GENETIC SEQUENCE BINARY FACTOR GROUPING ROUTINES

THE GENETIC SEQUENCE BINARY FACTOR GROUPING ROUTINES

The Genetic sequence binary factor grouping is a set of routines that computes V3 CEL scan data producing catalogue(s) of genetic sequence data , for the purpose of genetic analysis , generating large catalogues of genetic sequence famili
es of curves .

(above partial display of groups of curves extracted from prostate cancer datasets - prostate normal )

Primary patient AML cells sample data CEL files (above) permutation group marked as FGH chart ,
results from 15 probes (upper chart) , displaying charts of subgroups (subsequences) from AML3 (CL2002042639AA.CEL) and mono3 (DP2002050119AA.CEL).
Resulting gene descriptions and values from Cancer Program Datasets
were compared (using number scale derived from AML3 CL2002042639AA.CEL.CEL - upper rightmost chart) giving the following data :

results from sequence HGGGFG measured values from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct ,
column 3 (column AML3) ,
probe CL2002042639AA.CEL

leftmost number column (blue line) from upper picture - column 0 index values
rightmost number column - column 0 index to index differences count

n<= 00130 00028 00001 + 00027
n<= 00132 00051 00028 + 00023
n<= 00134 00062 00051 + 00011
n<= 00136 00074 00062 + 00012
n<= 00138 00106 00074 + 00032
n<= 00140 00124 00106 + 00018
n<= 00144 00144 00124 + 00020
n<= 00146 00155 00144 + 00011
n<= 00148 00164 00155 + 00009
n<= 00150 00174 00164 + 00010
n<= 00154 00186 00174 + 00012
n<= 00156 00200 00186 + 00014
n<= 00160 00220 00200 + 00020
n<= 00162 00231 00220 + 00011
n<= 00166 00239 00231 + 00008
n<= 00168 00248 00239 + 00009
n<= 00170 00259 00248 + 00011
n<= 00172 00264 00259 + 00005
n<= 00176 00271 00264 + 00007
n<= 00180 00273 00271 + 00002
n<= 00182 00280 00273 + 00007
n<= 00186 00285 00280 + 00005
n<= 00188 00287 00285 + 00002
n<= 00190 00300 00287 + 00013
n<= 00194 00306 00300 + 00006
n<= 00198 00314 00306 + 00008
n<= 00202 00319 00314 + 00005
n<= 00204 00321 00319 + 00002
n<= 00208 00323 00321 + 00002
n<= 00210 00328 00323 + 00005
n<= 00214 00330 00328 + 00002
n<= 00218 00334 00330 + 00004
n<= 00222 00336 00334 + 00002
n<= 00232 00337 00336 + 00001
n<= 00234 00338 00337 + 00001
n<= 00240 00339 00338 + 00001
n<= 00242 00342 00339 + 00003
n<= 00244 00344 00342 + 00002
n<= 00246 00345 00344 + 00001
n<= 00250 00348 00345 + 00003
n<= 00252 00349 00348 + 00001
n<= 00254 00353 00349 + 00004

CL2002042639AA.CEL input for mm57531d.cpp (mult_=8) output (xd.txt) row 130-254 ,
left column measured values number scale ,
right column merit factor number ,

number scale vs Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3) - matches :

00025.87500 00000.37500

220778_x_at gb:NM_020241.1 /DEF=Homo sapiens semaphorin Rs, short form (LOC56991), mRNA. /FEA=mRNA /GEN=LOC56991 /PROD=semaphorin Rs, short form /DB_XREF=gi:9910379 /UG=Hs.148932 semaphorin Rs, short form /FL=gb:AF216389.1 gb:NM_020241.1 25.83

(number scale value = 25.87 vs 25.83 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00026.00000 00000.12500
00026.25000 00000.25000
00026.50000 00000.25000
00026.62500 00000.12500
00026.87500 00000.25000
00027.00000 00000.12500
00027.25000 00000.25000
00027.37500 00000.12500
00027.75000 00000.37500

220716_at gb:NM_024994.1 /DEF=Homo sapiens hypothetical protein FLJ12595 (FLJ12595), mRNA. /FEA=mRNA /GEN=FLJ12595 /PROD=hypothetical protein FLJ12595 /DB_XREF=gi:13376499 /UG=Hs.287536 hypothetical protein FLJ12595 /FL=gb:NM_024994.1 27.71
220216_at gb:NM_019607.1 /DEF=Homo sapiens hypothetical protein FLJ11267 (FLJ11267), mRNA. /FEA=mRNA /GEN=FLJ11267 /PROD=hypothetical protein FLJ11267 /DB_XREF=gi:9624987 /UG=Hs.165741 hypothetical protein FLJ11267 /FL=gb:NM_019607.1 27.71

(number scale value = 27.75 vs 27.71 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00028.00000 00000.25000
00028.12500 00000.12500
00028.25000 00000.12500
00028.50000 00000.25000
00028.62500 00000.12500
00029.00000 00000.37500

220923_s_at gb:NM_013364.1 /DEF=Homo sapiens paraneoplastic cancer-testis-brain antigen (MA5), mRNA. /FEA=mRNA /GEN=MA5 /PROD=paraneoplastic cancer-testis-brain antigen /DB_XREF=gi:7019450 /UG=Hs.296436 paraneoplastic cancer-testis-brain antigen /FL=gb:AF083116.1 gb:26.877352.1 29.01
220997_s_at gb:NM_030932.1 /DEF=Homo sapiens diaphanous (Drosophila, homolog) 3 (DKFZP434C0931), mRNA. /FEA=mRNA /GEN=DKFZP434C0931 /PROD=diaphanous (Drosophila, homolog) 3 /DB_XREF=gi:13569894 /FL=gb:NM_030932.1 29.01
220544_at gb:NM_021733.1 /DEF=Homo sapiens testis-specific kinase substrate (TSKS), mRNA. /FEA=mRNA /GEN=TSKS /PROD=testis-specific kinase substrate /DB_XREF=gi:11119429 /UG=Hs.224210 testis-specific kinase substrate /FL=gb:NM_021733.1 29.01

(number scale value = 29.00 vs 29.01 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00029.12500 00000.12500
00029.37500 00000.25000
00029.75000 00000.37500
00029.87500 00000.12500

220963_s_at gb:NM_030907.1 /DEF=Homo sapiens hypothetical protein MGC10731 (MGC10731), mRNA. /FEA=mRNA /GEN=MGC10731 /PROD=hypothetical protein MGC10731 /DB_XREF=gi:13569861 /FL=gb:NM_030907.1 29.87

(number scale value = 29.87 vs 29.87 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00030.00000 00000.12500
00030.25000 00000.25000
00030.37500 00000.12500
00030.50000 00000.12500
00030.75000 00000.25000
00031.00000 00000.25000
00031.12500 00000.12500
00031.37500 00000.25000
00031.50000 00000.12500
00031.62500 00000.12500
00031.75000 00000.12500
00032.12500 00000.37500

221007_s_at gb:NM_030917.1 /DEF=Homo sapiens hypothetical protein DKFZp586K0717 (DKFZP586K0717), mRNA. /FEA=mRNA /GEN=DKFZP586K0717 /PROD=hypothetical protein DKFZp586K0717 /DB_XREF=gi:13569873 /FL=gb:NM_030917.1 32.18

(number scale value = 32.12 vs 32.18 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00032.37500 00000.25000
00032.50000 00000.12500
00032.62500 00000.12500
00032.75000 00000.12500
00032.87500 00000.12500
00033.12500 00000.25000
00033.37500 00000.25000
00033.62500 00000.25000
00033.75000 00000.12500
00033.87500 00000.12500
00034.12500 00000.25000
00034.25000 00000.12500
00034.37500 00000.12500
00034.50000 00000.12500
00034.62500 00000.12500
00034.87500 00000.25000
00035.37500 00000.50000

220194_at gb:NM_024677.1 /DEF=Homo sapiens hypothetical protein FLJ14001 (FLJ14001), mRNA. /FEA=mRNA /GEN=FLJ14001 /PROD=hypothetical protein FLJ14001 /DB_XREF=gi:13375943 /UG=Hs.87164 hypothetical protein FLJ14001 /FL=gb:NM_024677.1 35.36

(number scale value = 35.37 vs 35.36 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00035.62500 00000.25000
00035.75000 00000.12500
00035.87500 00000.12500
00036.00000 00000.12500
00036.25000 00000.25000
00036.37500 00000.12500
00036.62500 00000.25000
00036.75000 00000.12500
00037.00000 00000.25000
00037.12500 00000.12500
00037.25000 00000.12500
00037.62500 00000.37500

220284_at gb:NM_014419.1 /DEF=Homo sapiens soggy-1 gene (SGY-1), mRNA. /FEA=mRNA /GEN=SGY-1 /PROD=soggy-1 gene /DB_XREF=gi:7657553 /UG=Hs.124021 soggy-1 gene /FL=gb:AF177398.1 gb:NM_014419.1 37.67

(number scale value = 37.62 vs 37.67 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00037.75000 00000.12500
00037.87500 00000.12500
00038.12500 00000.25000
00038.25000 00000.12500
00038.50000 00000.25000
00038.62500 00000.12500
00038.75000 00000.12500
00039.00000 00000.25000
00039.12500 00000.12500
00039.37500 00000.25000
00039.62500 00000.25000
00039.75000 00000.12500
00039.87500 00000.12500
00040.12500 00000.25000
00040.25000 00000.12500
00040.50000 00000.25000
00040.62500 00000.12500
00040.75000 00000.12500
00041.00000 00000.25000
00041.12500 00000.12500
00041.37500 00000.25000
00041.50000 00000.12500
00041.62500 00000.12500
00041.75000 00000.12500
00041.87500 00000.12500
00042.00000 00000.12500
00042.12500 00000.12500
00042.25000 00000.12500
00042.62500 00000.37500
00042.75000 00000.12500

220378_at gb:NM_018679.1 /DEF=Homo sapiens t-complex 11 (a murine tcp homolog) (TCP11), mRNA. /FEA=mRNA /GEN=TCP11 /PROD=t-complex 11 (a murine tcp homolog) /DB_XREF=gi:8924255 /UG=Hs.128322 t-complex 11 (a murine tcp homolog) /FL=gb:AF269223.1 gb:NM_018679.1 42.72
220651_s_at gb:NM_018518.1 /DEF=Homo sapiens homolog of yeast MCM10; hypothetical protein PRO2249 (PRO2249), mRNA. /FEA=mRNA /GEN=PRO2249 /PROD=homolog of yeast MCM10; hypothetical proteinPRO2249 /DB_XREF=gi:8924142 /UG=Hs.198363 homolog of yeast MCM10; hypothetical 129.1045PRO2249 /FL=gb:AB042719.1 gb:BC004876.1 gb:AF119869.1 gb:NM_018518.1 42.72

(number scale value = 42.75 vs 42.72 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00043.00000 00000.25000
00043.25000 00000.25000
00043.37500 00000.12500
00043.62500 00000.25000
00043.75000 00000.12500
00043.87500 00000.12500
00044.00000 00000.12500
00044.25000 00000.25000
00044.37500 00000.12500
00044.50000 00000.12500
00044.62500 00000.12500
00044.75000 00000.12500
00045.00000 00000.25000
00045.12500 00000.12500
00045.75000 00000.62500

220541_at gb:NM_021801.2 /DEF=Homo sapiens matrix metalloproteinase 26 (MMP26), mRNA. /FEA=mRNA /GEN=MMP26 /PROD=matrix metalloproteinase 26 preproprotein /DB_XREF=gi:13027810 /UG=Hs.204732 matrix metalloproteinase 26 /FL=gb:NM_021801.2 gb:AF230354.1 gb:AF248646.1 g30.2952824.1 45.75

(number scale value = 45.75 vs 45.75 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00046.12500 00000.37500
00046.37500 00000.25000

