Support Vector Machine GPCR Subfamily Classification Results for NP_057624

>NP_057624 MVPHLLLLCLLPLVRATEPHEGRADEQSAEAALAVPNASHFFSWNNYTFSDWQNFVGRRRYGAESQNPTV KALLIVAYSFIIVFSLFGNVLVCHVIFKNQRMHSATSLFIVNLAVADIMITLLNTPFTLVRFVNSTWIFG KGMCHVSRFAQYCSLHVSALTLTAIAVDRHQVIMHPLKPRISITKGVIYIAVIWTMATFFSLPHAICQKL FTFKYSEDIVRSLCLPDFPEPADLFWKYLDLATFILLYILPLLIISVAYARVAKKLWLCNMIGDVTTEQY FALRRKKKKTIKMLMLVVVLFALCWFPLNCYVLLLSSKVIRTNNALYFAFHWFAMSSTCYNPFIYCWLNE NFRIELKALLSMCQRPPKPQEDGQPSPVPSFRVAWTEKNDGQRAPLANNLLPTSQLQSGKTDLSSVEPIV TMS



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.

1.0735983 Peptide GPCRDB Peptide
  0.44295785 Neuropeptide Y GPCRDB Neuropeptide Y
   0.7721996 Neuropeptide Y other GPCRDB Neuropeptide Y other
  -1.034144Neuropeptide Y type 2
  -1.0960791Neuropeptide Y type 5
  -1.1834464Neuropeptide Y type 1
  -1.2273167Neuropeptide Y type 4
  -1.2607504Neuropeptide Y / peptide YY
  -1.274903Neuropeptide Y type 6
 -0.5700655Tachykinin
 -0.9079838Galanin
 -0.97631305Orexin & neuropeptide FF
 -1.0171279CCK
 -1.0329278Neuromedin U
 -1.0381618Endothelin
 -1.0598879Bombesin
 -1.119986Thrombin
 -1.1270372Urotensin II
 -1.137325Melanocortin
 -1.1728055GPR37 / endothelin B-like
 -1.1793778Fmet-leu-phe
 -1.1908234Angiotensin
 -1.2156062Interleukin-8
 -1.2325304Adrenomedullin (G10D)
 -1.2365767Proteinase activated
 -1.2411807Vasopressin-like
 -1.2596409Chemokine receptor-like
 -1.276403Neurotensin
 -1.2791578APJ like
 -1.3167775C5a anaphylatoxin
 -1.3293759Opioid
 -1.3361758Somatostatin
 -1.3585764Bradykinin
 -1.4063795Chemokine
-0.9277363Olfactory
-0.93686634Gonadotropin-releasing hormone
-0.9881851Class A Orphan/other
-1.0120167Thyrotropin-releasing hormone & Secretagogue
-1.0209459(Rhod)opsin
-1.0366691Melatonin
-1.0741029Prostanoid
-1.0796279Hormone protein
-1.0841229Cannabis
-1.1977313Platelet activating factor
-1.2252885Nucleotide-like
-1.2726895Lysosphingolipid & LPA (EDG)
-1.2906044Viral
-2.0706549Amine




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 19 Class B Secretin like and 11 Class C Metabotropic glutamate / pheromone and 2 Class D Fungal pheromone and 5 Frizzled/Smoothened family and 4 Nematode chemoreceptors and 4 Vomeronasal receptors (V1R & V3R) and 81 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" Bioinformatics 2002 in press [postscript, pdf]