Support Vector Machine GPCR Subfamily Classification Results for Q9JI36

>Q9JI36|Q9JI36 MERAPPDGLM NASGALAGEA AAAAGGARTF SAAWTAVLAA LMALLIVATV LGNALVMLAF VADSSLRTQN NFFLLNLAIS DFLVGVFCIP LYVPYVLTGR WTFGRGLCKL WLVVDYLLCT SSVFNIVLIS YDRFLSVTRA VSYRAQQGDT RRAVRKMVLV WVLAFLLYGP AILSWEYLSG GSSIPEGHCY AEFFYNWYFL ITASTLEFFT PFLSVTFFNL SIYLNIQRRT RLRLDGGARE AGPDPLPEAQ SSPPQPPPGC WGCWPKGQGE SMPLHRYGVG EAGPGAEAGE AALGGGSGAA ASPTSSSGSS SRGTERPRSL KRGSKPSASS ASLEKRMKMV SQSITQRFRL SRDKKVAKSL AIIVSIFGLC WAPYTLLMII RAACHGHCVP DYWYETSFWL LWANSAVNPV LYPLCHYSFR RAFTKLLCPQ KLKVQPHSSL EHCWK


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.

0.04668262 Amine GPCRDB Amine
 -0.37600636Serotonin
 -0.7585578Acetylcholine (muscarinic)
 -1.0912921Histamine
 -1.1994597Adrenoceptors
 -1.222348Dopamine
 -1.3418944Octopamine
-0.5415409Class A Orphan/other
 GP40 like
 BONZO
 GPR
 ORPH
 RDC1
 Mas proto-oncogene
 SREB
 yet even more Class A Orphans
 Adrenomedullin (G10D)
 Chemokine receptor-like 2
 GPR37 like (peptide receptor)
-1.0033813Gonadotropin-releasing hormone
-1.1019347Hormone protein
-1.1028298Viral
-1.1090425Thyrotropin-releasing hormone & Secretagogue
-1.1093055Melatonin
-1.1566111Prostanoid
-1.2177281Cannabis
-1.2478821(Rhod)opsin
-1.2666285Lysosphingolipid & LPA (EDG)
-1.2988812Nucleotide-like
-1.3049667Platelet activating factor
-1.3459494Peptide
-1.3929324Olfactory


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 86 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]