220433_at gb:NM_024082.1 /DEF=Homo sapiens transmembrane gamma-carboxyglutamic acid protein 3 (TMG3), mRNA. /FEA=mRNA /GEN=TMG3 /PROD=transmembrane gamma-carboxyglutamic acid protein3 /DB_XREF=gi:13129075 /UG=Hs.209253 transmembrane gamma-carboxyglutamic acid prote18.643251gb:AF326350.1 gb:NM_024082.1 46.32

(number scale value = 46.37 vs 46.32 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00046.50000 00000.12500
00046.62500 00000.12500
00046.75000 00000.12500
00046.87500 00000.12500
00047.50000 00000.62500
00047.62500 00000.12500

220892_s_at gb:NM_021154.1 /DEF=Homo sapiens phosphoserine aminotransferase (PSA), mRNA. /FEA=mRNA /GEN=PSA /PROD=phosphoserine aminotransferase /DB_XREF=gi:10863954 /UG=Hs.286049 phosphoserine aminotransferase /FL=gb:NM_021154.1 gb:AF113132.1 47.62

(number scale value = 47.62 vs 47.62 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00047.75000 00000.12500
00048.00000 00000.25000
00048.12500 00000.12500
00048.37500 00000.25000
00048.50000 00000.12500
00048.62500 00000.12500
00048.75000 00000.12500
00049.12500 00000.37500
00049.50000 00000.37500

220660_at gb:NM_021208.1 /DEF=Homo sapiens EST-YD1 protein (EST-YD1), mRNA. /FEA=mRNA /GEN=EST-YD1 /PROD=EST-YD1 protein /DB_XREF=gi:10864018 /UG=Hs.23367 EST-YD1 protein /FL=gb:NM_021208.1 gb:AB021923.1 49.5

(number scale value = 49.50 vs 49.5 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00049.62500 00000.12500

results from sequence HGGGFG measured values from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct ,
column 3 (column AML3) ,
probe CL2002042639AA.CEL

leftmost number column (red line) from upper picture - column 1 index values
rightmost number column - column 1 index to index differences count

n<= 00066 00025 00000 + 00025
n<= 00070 00063 00025 + 00038
n<= 00072 00084 00063 + 00021
n<= 00076 00107 00084 + 00023
n<= 00078 00155 00107 + 00048
n<= 00082 00177 00155 + 00022
n<= 00086 00205 00177 + 00028
n<= 00090 00216 00205 + 00011
n<= 00092 00241 00216 + 00025
n<= 00098 00269 00241 + 00028
n<= 00100 00282 00269 + 00013
n<= 00104 00297 00282 + 00015
n<= 00106 00304 00297 + 00007
n<= 00108 00312 00304 + 00008
n<= 00110 00321 00312 + 00009
n<= 00114 00325 00321 + 00004
n<= 00116 00333 00325 + 00008
n<= 00120 00337 00333 + 00004
n<= 00122 00339 00337 + 00002
n<= 00124 00348 00339 + 00009
n<= 00126 00354 00348 + 00006

CL2002042639AA.CEL input for mm57531d.cpp (mult_=8) output (xd.txt) row 66 - 126 ,
left column measured values number scale ,
right column merit factor number ,

number scale vs Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3) - matches :

00012.62500 00000.25000
00012.87500 00000.25000
00013.12500 00000.25000
00013.25000 00000.12500
00013.75000 00000.50000
00013.87500 00000.12500

220722_s_at gb:NM_021815.1 /DEF=Homo sapiens solute carrier family 5 (choline transporter), member 7 (SLC5A7), mRNA. /FEA=mRNA /GEN=SLC5A7 /PROD=solute carrier family 5 (choline transporter),member 7 /DB_XREF=gi:11141884 /UG=Hs.287758 solute carrier family 5 (choline14.75924rter), member 7 /FL=gb:AF276871.1 gb:NM_021815.1 gb:AB043997.1 13.85

(number scale value = 13.87 vs 13.85 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00014.00000 00000.12500
00014.25000 00000.25000
00014.50000 00000.25000
00014.62500 00000.12500
00014.87500 00000.25000
00015.00000 00000.12500
00015.12500 00000.12500
00015.75000 00000.62500
00015.87500 00000.12500

220620_at gb:NM_019060.1 /DEF=Homo sapiens NICE-1 protein (NICE-1), mRNA. /FEA=mRNA /GEN=NICE-1 /PROD=NICE-1 protein /DB_XREF=gi:9506922 /UG=Hs.110196 NICE-1 protein /FL=gb:NM_019060.1 15.87
221051_s_at gb:NM_014446.1 /DEF=Homo sapiens muscle-specific beta 1 integrin binding protein (MIBP), mRNA. /FEA=mRNA /GEN=MIBP /PROD=muscle-specific beta 1 integrin binding protein /DB_XREF=gi:7657330 /UG=Hs.135458 muscle-specific beta 1 integrin binding protein /FL=28.43095619.1 gb:NM_014446.1 15.87

(number scale value = 15.87 vs 15.87 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00016.12500 00000.25000
00016.25000 00000.12500
00016.37500 00000.12500
00016.62500 00000.25000
00016.75000 00000.12500
00017.12500 00000.37500

221068_at gb:NM_017616.1 /DEF=Homo sapiens hypothetical protein FLJ20004 (FLJ20004), mRNA. /FEA=mRNA /GEN=FLJ20004 /PROD=hypothetical protein FLJ20004 /DB_XREF=gi:8923010 /UG=Hs.17311 hypothetical protein FLJ20004 /FL=gb:NM_017616.1 17.17
221186_at gb:NM_025116.1 /DEF=Homo sapiens hypothetical protein FLJ12781 (FLJ12781), mRNA. /FEA=mRNA /GEN=FLJ12781 /PROD=hypothetical protein FLJ12781 /DB_XREF=gi:13376692 /UG=Hs.288726 hypothetical protein FLJ12781 /FL=gb:NM_025116.1 17.17

(number scale value = 17.12 vs 17.17 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00017.25000 00000.12500
00017.37500 00000.12500
00017.62500 00000.25000
00017.87500 00000.25000
00018.12500 00000.25000
00018.25000 00000.12500
00018.62500 00000.37500

220393_at gb:NM_016571.1 /DEF=Homo sapiens lengsin (LGS), mRNA. /FEA=mRNA /GEN=LGS /PROD=lengsin /DB_XREF=gi:7705581 /UG=Hs.149585 lengsin /FL=gb:AF242388.1 gb:NM_016571.1 18.62

(number scale value = 18.62 vs 18.62 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00018.75000 00000.12500
00018.87500 00000.12500
00019.12500 00000.25000
00019.25000 00000.12500
00019.62500 00000.37500

220641_at gb:NM_024505.1 /DEF=Homo sapiens NADPH oxidase, EF hand calcium-binding domain 5 (NOX5), mRNA. /FEA=mRNA /GEN=NOX5 /PROD=NADPH oxidase, EF hand calcium-binding domain 5 /DB_XREF=gi:13375637 /UG=Hs.160199 NADPH oxidase, EF hand calcium-binding domain 5 /FL99.275314889.1 gb:NM_024505.1 19.63
220767_at gb:NM_018619.1 /DEF=Homo sapiens hypothetical protein PRO2133 (PRO2133), mRNA. /FEA=mRNA /GEN=PRO2133 /PROD=hypothetical protein PRO2133 /DB_XREF=gi:8924121 /UG=Hs.128564 hypothetical protein PRO2133 /FL=gb:AF116688.1 gb:NM_018619.1 19.63

(number scale value = 19.62 vs 19.63 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00019.87500 00000.25000
00020.00000 00000.12500
00020.25000 00000.25000
00020.37500 00000.12500
00020.62500 00000.25000
00020.87500 00000.25000
00021.12500 00000.25000
00021.25000 00000.12500
00021.37500 00000.12500
00021.75000 00000.37500

220879_at gb:NM_018600.1 /DEF=Homo sapiens hypothetical protein PRO1438 (PRO1438), mRNA. /FEA=mRNA /GEN=PRO1438 /PROD=hypothetical protein PRO1438 /DB_XREF=gi:8924039 /UG=Hs.283061 hypothetical protein PRO1438 /FL=gb:AF116661.1 gb:NM_018600.1 21.79

(number scale value = 21.75 vs 21.79 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00021.87500 00000.12500
00022.00000 00000.12500
00022.12500 00000.12500
00022.37500 00000.25000
00022.50000 00000.12500
00022.62500 00000.12500
00022.87500 00000.25000
00023.00000 00000.12500
00023.12500 00000.12500
00023.50000 00000.37500

220510_at gb:NM_020407.1 /DEF=Homo sapiens Rh type B glycoprotein (RHBG), mRNA. /FEA=mRNA /GEN=RHBG /PROD=Rh type B glycoprotein /DB_XREF=gi:9966890 /UG=Hs.131835 Rh type B glycoprotein /FL=gb:AF193807.1 gb:NM_020407.1 23.52
220711_at gb:NM_024978.1 /DEF=Homo sapiens hypothetical protein FLJ12121 (FLJ12121), mRNA. /FEA=mRNA /GEN=FLJ12121 /PROD=hypothetical protein FLJ12121 /DB_XREF=gi:13376479 /UG=Hs.287487 hypothetical protein FLJ12121 /FL=gb:NM_024978.1 23.52
220774_at gb:NM_017653.1 /DEF=Homo sapiens hypothetical protein FLJ20071 (FLJ20071), mRNA. /FEA=mRNA /GEN=FLJ20071 /PROD=hypothetical protein FLJ20071 /DB_XREF=gi:8923078 /UG=Hs.14328 hypothetical protein FLJ20071 /FL=gb:NM_017653.1 23.52
220945_x_at gb:NM_018050.1 /DEF=Homo sapiens hypothetical protein FLJ10298 (FLJ10298), mRNA. /FEA=mRNA /GEN=FLJ10298 /PROD=hypothetical protein FLJ10298 /DB_XREF=gi:8922334 /UG=Hs.5999 hypothetical protein FLJ10298 /FL=gb:NM_018050.1 23.52

(number scale value = 23.50 vs 23.52 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00023.62500 00000.12500
00023.75000 00000.12500
00023.87500 00000.12500
00024.00000 00000.12500
00024.12500 00000.12500
00024.75000 00000.62500
00024.87500 00000.12500

220880_at gb:NM_018601.1 /DEF=Homo sapiens hypothetical protein PRO1446 (PRO1446), mRNA. /FEA=mRNA /GEN=PRO1446 /PROD=hypothetical protein PRO1446 /DB_XREF=gi:8924041 /UG=Hs.283062 hypothetical protein PRO1446 /FL=gb:AF116662.1 gb:NM_018601.1 24.82

(number scale value = 24.87 vs 24.82 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

results from sequence HGGGFG measured values from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct ,
column 4 ,
probe CL2002042639AA.CEL

leftmost number column (brown line) from upper picture - column 4 index values
rightmost number column - column 4 index to index differences count

n<= 00034 00002 00000 + 00002
n<= 00038 00004 00002 + 00002
n<= 00040 00006 00004 + 00002
n<= 00044 00009 00006 + 00003
n<= 00046 00019 00009 + 00010
n<= 00050 00046 00019 + 00027
n<= 00052 00110 00046 + 00064
n<= 00056 00198 00110 + 00088
n<= 00060 00314 00198 + 00116

CL2002042639AA.CEL input for mm57531d.cpp (mult_=8) output (xd.txt) row 34 - 60 ,
left column measured values number scale ,
right column merit factor number ,

number scale vs Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3) - matches :

00006.12500 00000.25000
00006.25000 00000.12500
00006.50000 00000.25000
00006.62500 00000.12500
00006.75000 00000.12500
00007.00000 00000.25000
00007.12500 00000.12500
00007.37500 00000.25000
00007.62500 00000.25000
00007.75000 00000.12500
00007.87500 00000.12500
00008.12500 00000.25000
00008.25000 00000.12500
00008.37500 00000.12500
00008.62500 00000.25000
00008.75000 00000.12500
00008.87500 00000.12500
00009.12500 00000.25000
00009.25000 00000.12500
00009.62500 00000.37500

220628_s_at gb:NM_019064.1 /DEF=Homo sapiens hypothetical protein (FLJ10832), mRNA. /FEA=mRNA /GEN=FLJ10832 /PROD=hypothetical protein /DB_XREF=gi:9506620 /UG=Hs.125490 hypothetical protein /FL=gb:NM_019064.1 9.67

(number scale value = 9.62 vs 9.67 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00009.87500 00000.25000
00010.12500 00000.25000
00010.25000 00000.12500
00010.62500 00000.37500

220898_at gb:NM_024972.1 /DEF=Homo sapiens hypothetical protein FLJ11736 (FLJ11736), mRNA. /FEA=mRNA /GEN=FLJ11736 /PROD=hypothetical protein FLJ11736 /DB_XREF=gi:13376469 /UG=Hs.287448 hypothetical protein FLJ11736 /FL=gb:NM_024972.1 10.68

(number scale value = 10.62 vs 10.68 value from Myeloid_Screen1_newData_021203_ams.AML_poly_mono.gct (column AML3))

00010.75000 00000.12500
00010.87500 00000.12500

Genes were referenced by scan measured values number serie merits (M.J.E. Golay (1902-1989) from The Merit Factor Problem by Jedwab at http://www.math.sfu.ca/~jed/Research/merit.html ).

