cleverClassifier

Analysis output

Information about the dataset:
Dataset title: hartl III VS solubility
Dataset filename: hartl.III.fasta
Reference dataset: link
Generated: 2014-01-14 16:07:55.403418
Classifier used: RF

Classification
?

60.0% of your submitted dataset was classified as negative (N).

The strength is the test set fraction that can be assigned.
Redundancy analysis did not find significant overlap with training data.

Test set signal enrichment (vs. random data) ≤ 0.1.

Scale combinations
?

Reference dataset result (Positive vs. Negative)

0
1
2
3
4
5
0.0
Positive set
Negative set
1.0
1
Number of combined properties
Combined coverage

Positive vs. X

0
1
2
3
4
5
0.0
Positive set
Negative set
1.0
1
Number of combined properties
Combined coverage

Combination statistics
?


HINT: Click the table rows to show more information about the combination
TPR
?
 FPR
?
 ACC
?
 SPC
?
 PPV
?
 NPV
?
 FDR
?
 MCC
?
Totals - 1 scale(s) combination0.430.620.430.380.900.050.10-0.098
Propensity to be buried inside, Wertz-Scheraga, Macromolecules 1978, 11:9-15-0.430.620.430.380.900.050.10-0.098
Totals - 2 scale(s) combination0.680.420.670.580.950.130.050.143
Propensity to be buried inside, Wertz-Scheraga, Macromolecules 1978, 11:9-15-0.430.620.430.380.900.050.10-0.098
Information measure for alpha-helix, Robson-Suzuki, J. Mol. Biol. 1976, 107:327-356+0.410.720.400.280.880.040.12-0.161
Totals - 3 scale(s) combination0.770.400.760.600.960.180.040.227
Knowledge-based membrane-propensity scale from 3D_Helix in MPtopo databases, Punta-Maritan, Proteins 2003, 50:114-121+0.310.800.300.200.820.020.18-0.276
Mean area buried on transfer, Rose et al., Science 1985, 229:834-838-0.420.700.410.300.880.040.12-0.150
Normalized frequency of alpha-helix, Burgess et al, Isr.J.Chem. 1974, 12:239-286+0.420.690.410.310.880.040.12-0.144
Totals - 4 scale(s) combination0.890.320.880.680.970.340.030.420
Averaged turn propensities in a transmembrane helix, Monne et al., J. Mol. Biol. 1999, 293:807-814+0.340.840.320.160.830.020.17-0.274
Mean area buried on transfer, Rose et al., Science 1985, 229:834-838-0.420.700.410.300.880.040.12-0.150
Membrane-buried preference parameters, Argos et al., Eur. J. Biochem. 1982, 128:565-575-0.410.790.400.210.860.030.14-0.202
Normalized frequency of alpha-helix, Burgess et al, Isr.J.Chem. 1974, 12:239-286+0.420.690.410.310.880.040.12-0.144
Totals - 5 scale(s) combination0.930.220.920.780.980.460.020.559
Averaged turn propensities in a transmembrane helix, Monne et al., J. Mol. Biol. 1999, 293:807-814+0.340.840.320.160.830.020.17-0.274
Average flexibility indices, Bhaskaran-Ponnuswamy, Int. J. Peptide Protein Res. 1988, 32:241-255+0.400.700.390.300.870.040.13-0.163
Average volume of buried residue, Chothia, Nature 1975, 254:304-308-0.340.700.340.300.850.040.15-0.200
Membrane-buried preference parameters, Argos et al., Eur. J. Biochem. 1982, 128:565-575-0.410.790.400.210.860.030.14-0.202
Normalized frequency of alpha-helix, Burgess et al, Isr.J.Chem. 1974, 12:239-286+0.420.690.410.310.880.040.12-0.144

Score browser
?

