Support Vector Machine GPCR Subfamily Classification Results for gi|4557861|ref|NP_001042.1|

>gi|4557861|ref|NP_001042.1| somatostatin receptor 3 [Homo sapiens] MDMLHPSSVSTTSEPENASSAWPPDATLGNVSAGPSPAGLAVSGVLIPLVYLVVCVVGLLGNSLVIYVVL RHTASPSVTNVYILNLALADELFMLGLPFLAAQNALSYWPFGSLMCRLVMAVDGINQFTSIFCLTVMSVD RYLAVVHPTRSARWRTAPVARTVSAAVWVASAVVVLPVVVFSGVPRGMSTCHMQWPEPAAAWRAGFIIYT AALGFFGPLLVICLCYLLIVVKVRSAGRRVWAPSCQRRRRSERRVTRMVVAVVALFVLCWMPFYVLNIVN VVCPLPEEPAFFGLYFLVVALPYANSCANPILYGFLSYRFKQGFRRVLLRPSRRVRSQEPTVGPPEKTEE EDEEEEDGEESREGGKGKEMNGRVSQITQPGTSGQERPPSRVASKEQQLLPQEASTGEKSSTMRISYL


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.

1.1050223 Peptide GPCRDB Peptide
  0.95464146 Somatostatin GPCRDB Somatostatin
   0.5489888 Somatostatin type 3 GPCRDB Somatostatin type 3
  -0.8284988 Somatostatin type 5
  -1.0098925 Somatostatin type 2
  -1.0795138 Somatostatin type 1
  -1.2835721 Somatostatin type 4
 -0.7763458Galanin
 -0.8672574Angiotensin
 -0.9435713Tachykinin
 -0.9655997Chemokine
 -0.96764624Neuropeptide Y
 -0.9758322Neuromedin U
 -1.0104837Fmet-leu-phe
 -1.0421667CCK
 -1.0442349APJ like
 -1.0454943C5a anaphylatoxin
 -1.0549475Urotensin II
 -1.0563161Thrombin
 -1.0595889Endothelin
 -1.0612051Opioid
 -1.095208Melanocortin
 -1.1133826Interleukin-8
 -1.1236795Adrenomedullin (G10D)
 -1.1238924Bombesin
 -1.1424944Bradykinin
 -1.1522228GPR37 / endothelin B-like
 -1.1840618Chemokine receptor-like
 -1.1985178Neurotensin
 -1.2040838Orexin & neuropeptide FF
 -1.2339556Proteinase activated
 -1.2614428Vasopressin-like
-0.85518765Nucleotide-like
-0.87276137Thyrotropin-releasing hormone & Secretagogue
-0.96589816Class A Orphan/other
-0.9676933Gonadotropin-releasing hormone
-0.99809Amine
-1.0199835Melatonin
-1.0234632Prostanoid
-1.0618116Hormone protein
-1.0955803Cannabis
-1.0996192Platelet activating factor
-1.1541613Viral
-1.197014(Rhod)opsin
-1.2165399Olfactory
-1.2721655Lysosphingolipid & LPA (EDG)




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 83 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]