Chart from b16_d_4_binary_factor_merits_CL2002042639AA.ods
column A contains number scale , sorted column B contains numbers merits as computed from CL2002042639AA.CEL .
Merit factor values computed with b16d_4.cpp from CL2002042639AA.CEL (above listed results) .

Merit factor scale computed from CL2001011105AA.CEL (ALL_4 reference in leukemia.res) from ALL_scans dataset ,
lower - frequences of permutation group FG and chart of permutation GFFFFF from ALL_4 (CL2001011105AA.CEL) .
Bellow results compared to leukemia.res , column A (chart light blue line) .

column A

00150.00000 00004.35670
00152.00000 00005.06011
00154.00000 00004.32408
00156.00000 00004.94807
00158.00000 00005.46043
00160.00000 00004.98563
00162.00000 00005.10222
00164.00000 00004.90302
00166.00000 00004.66848
00168.00000 00004.50788
00170.00000 00004.89424
00172.00000 00004.97611
00174.00000 00005.65514

32158_at Hs.240457 gnl|UG|Hs#S572224 Human cell cycle checkpoint control protein mRNA, complete cds 173
40353_at Hs.71969 gnl|UG|Hs#S1569854 Homo sapiens mRNA; cDNA DKFZp564P0823 (from clone DKFZp564P0823) 173
35259_s_at Hs.51957 gnl|UG|Hs#S592241 H.sapiens mRNA for novel member of serine-arginine domain protein, SRrp129 173
289_at Hs.142258 gnl|UG|Hs#S2509 Homo sapiens DNA-binding protein (APRF) mRNA, complete cds 173
485_at U59748 /FEATURE= /DEFINITION=HSU59748 Human desert hedgehog (hDHH) mRNA, partial cds 173
35004_at Hs.272499 gnl|UG|Hs#S270483 Human Hep27 protein mRNA, complete cds 173
1459_at Hs.73826 gnl|UG|Hs#S1496 Human protein-tyrosine phosphatase mRNA, complete cds 173
37837_at Hs.131915 gnl|UG|Hs#S1367623 Homo sapiens mRNA for KIAA0863 protein, complete cds 173

00176.00000 00005.53218
00178.00000 00005.27172
00180.00000 00005.18047
00182.00000 00004.58817
00184.00000 00004.71484
00186.00000 00004.53801
00188.00000 00005.20400
00190.00000 00004.95733
00192.00000 00006.30261

1354_at Hs.47860 gnl|UG|Hs#S640 Human tyrosine kinase receptor p145TRK-B (TRK-B) mRNA, complete cds 191
514_at Hs.3144 gnl|UG|Hs#S5789 Human cbl-b mRNA, complete cds 191
36260_at Hs.26968 gnl|UG|Hs#S998330 Homo sapiens mRNA from chromosome 5q21-22, clone:357Ex 191
37380_at Hs.258561 gnl|UG|Hs#S5493 Human mRNA for general transcription factor IIB 191
37111_g_at Hs.274364 gnl|UG|Hs#S998461 Homo sapiens gene for fructose-6-phosphate,2-kinase 191
475_at Hs.85088 gnl|UG|Hs#S376182 Homo sapiens RIP protein kinase mRNA, complete cds 191

00194.00000 00007.68891
00196.00000 00004.92079
00198.00000 00006.61439

39156_at Hs.250675 gnl|UG|Hs#S1368014 Human DNA sequence from clone RP1-149A16 on chromosome 22 Contains an IGLC (Immunoglobulin Lambda Chain C) pseudogene, the RFPL3 gene for Ret finger protein-like 3, the RFPL3S gene for Ret finger protein-like 3 antisense, the 124.3for a 198
36005_at Hs.43543 gnl|UG|Hs#S1264018 Homo sapiens suppressor of white apricot homolog 2 (SWAP2) mRNA, complete cds 198
38677_at Hs.106369 gnl|UG|Hs#S382 Human microsomal stress 70 protein ATPase core (stch) mRNA, complete cds 198

00200.00000 00004.11536
00202.00000 00004.36696
00204.00000 00005.04476
00206.00000 00005.33753
00208.00000 00004.54722
00210.00000 00004.26884
00212.00000 00005.71285

1390_s_at Hs.37023 gnl|UG|Hs#S268999 Human growth hormone-releasing factor (GRF) gene, exon 1 ( 211
40119_at Hs.155481 gnl|UG|Hs#S1263230 Homo sapiens mRNA for cartilage-associated protein (CASP) 211
36204_at Hs.75216 gnl|UG|Hs#S3985 Human mRNA for LCA-homolog. LAR protein (leukocyte antigen related) 211
37643_at Hs.82359 gnl|UG|Hs#S4426 H.sapiens mRNA for APO-1 cell surface antigen 211
2033_s_at Hs.75188 gnl|UG|Hs#S3649 Human CDK tyrosine 15-kinase WEE1Hu (Wee1Hu) mRNA, complete cds 211
37372_at Hs.77813 gnl|UG|Hs#S552553 Homo sapiens acid sphingomyelinase (SMPD1) gene, complete cds, ORF's 1-3, complete cds's 211

00214.00000 00004.69675
00216.00000 00004.33650
00218.00000 00004.03270
00220.00000 00004.09355
00222.00000 00004.66154
00224.00000 00005.25906
00226.00000 00005.12396
00228.00000 00006.35767

36252_at Hs.25537 gnl|UG|Hs#S305450 Human cardiotrophin-1 (CTF1) mRNA, complete cds 227
1859_s_at Hs.170027 gnl|UG|Hs#S226254 Human mdm2-E (mdm2) mRNA, complete cds 227
40560_at Hs.168357 gnl|UG|Hs#S226067 Human TBX2 (TXB2) mRNA, complete cds 227
303_at Guanine Nucleotide Exchange Factor 1 227
39852_at Hs.118087 gnl|UG|Hs#S998793 Homo sapiens mRNA for KIAA0610 protein, partial cds 227

00230.00000 00004.78670
00232.00000 00005.32402
00234.00000 00005.45277
00236.00000 00003.81325
00238.00000 00005.24656
00240.00000 00005.74300

31403_at Hs.158322 gnl|UG|Hs#S377360 Human vesicular monoamine transporter VMAT1 mRNA, complete cds 239
37761_at Hs.7936 gnl|UG|Hs#S1367807 Homo sapiens mRNA for BAP2-beta protein, complete cds 239
40089_at Hs.155020 gnl|UG|Hs#S998396 Homo sapiens mRNA for putative methyltransferase 239
32556_at Hs.7655 gnl|UG|Hs#S5566 H.sapiens mmRNA for large subunit of splicing factor U2AF 239

00242.00000 00004.16676
00244.00000 00005.46815
00246.00000 00006.09386

36944_f_at Hs.75825 gnl|UG|Hs#S553699 Homo sapiens lost on transformation LOT1 mRNA, complete cds 245
31372_at Hs.136169 gnl|UG|Hs#S513413 43g3 Homo sapiens cDNA 245
301_at Mucin 6, Gastric 245
825_at Hs.198891 gnl|UG|Hs#S417522 Human serine 245
39534_at Hs.103978 gnl|UG|Hs#S553407 Homo sapiens DGS-G mRNA, 3' end 245

00248.00000 00004.57539
00250.00000 00004.94347
00252.00000 00005.49965
00254.00000 00004.74824
00256.00000 00004.88123
00258.00000 00004.96667
00260.00000 00005.80618

2053_at Hs.161 gnl|UG|Hs#S199 Human N-cadherin mRNA, complete cds 259
1153_f_at Hs.172944 gnl|UG|Hs#S1981 Human chorionic gonadotropin (hcg) beta subunit mRNA, complete cds 259
39906_r_at Hs.13014 gnl|UG|Hs#S714923 zu48h12.s1 Homo sapiens cDNA, 3' end 259

00262.00000 00005.11303
00264.00000 00004.28771
00266.00000 00004.21207
00268.00000 00005.93352

40823_s_at Hs.172674 gnl|UG|Hs#S591962 Human transcription factor NFATx4 mRNA, complete cds 267
41509_at Hs.3069 gnl|UG|Hs#S551667 Human mRNA sequence 267
39058_at Hs.118021 gnl|UG|Hs#S315 Human guanine nucleotide regulatory protein (ABR) mRNA, complete cds 267
41417_at Hs.107014 gnl|UG|Hs#S953290 Human Chromosome 16 BAC clone CIT987SK-327O24 267
35553_at Hs.278479 gnl|UG|Hs#S1263252 Homo sapiens testis-specific Y-encoded-like protein (TSPYL) mRNA, partial cds 267

(Above) Three samples from title Cancer Program Datasets title MLL translocations specify a distinct gene expression profile that distingushes a unique leukemia

Bellow , a complete display of prostate tumor results , showing comparisson of sequence curves positions and frequences , prostate normal vs. tumor .
Crossection prostate tumor 1-62 , displayes a region in size and emphase that is weekly present in crossection prostate normal 1-62 .

Bellow , upper pictures (normal vs tumor) verical crossection , displaying comparisson of sequence frequences .

