTAIFIINL SCSDLLFGCF NLPLAASTFK ERAWTHSDLL CRLFPMLRYG LLAVSLLSVS LITINRYIII AHPRQYPRIY QRRYLALMVA GTWITTFSIM IPTWRGVWGI FGLDVSIGSC SIMHDRYGRS PKEFLFIAAF MVPCICIVIC YARIFLLVRK AAIRAGTAGK TNVSDVTPSS APQHQIQAMA TPKKPEKVTT SSGEANEPIA GRPFVVEENL AYIDDNASTD SLPISYSIRR RDQDQQPPPV DANVVLKERE KERDRDQEKV SLGRSQTQLE MGKTHGKNPI TTSLRTTSFT RFSPRKSHYA SMGNTSNASS IYPGRMSAKD RRLLKMILVI FVWFVICYLP ITVAKIWKSA TEVHWFNIAG YLLIYLTTCI NPLIYVLMSS EYRRAYWNLL RCHGSPDTQK QRNQANAKRK HLESNRQVKA TT


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.

-0.583262Class A Orphan/other
 -0.8369617yet even more Class A Orphans
 -0.9987018Mas proto-oncogene
 -1.1326275SREB
 -1.1861475Chemokine receptor-like 2
 -1.191156GP40 like
 -1.2115488GPR37 like (peptide receptor)
 -1.2457236ORPH
 -1.2919859Adrenomedullin (G10D)
 -1.2997892RDC1
 -1.3857331BONZO
 -1.6644531GPR
-0.7752382Amine
-1.003463Gonadotropin-releasing hormone
-1.0538682Melatonin
-1.0755186Prostanoid
-1.094117Thyrotropin-releasing hormone & Secretagogue
-1.1080619Hormone protein
-1.1645291Viral
-1.2132368(Rhod)opsin
-1.2298393Cannabis
-1.3231572Platelet activating factor
-1.3286111Lysosphingolipid & LPA (EDG)
-1.3323518Olfactory
-1.3348225Nucleotide-like
-1.387332Peptide


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]