Protein ID Classification
(strength) 		Averaged turn propensities in a transmembrane helix, Monne et al., J. Mol. Biol. 1999, 293:807-814Average flexibility indices, Bhaskaran-Ponnuswamy, Int. J. Peptide Protein Res. 1988, 32:241-255Average volume of buried residue, Chothia, Nature 1975, 254:304-308Membrane-buried preference parameters, Argos et al., Eur. J. Biochem. 1982, 128:565-575Normalized frequency of alpha-helix, Burgess et al, Isr.J.Chem. 1974, 12:239-286
++--+reference sign
YBAK_ECOLIP (100%)0,00,10,20,30,4
HLPA_ECOLIP (100%)1,01,11,21,31,4
SSRP_ECOLIP (95%)2,02,12,22,32,4
RSD_ECOLIP (70%)3,03,13,23,33,4
UBIC_ECOLIN (55%)4,04,14,24,34,4
YQAB_ECOLIN (60%)5,05,15,25,35,4
YCFP_ECOLIN (80%)6,06,16,26,36,4
RFBC_ECOLIN (95%)7,07,17,27,37,4
RIMJ_ECOLIN (100%)8,08,18,28,38,4
YQJI_ECOLIP (100%)9,09,19,29,39,4
CRP_ECOLIN (80%)10,010,110,210,310,4
FTSE_ECOLIN (100%)11,011,111,211,311,4
GCH1_ECOLIN (65%)12,012,112,212,312,4
TRMB_ECOLIN (80%)13,013,113,213,313,4
FUCR_ECOLIN (75%)14,014,114,214,314,4
PFLA_ECOLIN (55%)15,015,115,215,315,4
TRMD_ECOLIN (85%)16,016,116,216,316,4
GLCC_ECOLIN (70%)17,017,117,217,317,4
SUHB_ECOLIP (65%)18,018,118,218,318,4
YCFH_ECOLIP (100%)19,019,119,219,319,4
YAFD_ECOLIN (100%)20,020,120,220,320,4
GATY_ECOLIP (75%)21,021,121,221,321,4
DAPA_ECOLIP/N (50%)22,022,122,222,322,4
AMIA_ECOLIP (95%)23,023,123,223,323,4
END4_ECOLIP (80%)24,024,124,224,324,4
YPT1_ECOLIP (100%)25,025,125,225,325,4
YNEB_ECOLIN (100%)26,026,126,226,326,4
NANA_ECOLIN (90%)27,027,127,227,327,4
YHBJ_ECOLIN (65%)28,028,128,228,328,4
METF_ECOLIN (90%)29,029,129,229,329,4
ARAC_ECOLIN (100%)30,030,130,230,330,4
ICIA_ECOLIN (90%)31,031,131,231,331,4
DUSC_ECOLIN (100%)32,032,132,232,332,4
HEM2_ECOLIP (80%)33,033,133,233,333,4
DUSB_ECOLIN (90%)34,034,134,234,334,4
RLUC_ECOLIP (95%)35,035,135,235,335,4
LIPA_ECOLIN (65%)36,036,136,236,336,4
ADD_ECOLIP (100%)37,037,137,237,337,4
YAJO_ECOLIP (95%)38,038,138,238,338,4
LTAE_ECOLIN (90%)39,039,139,239,339,4
NAGZ_ECOLIN (55%)40,040,140,240,340,4
YFIF_ECOLIP (90%)41,041,141,241,341,4
ALF1_ECOLIN (100%)42,042,142,242,342,4
YBJS_ECOLIN (100%)43,043,143,243,343,4
ALR2_ECOLIN (100%)44,044,144,244,344,4
YJJU_ECOLIN (100%)45,045,145,245,345,4
DHAS_ECOLIN (100%)46,046,146,246,346,4
HIS7_ECOLIN (90%)47,047,147,247,347,4
PHOL_ECOLIP (95%)48,048,148,248,348,4
DNAJ_ECOLIP (90%)49,049,149,249,349,4
BIOF_ECOLIN (95%)50,050,150,250,350,4
METK_ECOLIP (100%)51,051,151,251,351,4
TRMA_ECOLIN (80%)52,052,152,252,352,4
RSMD_ECOLIN (95%)53,053,153,253,353,4
ARGE_ECOLIP (70%)54,054,154,254,354,4
LLDD_ECOLIN (100%)55,055,155,255,355,4
FABF_ECOLIP (70%)56,056,156,256,356,4
PHEA_ECOLIN (100%)57,057,157,257,357,4
THIH_ECOLIN (100%)58,058,158,258,358,4
INTS_ECOLIN (60%)59,059,159,259,359,4
YFBQ_ECOLIN (100%)60,060,160,260,360,4
RSPA_ECOLIN (100%)61,061,161,261,361,4
GATZ_ECOLIN (100%)62,062,162,262,362,4
TYPH_ECOLIP (65%)63,063,163,263,363,4
DADA_ECOLIN (100%)64,064,164,264,364,4
PMBA_ECOLIP (75%)65,065,165,265,365,4
EUTB_ECOLIP (55%)66,066,166,266,366,4
XYLA_ECOLIN (70%)67,067,167,267,367,4
RHLE_ECOLIP (100%)68,068,168,268,368,4
PEPQ_ECOLIN (95%)69,069,169,269,369,4
TLDD_ECOLIP (95%)70,070,170,270,370,4
UXAC_ECOLIN (85%)71,071,171,271,371,4
AMPA_ECOLIN (100%)72,072,172,272,372,4
ARAA_ECOLIN (100%)73,073,173,273,373,4
ALDB_ECOLIN (100%)74,074,174,274,374,4
DHSA_ECOLIP (65%)75,075,175,275,375,4
FRDA_ECOLIP (65%)76,076,176,276,376,4
DEAD_ECOLIP (90%)77,077,177,277,377,4
YCBY_ECOLIN (100%)78,078,178,278,378,4
PARC_ECOLIP (65%)79,079,179,279,379,4
PHSM_ECOLIN (80%)80,080,180,280,380,4
NOTE: As a new feature, the input set has also been separated based on the individual assignment. You can download sequences closer to the positive set here and to the negative set here.
Turn help OFF