View results chart from T32_tumor.CEL
View results chart from T11_tumor.CEL

Results (by name srosssection) T32_tumor.CEL vs T11_tumor.CEL :

Hs.861 gnl|UG|Hs#S4664 Human ERK1 mRNA for protein serine 1000_at 50 P TRUE
Hs.245188 gnl|UG|Hs#S2617 Human tissue inhibitor of metalloproteinases-3 mRNA, complete cds 1034_at 24 P TRUE
Hs.80343 gnl|UG|Hs#S417593 Human MT2-MMP gene for matrix metalloprotein, complete cds 1147_at 10 P TRUE
Hs.80343 gnl|UG|Hs#S417593 Human MT2-MMP gene for matrix metalloprotein, complete cds 1148_s_at 27 P TRUE
Hs.3887 gnl|UG|Hs#S572402 Homo sapiens mRNA for proteasome subunit p112, complete cds 1314_at 50 P TRUE
Hs.30035 gnl|UG|Hs#S472871 Human transformer-2 beta (htra-2 beta) mRNA, complete cds 140_s_at 50 P TRUE
Hs.170263 gnl|UG|Hs#S715 Human clone 53BP1 p53-binding protein mRNA, partial cds 1711_at 37 P TRUE
Hs.155939 gnl|UG|Hs#S473013 Human SH2-containing inositol 5-phosphatase (hSHIP) mRNA, complete cds 172_at 45 P TRUE
Hs.194669 gnl|UG|Hs#S816277 Human mRNA for KIAA0388 gene, complete cds 32259_at 50 P TRUE
Hs.251754 gnl|UG|Hs#S3765 Human mRNA for antileukoprotease (ALP) from cervix uterus 32275_at 50 P TRUE
Hs.117572 gnl|UG|Hs#S816508 Homo sapiens CC-chemokine receptor 10 (CCR10) mRNA, complete cds 32484_at 50 P TRUE
Hs.78851 gnl|UG|Hs#S472694 Human mRNA for KIAA0217 gene, partial cds 32586_at 50 P TRUE
Hs.79295 gnl|UG|Hs#S616 Homo sapiens G-rich sequence factor-1 (GRSF-1) mRNA, complete cds 32595_at 7 P TRUE
Hs.196209 gnl|UG|Hs#S592213 Homo sapiens mRNA export protein (RAE1) mRNA, complete cds 32757_at 36 P TRUE
Hs.201673 gnl|UG|Hs#S1368335 Homo sapiens cornichon mRNA, complete cds 32803_at 46 P TRUE
Hs.201673 gnl|UG|Hs#S1368335 Homo sapiens cornichon mRNA, complete cds 32804_at 50 P TRUE
Hs.20418 gnl|UG|Hs#S1090450 Homo sapiens mRNA for for histone H2B, clone pjG4-5-14 32819_at 50 P TRUE
Hs.241451 gnl|UG|Hs#S998218 Homo sapiens BAF57 (BAF57) gene, complete cds 33828_at 50 P TRUE
Hs.3745 gnl|UG|Hs#S417477 Human breast epithelial antigen BA46 mRNA, complete cds 34403_at 50 P TRUE
Hs.113274 gnl|UG|Hs#S876006 Homo sapiens mRNA for TFEC isoform (or TFECL), complete cds 34470_at 9 P TRUE
Hs.57101 gnl|UG|Hs#S226218 Human mRNA for KIAA0030 gene, partial cds 35312_at 50 P TRUE
Hs.75305 gnl|UG|Hs#S592293 Homo sapiens immunophilin homolog ARA9 mRNA, complete cds 36586_at 50 P TRUE
Hs.76666 gnl|UG|Hs#S305381 Human mRNA for KIAA0183 gene, partial cds 37031_at 50 P TRUE
Hs.77864 gnl|UG|Hs#S1090758 Homo sapiens mRNA for KIAA0638 protein, partial cds 37375_at 50 P TRUE
Hs.8762 gnl|UG|Hs#S789531 ab13f01.r1 Homo sapiens cDNA, 5' end 38761_s_at 50 P TRUE
Hs.90303 gnl|UG|Hs#S5551 Homo sapiens TSC2 mRNA for tuberin 38813_at 50 P TRUE
Hs.91747 gnl|UG|Hs#S185 Human profilin II mRNA, complete cds 38840_s_at 50 P TRUE
Hs.179661 gnl|UG|Hs#S892187 Homo sapiens clone 23678 mRNA, partial cds 39332_at 50 P TRUE
Hs.16533 gnl|UG|Hs#S876305 Homo sapiens mRNA for myosin phosphatase target subunit 1 (MYPT1) 40438_at 9 P TRUE
Hs.172278 gnl|UG|Hs#S305422 Human beta2-syntrophin (SNT B2) mRNA, complete cds 40589_at 9 P TRUE
Hs.177766 gnl|UG|Hs#S3223 Human poly(ADP-ribose) synthetase mRNA, complete cds 41146_at 50 P TRUE
Hs.182643 gnl|UG|Hs#S5783 H.sapiens mRNA for RNA polymerase II elongation factor-like protein 41759_at 50 P TRUE
Hs.258524 gnl|UG|Hs#S25 Human mRNA for CRK-II, complete cds 773_at 36 P TRUE
Hs.258524 gnl|UG|Hs#S25 Human mRNA for CRK-II, complete cds 774_g_at 50 P TRUE
Hs.55279 gnl|UG|Hs#S520 Human maspin mRNA, complete cds 863_g_at 9 P TRUE
Hs.3764 gnl|UG|Hs#S342522 Human guanylate kinase (GUK1) mRNA, complete cds 905_at 50 P TRUE

(Bellow) Each chart is selected one square of approx. 30000 color sqares , color depth representing repeats , each of them representing a sequence group derived from Raw data 1/4 datasets from Gene Expression-Based Classification and Outcome Prediction of Central Nervous System Embryonal Tumors .

Bellow , upper pictures (Raw data 1-4) verical crossection , displaying comparisson of sequence frequences .

Next 4 column chart picture lists typical tumor charts .

Bellow , (partial) Raw data 1 , seqence and sequence charts .

View results chart in res_seg_2_2_6_JLKJJJ_1.ods

(Above) comparisson of lung carcinoid (left column) and lung normal (right column) from Lung cancer datasets .

Each chart is selected one square of approx. 50000 color sqares , color depth representing repeats , each of them representing a sequence group
derived from LUNG_scans_ADENO_part1-10 dataset(s) from Lung cancer datasets , as shown in the cross section bellow .

Next 10 column chart picture lists typical lung cancer charts .

Bellow : (bordered lung normal) , above lung normal - lung carcinoids and bellow lung normal - lung scans adeno part 1-10 .

View results chart in res_seg_1_11_15_HGFFFF_1.ods

Results from CL2001032629AA (Lung Carcinoids)

n<= 00066 00002 00000 + 00002
n<= 00068 00016 00002 + 00014
n<= 00070 00042 00016 + 00026
n<= 00072 00061 00042 + 00019
n<= 00076 00076 00061 + 00015
n<= 00078 00077 00076 + 00001
n<= 00080 00088 00077 + 00011
n<= 00082 00090 00088 + 00002
n<= 00088 00107 00090 + 00017
n<= 00092 00121 00107 + 00014
n<= 00096 00127 00121 + 00006
n<= 00098 00130 00127 + 00003
n<= 00102 00135 00130 + 00005
n<= 00106 00137 00135 + 00002
n<= 00110 00140 00137 + 00003
n<= 00112 00143 00140 + 00003
n<= 00114 00147 00143 + 00004
n<= 00120 00153 00147 + 00006
n<= 00122 00156 00153 + 00003
n<= 00126 00157 00156 + 00001

00014.75000 00000.12500
00015.00000 00000.25000
00015.25000 00000.25000
00015.37500 00000.12500
00015.62500 00000.25000
00016.25000 00000.62500

U60269 Cluster Incl. U60269:Human endogenous retrovirus HERV-K(HML6) proviral clone HML6.17 putative polymerase and envelope genes, partial cds, and 3LTR /cds=(0,491) /gb=U60269 /gi=1408208 /ug=Hs.159902 /len=492 31922_i_at 16.3 A
U02687 Cluster Incl. U02687:Human growth factor receptor tyrosine kinase (STK-1) mRNA, complete cds /cds=(57,3038) /gb=U02687 /gi=409572 /ug=Hs.385 /len=3475 34583_at 16.3 A
AA595596 Cluster Incl. AA595596:nk92d08.s1 Homo sapiens cDNA, 3 end /clone=IMAGE-1028271 /clone_end=3 /gb=AA595596 /gi=2410946 /ug=Hs.24284 /len=638 34757_at 16.3 P
AL109693 Cluster Incl. AL109693:Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 38244 /cds=UNKNOWN /gb=AL109693 /gi=5689806 /ug=Hs.25042 /len=1233 39322_at 16.3 A
M34065 M34065 /FEATURE=mRNA /DEFINITION=HUMCDC25HS Human cdc25Hs mRNA, complete cds 1584_at 16.3 A
W27761 Cluster Incl. W27761:37c5 Homo sapiens cDNA /gb=W27761 /gi=1307709 /ug=Hs.239060 /len=734 41296_s_at 16.3 M
D49818 Cluster Incl. D49818:Homo sapiens mRNA for 6-phosphofructo-2-kinase/fructose-2, 6-bisphosphatase, complete cds /cds=(26,1435) /gb=D49818 /gi=1905760 /ug=Hs.198278 /len=1980 31979_at 16.3 A
U29344 Cluster Incl. U29344:Human breast carcinoma fatty acid synthase mRNA, complete cds /cds=(123,7652) /gb=U29344 /gi=915391 /ug=Hs.83190 /len=8460 38429_at 16.3 A
M13792 M13792 /FEATURE=cds /DEFINITION=HUMADAG Human adenosine deaminase (ADA) gene, complete cds 907_at 16.3 P

00016.37500 00000.12500
00016.75000 00000.37500

X71348 Cluster Incl. X71348:Homo sapiens vHNF1-C mRNA /cds=UNKNOWN /gb=X71348 /gi=416532 /ug=Hs.166039 /len=3436 33621_at 16.8 A
AC005609 Cluster Incl. AC005609:Homo sapiens chromosome 5, BAC clone 203o13 (LBNL H155), complete sequence /cds=(0,2423) /gb=AC005609 /gi=3540156 /ug=Hs.159402 /len=2424 31917_at 16.8 A
M74088 M74088 /FEATURE= /DEFINITION=HUMFAPAPC Human APC gene mRNA, complete cds 1912_s_at 16.8 A
AF054598 AF054598 /FEATURE=mRNA /DEFINITION=HSTGFBR1G9 Homo sapiens TGF-beta type I receptor (TGFBR1) gene, exon 9 and complete cds 1957_s_at 16.8 A
AB029033 Cluster Incl. AB029033:Homo sapiens mRNA for KIAA1110 protein, partial cds /cds=(0,2223) /gb=AB029033 /gi=5689556 /ug=Hs.22479 /len=5536 34250_at 16.8 A
X51420 Cluster Incl. X51420:Human mRNA for tyrosinase-related protein /cds=(129,1712) /gb=X51420 /gi=37512 /ug=Hs.75219 /len=2817 36911_at 16.8 A
U57057 Cluster Incl. U57057:Human WD protein IR10 mRNA, complete cds /cds=(0,1577) /gb=U57057 /gi=1654312 /ug=Hs.44396 /len=1578 36317_at 16.8 A
AB002298 Cluster Incl. AB002298:Human mRNA for KIAA0300 gene, partial cds /cds=(0,4828) /gb=AB002298 /gi=2224540 /ug=Hs.173035 /len=7621 40834_at 16.8 P
AI698066 Cluster Incl. AI698066:we20e01.x1 Homo sapiens cDNA, 3 end /clone=IMAGE-2341656 /clone_end=3 /gb=AI698066 /gi=4985966 /ug=Hs.152601 /len=754 40214_at 16.8 A
AI961669 Cluster Incl. AI961669:wt65e11.x1 Homo sapiens cDNA, 3 end /clone=IMAGE-2512364 /clone_end=3 /gb=AI961669 /gi=5754382 /ug=Hs.118249 /len=565 34484_at 16.8 A

