Support Vector Machine GPCR Subfamily Classification Results for O88835

>O88835|O88835 MARGGLGAEE ASLRSNALSW LACGLLALLA NAWIILSISA KQQKHKPLEL LLCFLAGTHI LMAAVPLTTF AVVQLRRQAS SDYDWNESIC KVFVSTYYTL ALATCFTVAS LSYHRMWMVR WPVNYRLSNA KKQALHAVMG IWMVSFILST LPSIGWHNNG ERYYARGCQF IVSKIGLGFG VCFSLLLLGG IVMGLVCVAI TFYQTLWARP RRARQARRAG GSVGTKAGGL GGLGTRPAFE VPAIVVEDTR GKRRSSLDGS ESAKTSLQVT NLVSAIVFLY DSLTGVPILV VSFFSLKSDS APPWMVLAVL WCSMAQTLLL PSFIWSCERY RADVRTVWEQ CVAIMSEDDG DDDGTCDDYT DGRVCKIRFD ANGATGSGSR DPTQVKLLPG RHMLFPPLER VHYLQVPLSR RLSHDETNIF STPRAPGSFL HKWSSSDDIR ILPAQSRALG GPPEYLGQRH RLEDEEDEEE AEGGGLASLR QFLESGVLGS GGGPPRGPGF FREEITTFID ETPLPSPTAS PGPSPRRPRP LGFSPRRLSL GSPDSRAVGL PLGLSAGRRC SLTGSEGSSR AWGRPWGPGN PIFPQLTL


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.

-0.880337Class A Orphan/other
 -0.98547405Mas proto-oncogene
 -1.0301485yet even more Class A Orphans
 -1.1574079SREB
 -1.1827997GPR
 -1.2087592Chemokine receptor-like 2
 -1.2293665GPR37 like (peptide receptor)
 -1.247446GP40 like
 -1.264535ORPH
 -1.32088Adrenomedullin (G10D)
 -1.3220212RDC1
 -1.4088731BONZO
-0.96525Gonadotropin-releasing hormone
-1.0224344Viral
-1.0840166Hormone protein
-1.1151626Prostanoid
-1.1387368Nucleotide-like
-1.1587538Thyrotropin-releasing hormone & Secretagogue
-1.2488722Cannabis
-1.24925Amine
-1.2591758Melatonin
-1.3080845(Rhod)opsin
-1.3088411Olfactory
-1.3472893Platelet activating factor
-1.3824629Lysosphingolipid & LPA (EDG)
-1.4893517Peptide


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]