00016.87500 00000.12500
00017.25000 00000.37500

U16282 Cluster Incl. U16282:Human ELL mRNA, complete cds /cds=(12,1877) /gb=U16282 /gi=601792 /ug=Hs.5881 /len=2805 40044_at 17.3 A
AF034970 Cluster Incl. AF034970:Homo sapiens docking protein (DOK-2) mRNA, complete cds /cds=(0,1238) /gb=AF034970 /gi=3043918 /ug=Hs.181515 /len=1239 31514_at 17.3 A
AC002550 Cluster Incl. AC002550:Human Chromosome 16 BAC clone CIT987SK-A-101F10 /cds=(0,620) /gb=AC002550 /gi=2570261 /ug=Hs.5320 /len=1271 41791_at 17.3 P
AB005038 Cluster Incl. AB005038:Homo sapiens mRNA for 25-hydroxyvitamin D3 1-alpha-hydroxylase, complete cds /cds=(121,1647) /gb=AB005038 /gi=2626736 /ug=Hs.199270 /len=2451 38909_at 17.3 A
U07919 Cluster Incl. U07919:Human aldehyde dehydrogenase 6 mRNA, complete cds /cds=(52,1590) /gb=U07919 /gi=995897 /ug=Hs.75746 /len=3442 36686_at 17.3 A
AF056085 Cluster Incl. AF056085:Homo sapiens GABA-B receptor mRNA, complete cds /cds=(457,3282) /gb=AF056085 /gi=3719225 /ug=Hs.198612 /len=5786 33764_at 17.3 A
AF088219 Cluster Incl. AF088219:Homo sapiens CC chemokine gene cluster, complete sequence /cds=(150,596) /gb=AF088219 /gi=3719360 /ug=Hs.97477 /len=872 37084_at 17.3 A
X81053 Cluster Incl. X81053:H.sapiens mRNA for collagen type IV alpha 4 chain /cds=(208,5280) /gb=X81053 /gi=574805 /ug=Hs.180828 /len=5281 35493_at 17.3 P
X55990 Cluster Incl. X55990:Human ECP gene for eosinophil cationic protein /cds=(63,545) /gb=X55990 /gi=31084 /ug=Hs.73839 /len=726 33979_at 17.3 A
M74525 M74525 /FEATURE= /DEFINITION=HUMHHR6B Human HHR6B (yeast RAD 6 homologue) mRNA, complete cds 1231_at 17.3 A
X99459 Cluster Incl. X99459:H.sapiens mRNA for sigma 3B protein /cds=(30,611) /gb=X99459 /gi=1770514 /ug=Hs.154782 /len=1829 32030_at 17.3 M
J02843 J02843 /FEATURE=cds /DEFINITION=HUMCYPIIE Human cytochrome P450IIE1 (ethanol-inducible) gene, complete cds 1431_at 17.3 A
U52522 Cluster Incl. U52522:Human arfaptin 2, putative target protein of ADP-ribosylation factor, mRNA, complete cds /cds=(67,1092) /gb=U52522 /gi=1279762 /ug=Hs.75139 /len=1654 36193_at 17.3 P
AF065388 Cluster Incl. AF065388:Homo sapiens tetraspan NET-1 mRNA, complete cds /cds=(121,846) /gb=AF065388 /gi=3152700 /ug=Hs.38972 /len=1278 34775_at 17.3 A
AC003007 Cluster Incl. AC003007:Human Chromosome 16 BAC clone CIT987SK-A-61E3 /cds=(0,1742) /gb=AC003007 /gi=2911728 /ug=Hs.181634 /len=2410 41733_at 17.3 P
X98307 Cluster Incl. X98307:H.sapiens mRNA for UV-B repressed sequence, HUR 7 /cds=(0,169) /gb=X98307 /gi=1524079 /ug=Hs.84168 /len=394 31541_at 17.3 A
M29037 M29037 /FEATURE=cds /DEFINITION=HUM17BHSDI Human 17 beta-hydroxysteroid dehydrogenase (17BHSDI) gene, exons 1-5, complete cds 602_s_at 17.3 A
AF082558 Cluster Incl. AF082558:Homo sapiens truncated TRF1-interacting ankyrin-related ADP-ribose polymerase TT7 mRNA, alternatively spliced, partial cds /cds=(0,100) /gb=AF082558 /gi=3929222 /ug=Hs.169213 /len=357 31474_r_at 17.3 A

00017.62500 00000.37500

D83781 Cluster Incl. D83781:Human mRNA for KIAA0197 gene, partial cds /cds=(0,3945) /gb=D83781 /gi=1228044 /ug=Hs.22559 /len=4814 34253_at 17.6 P
M22324 Cluster Incl. M22324:Human aminopeptidase N/CD13 mRNA encoding aminopeptidase N, complete cds /cds=(120,3023) /gb=M22324 /gi=178535 /ug=Hs.1239 /len=3477 39385_at 17.6 A
AF055481 Cluster Incl. AF055481:Homo sapiens normal epithelial cell-specific 1 (NES1) gene, complete cds /cds=(82,912) /gb=AF055481 /gi=3065710 /ug=Hs.69423 /len=1442 36838_at 17.6 A
AF000990 Cluster Incl. AF000990:Homo sapiens testis-specific Testis Transcript Y 1 (TTY1) mRNA, partial cds /cds=(0,182) /gb=AF000990 /gi=2580565 /ug=Hs.158344 /len=910 31413_at 17.6 M
U32331 Cluster Incl. U32331:Homo sapiens RIG mRNA, complete cds /cds=(25,357) /gb=U32331 /gi=975878 /ug=Hs.4909 /len=2569 34856_at 17.6 A
AL021786 Cluster Incl. AL021786:Human DNA sequence from PAC 696H22 on chromosome Xq21.1-21.2. Contains a mouse E25 like gene, a Kinesin like pseudogene and ESTs /cds=(0,680) /gb=AL021786 /gi=2853186 /ug=Hs.17109 /len=1389 40775_at 17.6 P
D26361 Cluster Incl. D26361:Human mRNA for KIAA0042 gene, complete cds /cds=(439,5385) /gb=D26361 /gi=452516 /ug=Hs.3104 /len=6586 34563_at 17.6 M
L41690 L41690 /FEATURE= /DEFINITION=HUMTRADD Homo sapiens TNF receptor-1 associated protein (TRADD) mRNA, 3 end of cds 1729_at 17.6 A
Z85986 Cluster Incl. Z85986:Human DNA sequence from clone 108K11 on chromosome 6p21 Contains SRP20 (SR protein family member), Ndr protein kinase gene similar to yeast suppressor protein SRP40, EST and GSS /cds=(0,932) /gb=Z85986 /gi=4034056 /ug=Hs.152400 35001_at 35001_at 17.6 A
AB018298 Cluster Incl. AB018298:Homo sapiens mRNA for KIAA0755 protein, complete cds /cds=(200,3298) /gb=AB018298 /gi=3882230 /ug=Hs.19822 /len=3988 32770_at 17.6 P
AF036268 Cluster Incl. AF036268:Homo sapiens EEN-B1 mRNA, complete cds /cds=(47,1105) /gb=AF036268 /gi=2921407 /ug=Hs.75149 /len=2483 40378_at 17.6 A
AF004841 Cluster Incl. AF004841:Homo sapiens CDO mRNA, complete cds /cds=(0,3722) /gb=AF004841 /gi=3559765 /ug=Hs.159565 /len=3986 31920_at 17.6 A

00017.75000 00000.12500
00018.00000 00000.25000
00018.12500 00000.12500
00018.25000 00000.12500
00018.62500 00000.37500

M55543 Cluster Incl. M55543:Human guanylate binding protein isoform II (GBP-2) mRNA, complete cds /cds=UNKNOWN /gb=M55543 /gi=829176 /ug=Hs.171862 /len=2107 32700_at 18.6 A
AI535653 Cluster Incl. AI535653:P9-C4.T3.P9.D4 Homo sapiens cDNA, 3 end /clone_end=3 /gb=AI535653 /gi=4449788 /ug=Hs.223018 /len=590 33369_at 18.6 P
AB018280 Cluster Incl. AB018280:Homo sapiens mRNA for KIAA0737 protein, complete cds /cds=(32,1897) /gb=AB018280 /gi=3882194 /ug=Hs.194035 /len=4174 32244_at 18.6 P
X59244 Cluster Incl. X59244:Human ZNF43 mRNA /cds=(337,2748) /gb=X59244 /gi=38031 /ug=Hs.74107 /len=3003 33982_f_at 18.6 P
AJ010953 Cluster Incl. AJ010953:Homo sapiens mRNA for putative Ca2+-transporting ATPase, partial /cds=(0,1491) /gb=AJ010953 /gi=3646133 /ug=Hs.106778 /len=2134 38684_at 18.6 P
L07032 L07032 /FEATURE= /DEFINITION=HUMPKCTH Human protein kinase C theta (PKC) mRNA, complete cds 2081_s_at 18.6 P
D13643 Cluster Incl. D13643:Human mRNA for KIAA0018 gene, complete cds /cds=(38,1210) /gb=D13643 /gi=285996 /ug=Hs.75616 /len=4186 36658_at 18.6 A
M26747 M26747 /FEATURE= /DEFINITION=HUMCERBA Human c-erbA mRNA, complete cds 2048_s_at 18.6 A
AB013094 Cluster Incl. AB013094:Homo sapiens TSC501 mRNA, complete cds /cds=(168,851) /gb=AB013094 /gi=3721765 /ug=Hs.14637 /len=960 38128_at 18.6 A
AI131030 Cluster Incl. AI131030:qb82f10.x1 Homo sapiens cDNA, 3 end /clone=IMAGE-1706635 /clone_end=3 /gb=AI131030 /gi=3601046 /ug=Hs.2558 /len=565 36253_at 18.6 P

00019.00000 00000.37500

X63717 Cluster Incl. X63717:H.sapiens mRNA for APO-1 cell surface antigen /cds=(220,1227) /gb=X63717 /gi=28741 /ug=Hs.82359 /len=2551 37643_at 19 P
AB023230 Cluster Incl. AB023230:Homo sapiens mRNA for KIAA1013 protein, partial cds /cds=(0,3188) /gb=AB023230 /gi=4589675 /ug=Hs.96427 /len=4783 38336_at 19 P
M81780 Cluster Incl. M81780:Homo sapiens acid sphingomyelinase (SMPD1) gene, complete cds, ORFs 1-3, complete cds s /cds=(0,308) /gb=M81780 /gi=972768 /ug=Hs.77813 /len=309 37371_at 19 A
M13509 Cluster Incl. M13509:Human skin collagenase mRNA, complete cds /cds=(68,1477) /gb=M13509 /gi=180664 /ug=Hs.83169 /len=1970 38428_at 19 P
AF052510 Cluster Incl. AF052510:Homo sapiens CTP-phosphocholine cytidylyltransferase b (CTB) mRNA, complete cds /cds=(60,1052) /gb=AF052510 /gi=3153238 /ug=Hs.132794 /len=1295 35551_g_at 19 A
AB007865 Cluster Incl. AB007865:Homo sapiens KIAA0405 mRNA, complete cds /cds=(1124,3106) /gb=AB007865 /gi=2662090 /ug=Hs.48998 /len=7527 34853_at 19 A
AF040628 Cluster Incl. AF040628:Homo sapiens ectodysplasin-A (EDA) mRNA, complete cds /cds=(242,1417) /gb=AF040628 /gi=3869269 /ug=Hs.105407 /len=5270 37139_at 19 A
D26488 Cluster Incl. D26488:Human mRNA for KIAA0007 gene, partial cds /cds=(0,2062) /gb=D26488 /gi=452522 /ug=Hs.90315 /len=3500 38250_at 19 A
AA176780 Cluster Incl. AA176780:zp32a10.s1 Homo sapiens cDNA, 3 end /clone=IMAGE-611130 /clone_end=3 /gb=AA176780 /gi=1757929 /ug=Hs.16944 /len=696 40486_g_at 19 P
AJ010232 Cluster Incl. AJ010232:Homo sapiens mRNA for RET finger protein-like 3 /cds=(292,1158) /gb=AJ010232 /gi=3417318 /ug=Hs.167751 /len=1488 31941_s_at 19 P
U14910 Cluster Incl. U14910:Human RPE-retinal G protein-coupled receptor (rgr) mRNA, complete cds /cds=(38,913) /gb=U14910 /gi=595826 /ug=Hs.1544 /len=1415 36346_at 19 A
U51713 Cluster Incl. U51713:HSU51713 Homo sapiens cDNA /gb=U51713 /gi=1806581 /ug=Hs.208322 /len=707 31629_at 19 P

00019.12500 00000.12500
00019.25000 00000.12500
00019.37500 00000.12500
00019.62500 00000.25000
00019.75000 00000.12500
00020.00000 00000.25000
00020.25000 00000.25000
00020.37500 00000.12500
00020.50000 00000.12500
00020.75000 00000.25000
00020.87500 00000.12500
00021.25000 00000.37500

U89387 Cluster Incl. U89387:Human RNA polymerase II subunit hsRPB4 gene, complete cds /cds=(23,451) /gb=U89387 /gi=2253634 /ug=Hs.194638 /len=1902 33726_at 21.3 P
AI365215 Cluster Incl. AI365215:qz41a06.x1 Homo sapiens cDNA, 3 end /clone=IMAGE-2029426 /clone_end=3 /gb=AI365215 /gi=4124904 /ug=Hs.206097 /len=918 32827_at 21.3 P
AF077952 Cluster Incl. AF077952:Homo sapiens protein inhibitor of activated STAT protein PIASy mRNA, complete cds /cds=(0,1532) /gb=AF077952 /gi=3643110 /ug=Hs.105779 /len=1533 37144_at 21.3 P
X89214 Cluster Incl. X89214:H.sapiens mRNA for haptoglobin related protein /cds=(138,1295) /gb=X89214 /gi=1495457 /ug=Hs.75990 /len=1460 36984_f_at 21.3 P
Y07566 Cluster Incl. Y07566:H.sapiens mRNA for RIT protein /cds=(145,804) /gb=Y07566 /gi=1702927 /ug=Hs.96038 /len=1093 38331_at 21.3 A
U65404 U65404 /FEATURE= /DEFINITION=HSU65404 Human erythroid-specific transcription factor EKLF mRNA, complete cds 137_at 21.3 A
AA203213 Cluster Incl. AA203213:zx57e04.r1 Homo sapiens cDNA, 5 end /clone=IMAGE-446622 /clone_end=5 /gb=AA203213 /gi=1798923 /ug=Hs.833 /len=879 38432_at 21.3 A
X51362 Cluster Incl. X51362:Human mRNA for dopamine D2 receptor /cds=(165,1496) /gb=X51362 /gi=30495 /ug=Hs.73893 /len=2610 40371_at 21.3 A
AF001434 Cluster Incl. AF001434:Human Hpast (HPAST) mRNA, complete cds /cds=(255,1859) /gb=AF001434 /gi=2529706 /ug=Hs.155119 /len=3460 40098_at 21.3 A
U31601 U31601 /FEATURE= /DEFINITION=HSU31601 Human tyrosine protein kinase (Jak3B) splice variant mRNA, complete cds 2007_g_at 21.3 A
X52011 Cluster Incl. X52011:H.sapiens MYF6 gene encoding a muscle determination factor /cds=(53,781) /gb=X52011 /gi=34837 /ug=Hs.35937 /len=1294 39676_at 21.3 A
D28915 Cluster Incl. D28915:Human gene for hepatitis C-associated microtubular aggregate protein p44 /cds=(10,1344) /gb=D28915 /gi=1359442 /ug=Hs.82316 /len=1601 37641_at 21.3 P
AF026402 Cluster Incl. AF026402:Homo sapiens U5 snRNP 100 kD protein mRNA, complete cds /cds=(39,2501) /gb=AF026402 /gi=2655201 /ug=Hs.168103 /len=3215 40465_at 21.3 P

00021.37500 00000.12500
00021.50000 00000.12500
00021.87500 00000.37500

D26535 Cluster Incl. D26535:Human gene for dihydrolipoamide succinyltransferase, complete cds (exon 1-15) /cds=(43,1404) /gb=D26535 /gi=537349 /ug=Hs.179989 /len=2822 33258_g_at 21.9 P
W87466 Cluster Incl. W87466:zh67c05.s1 Homo sapiens cDNA, 3 end /clone=IMAGE-417128 /clone_end=3 /gb=W87466 /gi=1401521 /ug=Hs.102479 /len=587 38643_at 21.9 A
S66431 Cluster Incl. S66431:RBP2=retinoblastoma binding protein 2 [human, Nalm-6 pre-B cell leukemia, mRNA, 6455 nt] /cds=(152,5320) /gb=S66431 /gi=435777 /ug=Hs.76272 /len=6440 36999_at 21.9 A
M28215 M28215 /FEATURE= /DEFINITION=HUMRAB5A Homo sapiens GTP-binding protein (RAB5) mRNA, complete cds 600_at 21.9 P
HG3344-HT3521 Ubiquitin-Conjugating Enzyme Ubch5 1164_at 21.9 A
D78335 Cluster Incl. D78335:Human mRNA for 5-terminal region of UMK, complete cds /cds=(218,553) /gb=D78335 /gi=1655419 /ug=Hs.75939 /len=831 37193_at 21.9 A
AC005192 Cluster Incl. AC005192:Homo sapiens BAC clone RG163K11 from 7q31 /cds=(0,788) /gb=AC005192 /gi=3264575 /ug=Hs.219594 /len=789 32901_s_at 21.9 P
AJ223353 Cluster Incl. AJ223353:Homo sapiens mRNA for histone H2B, clone pJG4-5-15 /cds=(28,408) /gb=AJ223353 /gi=3255998 /ug=Hs.180779 /len=790 38576_at 21.9 A

00022.12500 00000.25000
00022.25000 00000.12500
00022.37500 00000.12500
00022.62500 00000.25000
00023.00000 00000.37500

AC004522 Cluster Incl. AC004522:Homo sapiens PAC clone DJ0604G05 from 7q22-q31.1 /cds=(0,887) /gb=AC004522 /gi=3006227 /ug=Hs.154212 /len=888 36340_at 23 A
D42087 Cluster Incl. D42087:Human mRNA for KIAA0118 gene, partial cds /cds=(0,485) /gb=D42087 /gi=576555 /ug=Hs.184627 /len=1413 33326_at 23 A
AF059203 Cluster Incl. AF059203:Homo sapiens acyl coenzyme A-cholesterol acyltransferase 2 mRNA, complete cds /cds=(51,1619) /gb=AF059203 /gi=3746534 /ug=Hs.20580 /len=2040 32882_at 23 A
AF061258 Cluster Incl. AF061258:Homo sapiens LIM protein mRNA, complete cds /cds=(83,1873) /gb=AF061258 /gi=3108092 /ug=Hs.154103 /len=3287 40060_r_at 23 P
Y11588 Cluster Incl. Y11588:H.sapiens mRNA for apoptosis specific protein /cds=(326,1153) /gb=Y11588 /gi=2995197 /ug=Hs.11171 /len=3222 39013_at 23 A

00023.12500 00000.12500
00023.25000 00000.12500
00023.37500 00000.12500
00023.87500 00000.50000

AF070575 Cluster Incl. AF070575:Homo sapiens clone 24407 mRNA sequence /cds=UNKNOWN /gb=AF070575 /gi=3387946 /ug=Hs.12432 /len=1763 37783_at 23.9 P
U77413 Cluster Incl. U77413:Human O-linked GlcNAc transferase mRNA, complete cds /cds=(265,3027) /gb=U77413 /gi=2266993 /ug=Hs.100293 /len=3084 38614_s_at 23.9 P
U50196 U50196 /FEATURE= /DEFINITION=HSU50196 Human adenosine kinase mRNA, complete cds 168_at 23.9 A
U53831 Cluster Incl. U53831:Homo sapiens interferon regulatory factor 7B mRNA, complete cds /cds=UNKNOWN /gb=U53831 /gi=2098582 /ug=Hs.166120 /len=1806 36412_s_at 23.9 A
AF000430 AF000430 /FEATURE= /DEFINITION=AF000430 Homo sapiens dynamin-like protein mRNA, complete cds 357_at 23.9 A
U10117 Cluster Incl. U10117:Human endothelial-monocyte activating polypeptide II mRNA, complete cds /cds=(49,987) /gb=U10117 /gi=498909 /ug=Hs.146401 /len=1057 39734_at 23.9 P
L15388 Cluster Incl. L15388:Human G protein-coupled receptor kinase (GRK5) mRNA, complete cds /cds=(220,1992) /gb=L15388 /gi=306804 /ug=Hs.211569 /len=2557 40994_at 23.9 P
AI936758 Cluster Incl. AI936758:wp69b11.x1 Homo sapiens cDNA, 3 end /clone=IMAGE-2467005 /clone_end=3 /gb=AI936758 /gi=5675628 /ug=Hs.104555 /len=659 37130_g_at 23.9 A

00024.00000 00000.12500
00024.25000 00000.25000
00024.37500 00000.12500
00024.75000 00000.37500

X03541 Cluster Incl. X03541:Human mRNA of trk oncogene /cds=(232,2157) /gb=X03541 /gi=37402 /ug=Hs.85844 /len=2301 36805_s_at 24.8 A
M73481 Cluster Incl. M73481:Human gastrin releasing peptide receptor (GRPR) mRNA, complete cds /cds=(398,1552) /gb=M73481 /gi=183649 /ug=Hs.73883 /len=1726 32430_at 24.8 A
J05682 Cluster Incl. J05682:Human subunit C of V-ATPase (vat C) mRNA, 3 end /cds=(0,1043) /gb=J05682 /gi=340187 /ug=Hs.86905 /len=1618 37948_at 24.8 P
AB022718 Cluster Incl. AB022718:Homo sapiens mRNA for DEPP (decidual protein induced by progesterone), complete cds /cds=(218,856) /gb=AB022718 /gi=4204189 /ug=Hs.93675 /len=2114 39114_at 24.8 A

00025.00000 00000.25000
00025.12500 00000.12500
00025.25000 00000.12500
00025.37500 00000.12500
00025.75000 00000.37500

L35546 Cluster Incl. L35546:Homo sapiens gamma-glutamylcysteine synthetase light subunit mRNA, complete cds /cds=(253,1077) /gb=L35546 /gi=530136 /ug=Hs.89709 /len=1610 33163_r_at 25.8 P
U28946 U28946 /FEATURE= /DEFINITION=HSU28946 Human G/T mismatch binding protein (GTBP) mRNA, complete cds 2003_s_at 25.8 P
U51990 Cluster Incl. U51990:Human hPrp18 mRNA, complete cds /cds=(72,1100) /gb=U51990 /gi=1805248 /ug=Hs.155244 /len=1450 40269_at 25.8 P
X79563 Cluster Incl. X79563:H.sapiens 8.2kDa differentiation factor mRNA /cds=(60,353) /gb=X79563 /gi=499069 /ug=Hs.169301 /len=465 31948_at 25.8 A
AW005997 Cluster Incl. AW005997:wz91c01.x1 Homo sapiens cDNA, 3 end /clone=IMAGE-2566176 /clone_end=3 /gb=AW005997 /gi=5854775 /ug=Hs.78185 /len=702 32578_at 25.8 P
M83649 M83649 Mus musculus Fas antigen mRNA, complete cds AFFX-MurFAS_at 25.8 A

00025.87500 00000.12500
00026.00000 00000.12500
00026.12500 00000.12500
00026.25000 00000.12500
00026.75000 00000.50000

U58334 Cluster Incl. U58334:Human Bcl2, p53 binding protein Bbp/53BP2 (BBP/53BP2) mRNA, complete cds /cds=(756,3773) /gb=U58334 /gi=1399804 /ug=Hs.44585 /len=4534 34822_at 26.8 P
D38521 Cluster Incl. D38521:Human mRNA for KIAA0077 gene, partial cds /cds=(0,5397) /gb=D38521 /gi=559329 /ug=Hs.75935 /len=6106 36978_at 26.8 P
M24900 Cluster Incl. M24900:Human triiodothyronine recptor (THRA1, ear1), and ear2 genes, last 2 exons each /cds=UNKNOWN /gb=M24900 /gi=537515 /ug=Hs.724 /len=2054 32520_at 26.8 A
M55654 Cluster Incl. M55654:Human TATA-binding protein mRNA, complete cds /cds=(241,1260) /gb=M55654 /gi=339491 /ug=Hs.1100 /len=1854 41441_at 26.8 A
S68271 Cluster Incl. S68271:CREM=cyclic AMP-responsive element modulator [human, mRNA, 1431 nt] /cds=(0,998) /gb=S68271 /gi=545204 /ug=Hs.155924 /len=1431 32067_at 26.8 P
M96738 M96738 /FEATURE=cds /DEFINITION=HUMSSTR3X Human somatostatin receptor subtype 3 (SSTR3) gene, complete cds 557_s_at 26.8 A
AF031383 Cluster Incl. AF031383:Homo sapiens hMed7 (MED7) mRNA, complete cds /cds=(66,767) /gb=AF031383 /gi=2736289 /ug=Hs.7558 /len=778 36648_at 26.8 P
L31584 L31584 /FEATURE=exon /DEFINITION=HUMEBI103 Human G protein-coupled receptor (EBI 1) gene exon 3, complete cds 1097_s_at 26.8 A
X99656 Cluster Incl. X99656:H.sapiens mRNA for protein containing SH3 domain, SH3GL1 /cds=(15,1121) /gb=X99656 /gi=1869809 /ug=Hs.97616 /len=2349 39159_at 26.8 A
AB018312 Cluster Incl. AB018312:Homo sapiens mRNA for KIAA0769 protein, complete cds /cds=(239,2293) /gb=AB018312 /gi=3882258 /ug=Hs.19056 /len=4326 32224_at 26.8 A

00027.00000 00000.25000
00027.37500 00000.37500

M31153 M31153 /FEATURE=cds /DEFINITION=HUMCYP178 Human steroid 17-alpha-hydroxylase gene, exon 8 586_s_at 27.4 A
AI810485 Cluster Incl. AI810485:wb89b12.x1 Homo sapiens cDNA, 3 end /clone=IMAGE-2312831 /clone_end=3 /gb=AI810485 /gi=5397051 /ug=Hs.75262 /len=547 36915_at 27.4 P
AB011792 Cluster Incl. AB011792:Homo sapiens mRNA for extracellular matrix protein, complete cds /cds=(73,2172) /gb=AB011792 /gi=3786311 /ug=Hs.35094 /len=3171 39674_r_at 27.4 A
AF009267 Cluster Incl. AF009267:Homo sapiens clone FBA1 Cri-du-chat region mRNA /cds=UNKNOWN /gb=AF009267 /gi=2331069 /ug=Hs.102238 /len=1345 35059_at 27.4 P
U17566 Cluster Incl. U17566:Human 65 kDa hydrophobic protein mRNA, complete cds /cds=(94,1869) /gb=U17566 /gi=964999 /ug=Hs.84190 /len=2815 33135_at 27.4 A
U38979 Cluster Incl. U38979:Human PMS2 related (hPMSR3) gene, complete cds /cds=(0,794) /gb=U38979 /gi=1061423 /ug=Hs.181975 /len=795 35859_f_at 27.4 A

00027.75000 00000.37500

X91906 Cluster Incl. X91906:H.sapiens voltage-gated chloride ion channel CLCN5 /cds=(291,2531) /gb=X91906 /gi=1067131 /ug=Hs.89872 /len=3173 34024_at 27.8 A
U43148 U43148 /FEATURE= /DEFINITION=HSU43148 Human patched homolog (PTC) mRNA, complete cds 836_at 27.8 A
J04111 J04111 /FEATURE=exon#1 /DEFINITION=HUMJUNA Human c-jun proto oncogene (JUN), complete cds, clone hCJ-1 1895_at 27.8 P
W52999 Cluster Incl. W52999:zc02f10.r1 Homo sapiens cDNA, 5 end /clone=IMAGE-321163 /clone_end=5 /gb=W52999 /gi=1350461 /ug=Hs.56155 /len=605 40027_at 27.8 P
AA112483 Cluster Incl. AA112483:zn69a06.s1 Homo sapiens cDNA, 3 end /clone=IMAGE-563410 /clone_end=3 /gb=AA112483 /gi=1665160 /ug=Hs.159479 /len=434 32101_at 27.8 A
J03930 Cluster Incl. J03930:Human intestinal alkaline phosphatase (ALPI) gene, complete cds /cds=(50,1636) /gb=J03930 /gi=178441 /ug=Hs.37009 /len=2523 33523_at 27.8 A
M27504 M27504 /FEATURE= /DEFINITION=HUMTOPIIX Homo sapiens topoisomerase type II (Topo II) mRNA, partial cds 1581_s_at 27.8 P
AF098162 Cluster Incl. AF098162:Homo sapiens timeless homolog mRNA, complete cds /cds=(142,3768) /gb=AF098162 /gi=3929582 /ug=Hs.118631 /len=4361 41626_at 27.8 P
U17032 Cluster Incl. U17032:Human p190-B (p190-B) mRNA, complete cds /cds=(302,4801) /gb=U17032 /gi=687592 /ug=Hs.37604 /len=4992 39927_at 27.8 P
X65550 X65550 /FEATURE=cds /DEFINITION=HSMKI67 H.sapiens mki67a mRNA (long type) for antigen of monoclonal antibody Ki-67 418_at 27.8 A
D49394 D49394 /FEATURE= /DEFINITION=HUMS5HT3RA Human mRNA for serotonin 5-HT3 receptor, complete cds 740_at 27.8 A
D25215 Cluster Incl. D25215:Human mRNA for KIAA0032 gene, complete cds /cds=(166,3318) /gb=D25215 /gi=517114 /ug=Hs.35804 /len=4894 35689_at 27.8 P
X66503 Cluster Incl. X66503:Human adenylosuccinate synthetase mRNA /cds=(0,1367) /gb=X66503 /gi=415848 /ug=Hs.90011 /len=1368 33167_r_at 27.8 M
M14660 M14660 /FEATURE=cds /DEFINITION=HUMISG2 Human ISG-54K gene (interferon stimulated gene) encoding a 54 kDA protein, exon 2 909_g_at 27.8 A
AL079276 Cluster Incl. AL079276:Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 566589 /cds=(0,655) /gb=AL079276 /gi=5102579 /ug=Hs.71935 /len=1026 36761_at 27.8 P
D50922 Cluster Incl. D50922:Human mRNA for KIAA0132 gene, complete cds /cds=(112,1986) /gb=D50922 /gi=1469186 /ug=Hs.57729 /len=2513 35322_at 27.8 P

00028.00000 00000.25000
00028.12500 00000.12500
00028.37500 00000.25000
00028.75000 00000.37500

AF010193 AF010193 /FEATURE= /DEFINITION=AF010193 Homo sapiens MAD-related gene SMAD7 (SMAD7) mRNA, complete cds 1857_at 28.8 P
AB026891 Cluster Incl. AB026891:Homo sapiens mRNA for cystine/glutamate transporter, complete cds /cds=(235,1740) /gb=AB026891 /gi=5668544 /ug=Hs.225972 /len=1842 34131_at 28.8 P
AF038181 Cluster Incl. AF038181:Homo sapiens clone 23607 mRNA sequence /cds=UNKNOWN /gb=AF038181 /gi=2795901 /ug=Hs.167825 /len=1196 35433_s_at 28.8 A
U92980 Cluster Incl. U92980:Homo sapiens clone DT1P1A10 mRNA, CAG repeat region /cds=UNKNOWN /gb=U92980 /gi=2781398 /ug=Hs.178207 /len=1423 33242_at 28.8 P
AB002318 Cluster Incl. AB002318:Human mRNA for KIAA0320 gene, partial cds /cds=(0,2849) /gb=AB002318 /gi=2224580 /ug=Hs.150443 /len=6865 39765_at 28.8 P

Number(s) sequence derivation based on low enthropy (redundant) number groups (mmd_C.cpp) mmd_C.ZIP is based on 2-byte CEL mean column number values used as 4x4(bit) integer array indexes, were actual array values are index occurence counts . Array entries are sorted in an descending order and their descending 4x4(bit) indexes populate a combinations array holding as much as 4(entries) for a 4(bit) index sequence. Permuting each entry would produce a max of 4*4*4*4 number combinations. Each CEL mean column number value was compared vs each combination entry (that also holds a occurence count) and x6 number sequence vector was produced having (occurence) sums of all 6 matching factor combination entries. Thus, a sequence chart was produced, were high Y axis (linear) regions suggest sequences composed of number (combinations) having high occurence counts.
In mm5751d.cpp each mesured value was (not) index (ed) - range (vs previous indexed value) into xd.txt concerning comparisson of SUM of all equal single factor index entries (from the number serie) divided by (actual) index number value to 2*n poweres , or mmd57531.cpp loge of SUM of all equal single factor index entries .
Ommition of values and substraction of index with previos index value produces the xd.txt right (range) column .

In b16d_2.cpp 16-bit integers were used for computing a decimal attribute for each measured (file input) value .

The derived numeric order as computed by the measured (mean column) values series by mm57531d.cpp and alike mm5751d.cpp from mm57.zip ( at 22.08.2010 v3.3.0 ) , perform nonlinear number groupings similar to those mentioned in the cited Abstract from the article from Discrete Applied Mathematics 155 (2007) 831 ? 839 entitled as Binary templates for comma-free DNA codes from Oliver D. King , Philippe Gaborit :

Abstract

Arita and Kobayashi proposed a method for constructing comma-free DNA codes using binary templates, and showed that the
separation d of any such binary template of length n satisfies d>=n/2. Kobayashi, Kondo and Arita later produced an infinite family
of binary templates with d>=11n/30. Here we demonstrate the existence of an infinite family of binary templates with d>=n/2 -
(18n loge n)1/2.We also give an explicit construction for an infinite family of binary templates with d>=n/2 - 19n1/2 loge n.

© 2006 Elsevier B.V. All rights reserved.

In DNA Sequence Design Using Template © Omsha,Ltd.2002 , By Masanori Arita and Satoshi Kobayashi , published by SpringerLink (15 Febrruary 2002) , and - This paper has been selected to receive the New Generation Computing Award for Distingushed Papers - the authors state :

Abstract

Sequence design is a crucial problem in information-based
biotechnology such as DNA-based computation . We introduce a simple strategy
named template method that sistematically generate a set of sequences
of length l such that any of its member will have approximatively 1/3 mismatches
with other sequences , their complements , and the overlaps of their
concatenations .

Previous and following charts , number series and results were computed by a set of routines , genetic sequence binary factor grouping routines , that are based on a 4x4 bit number (16-bit integer) symbolic , litteral , representation , for the purpose of generating a permuted symbolic sequence , instead of the original , decimal number serie . References to this method may be examined through the following published titles :

Proc. of The Fifth Int. Workshop on Frontiers in Evolutionary Algorithms (FEA 2003) under JCIS 2003 Cary, NC, USA, September 26-30, 2003

Reliable Cost Predictions for Finding Optimal Solutions to
LABS Problem: Evolutionary and Alternative Algorithms

Franc Brglez1, Xiao Yu Li1, Matthias F. Stallmann1 and Burkhard Militzer2
1Computer Science Department, NC State University, Raleigh, NC 27695, USA
2Lawrence Livermore National Laboratory, Livermore, CA 94550, USA

ABSTRACT

The low-autocorrelation binary sequence (LABS) problem
represents a major challenge to all search algorithms, with
the evolutionary algorithms claiming the best results so far.
However, the termination criteria for these types of stochastic
algorithms are not well-defined and no claims have been
made about optimality. Our approach to find the optima of
the LABS problem is based on (1) experiments with problem
sizes for which optimal solutions are known, (2) an asymptotic
analysis of statistics generated by such experiments, (3)
reliable predictions of the cost required to find optimal solutions
for larger problem sizes. The proposed methodology
provides a well-defined termination criterion for evolutionary
and alternative search algorithms alike.
Keywords: fundamental combinatorial algorithms, performance
predictions and evaluations, low-autocorrelation binary
sequence, evolutionary algorithms

THE MERIT FACTOR PROBLEM

PETER BORWEIN, RON FERGUSON, AND JOSHUA KNAUER

Abstract.

The merit factor problem is of considerable practical interest
to communications engineers and theoretical interest to number theorists.
For binary sequences, although it is generally believed that the merit factor
is bounded, it still has not been completely established that the number
of even length Barker sequences, each with merit factor N, is bounded.
In this paper, we present an overview of the problem and results of quite
extensive searches we have conducted in lengths up to slightly beyond 200.

The merit factor, F, of the sequence relates energy in the sidelobes to energy in the main lobe, F = N2 / 2E

GINN AND COMPANY
A Xerox Company
Waltham Massachussets - Toronto - London

TOPICS IN ALGEBRA

I.N.HERSTEIN

Lemma 2.22 Every permutation is the product of its cycles .

These mRNA .CEL (V3) data files were published by the title Cancer Program Datasets at www.broad.mit.edu .
There were computed using this authors method that is motivied by exploration of genetic text complexity as cited by this article (published by www.ncbi.nih.gov) :
On the complexity measures of genetic sequences.

Gusev VD, Nemytikova LA, Chuzhanova NA.

Institute of Mathematics, Siberian Branch of Russian Academy of Science, Novosibirsk, Russia. gusev@math.nsc.ru

MOTIVATION: It is well known that the regulatory regions of genomes are highly repetitive. They are rich in direct, symmetric and complemented repeats, and there is no doubt about the functional significance of these repeats. Among known measures of complexity, the Ziv-Lempel complexity measure reflects most adequately repeats occurring in the text. But this measure does not take into account isomorphic repeats. By isomorphic repeats we mean fragments that are identical (or symmetric) modulo some permutation of the alphabet letters. RESULTS: In this paper, two complexity measures of symbolic sequences are proposed that generalize the Ziv-Lempel complexity measure by taking into account any isomorphic repeats in the text (rather than just direct repeats as in Ziv-Lempel). The first of them, the complexity vector, is designed for small alphabets such as the alphabet of nucleotides. The second is based on a search for the longest isomorphic fragment in the history of sequence synthesis and can be used for alphabets of arbitrary cardinality. These measures have been used for recognition of structural regularities in DNA sequences. Some interesting structures related to the regulatory region of the human growth hormone are reported.

Routine sources are included in mm57.zip ( at 22.08.2010 v3.3.0 ) and results were computed in the in the following order :

(1) Number group (s) (bands) were determined by several runs of mmd_C.cpp , mm5751d.cpp or mm57531d.cpp using increasing number serie multiplication factor ( e.g. 0.8,1,2,4 ... where size of miltiplier would determine band range and CEL number scope) .
So each mult factor would produce band (s) range (s) scale that is most accurate within a limited range of CEL number (s) value (s).
The produced range files were merged (within or by choosen multiplier segment) into a single file e.g. xd.txt regarding number chaining (distances) that will be re-referenced after sequence (s) examination.

(2) mm30315d.cpp run would output CEL array numbers attributed (marked) by band (range) index.

(3) All produced CEL array indexes sectioned by quadrants were permuted in the following way:
e.g. the band index order 123456789 would produce 123, 234, 345, 456 ....
or the following 123456 sequence would permute into 123234345456 .

(4) x6 (number (s)) long permuted sequences represented by 4-bits x4 symbols (A-P for values 0-15) were grouped by binary factor group symbol order . Each group was attributed by the leftmst non-zero x4-bit binary factor segment (s) order number (0-3)
e.g. 1 2 2 2 3 for index sequence ABCC AABA AABD AABC AAAB

(5) ims.cpp would check redundance of each group member outputed by the previous step through the (permuted) CEL file indexes .
It would produce x6 (band) index number long grouped list of redundant index sequences .

(6) a2_t.cpp would compute index to index range (s) based on each produced redundant sequence , output grup file naming would be used for group permutations (s) matching .
Spredsheet document chart curve would display (redundancy) count vs index number (s) axis ( for a single index group file ).

(7) Multiple scan results name (s) cross section of previous file (sets) will determine complex sequence redundance (absence) .
Conjunction of these factor groups builds a unique sequence set expression (cs_1.cpp , while cat_1.cpp would output unique eg tumor sequences ) . Image bellow present probe set (scans pt1 - pt3 3 probe sets) (CEL files) (y axis) vs unique seqence frequency (x axis) from:
Gene Expression-Based Classification and Outcome Prediction of Central Nervous System Embryonal Tumors .

(*) Results were matched against xd.txt number values referenced by binary index grouping bands using mm5751d.cpp on selected columns from a choosen sequence group file .
(**) All computed data and corresponding sequences depend on ( binary ) multiplier values .
Their values determine the contents of the abstract of binary base groups inside each of the 4x4 bit ( symbol ) integers and the base indexes produced from the measured values on the base of their ranges , so different ( sequence ) abstraction levels may get computed . While low abstraction levels may be used for a single band subgrouping , high level abstraction may be used eg for a mass sequence comparisson . It is upon the examiner to decide which sequencing may be used .

(!) The term compression (in the cited article - Ziv-Lempel compression) and its relation to (number series) enthropy grouping is shown (and explained) in the following (principia example , but functional) compression rotine .
This routine logic (in an abstracted sense) was used in the computed genetic number series and their results .
(!!) mc_13.zip ( at 28.03.2010 v1.0.1 ).
(!!!) In this context the vector array aq(holding two indexes and number diff.) and its index count aqi corespond o the term complexity measure .
The less the aqi count is input file data serialization will have larger enthropy and opposite .
And the aq array index combination (s) would state the input file number series sequence (s) complexity .
(!!!!) Composing long text sequences from number series derived number bands and their combinations . text_file_context_build_201_1.zip ( at 29.04.2010 v2.0.1 ).

To Borce Dzinleski

These routines were written by Dzinleski Jasenko jasenko@unet.com.mk who is the author of C/C++ based routines for encryption/decryption, large numbers operations, the 123SQL database engine and the simplified mariaBasic interpreter which are undergoing projects . This project is self-financing and any contributions are welcomed .

This site resulted in years long support from Borce and Dusica Dzinleski and is devoted to them and especially to my daughter Maria Dzinleska and the faith from Nada (Faith) Popstefanova .The author is currently seeking for a developers job and this is his cv.

IMPLEMENTATION

RIFF(WAV) COMPRESSION (principia example)

This is a binary compression implementation on PDA recording device output file (16 bit, 8000 Hz, 128 kbps Wav). This functional example performs looseless wav compression on PDA recording file up to 350 sec.

08.07.2008 VRM 1.0.0 Download File mar70.zip

BYTE ORDER COMPRESSION

mdiff and boc routines byte order compression utilization via (re) occuring 2-byte order pairs indexing . This routine processes each data byte and next data byte pair (s) through this C/C++ code ((((b8e&<data byte>)>>1)^((b8e&<next data byte>)>>1))<<1)|((b8o&<data byte>)^(b8o&<next data byte>)) where b8e is an 8-bit even bit mask and b8o is an 8-bit odd bit mask . Thus 2-byte (s) order (sequence) is truncated into a single byte field . Two byte resultant field (s) consisting of byte 1, byte 2 and byte 2, byte 3 for a single 16-bit dictionary entry . Thus compressed data results in ( (re) occuring entries) index number order . Index entries are bit truncated when written to the compressed data output file . Compression dictionary produced while compressing typical ASCII data file eg source code or HTML code is relatively small and average compression gains in such files are good .

12.09.2008 VRM 1.1.0 Download File e1173.zip
26.05.2010 VRM 3.0.7 Download msearch , mdiff , boc and byte order compression in bp_tools_307_1.zip

6-bit BINARY COMPRESSION

This is a fast compression routine based on a 4-byte data word translation via 6-bit bit parity table . 6 bit table entries were computed by ommitting last two bits (having decimal values 1 and 2) in a single byte (0 to 255) giving 64 index entries combination (s) per data byte . Also all truncation entries from a 4-byte data word have only 256 combination (s) . The 4 6-bit (truncated) dictionary entries are (re) indexed and writen to a compressed data output file in a truncated index number order having (binary) length (s) from 7 to 18 bits compared to the original data 32 bit (word) length . Useful for compressing large document data files (binary and text data documents) . Yet compression gain in ASCII data files is obvious due to short binary length of index number entries .

30.03.2010 VRM 3.5.1 Download File mar6_351_1.zip

BINARY COMPRESSION 79

This a binary compression based on 2-byte data word right (low) bit truncation dependent on max of dictionary (re) occurences for each data buffer . Thus such (truncated) dictionary entries represent most of input data buffer . Dictionary entries are written to the compressed data file in a left truncating manner with the leftmost significant bit ommited , having 7 to 16 bits in length . This method performs fast and efficient data storage . This routine performs principia used in the bellow listed methods .

14.08.2010 VRM 3.1.3 Download File mar79_313_1.zip
18.08.2010 VRM 4.0.1 Download File mar79_401_1.zip
20.08.2010 VRM 4.1.1 Download File mar79_411_1.zip

BINARY TEXT COMPRESSION

This is a fast and efficient compression example that executes fast input data indexing and dictionary occurrence search based on binary 4x4-bit long data samples . Indexed sequences are checked vs variable data length buffer .
Thus this compression method gains speed concerning strict 4x4(16) - bit long dictionary patterns . This routine is subject of further development .

04.09.2007 VRM 1.3.3 Download File mar9.zip

BINARY COMPRESSION ROUTINE

Binary compression methods are widely used in communications, data storage and numeric analysis. Exploring genetic complexity numeric sequences employ such methods. Some of them are presented on this site together with a command-line Win32 implementation (s) that demonstrates the capability of compression of large ASCII data files and binary files and also slightly modified in numeric data sequence analysis. This binary compression method is based on numeric sequence generated by the following binary formula as presented by the C/C++ syntax: #define op_7(x,y)(((x+y)^y)|(((x&y)!=0)?(x&y)/y:0)) . This numeric sequence represents all numbers from 0-255(8-bit) for 0-127(7-bit) arguments in an x-y matrix manner . When always x=y and x:0-127 it results in all 8-bit odd numbers . When applied on a 2-byte data sequence it results in 14 or less bits long index . Combined together with one 1-bit substract indicator it will allow compression . Using these arguments as dictionary entries coded by hi/lo/length indicators whose reocurring indexes are stored instead of the input data allows gain of an average 30% compression in large ASCII text files . This numeric sequence formula was generated by another routine written for the purpose of exploring numeric sequences generation .This is an compression Win32 command-line tool based on binary compression . This example states the speed and efficiency of this static large ASCII files compression method .

04.09.2007 VRM 1.3.3 Download File mar.zip

BINARY COMPRESSION 77

This is a binary compression based on 2-byte long data binary shifting concatenation (bit density increase) into dictionary entries that are left truncated (common in ASCII data text files) . Compression gain depends on data redundancy in an inverse meaning . The larger the enthropy compression will increase .

04.06.2008 VRM 1.1.0 Download File mar77.zip

BINARY FACTOR GROUPING COMPRESSION ROUTINE

This compression example uses binary pattern indexing by 2-byte sequence bit truncation from 16-12 bits in order to gain max of dictionary occurrence . This compression method is a compression gain vs unoptimized compression speed compromise .
This example states the correctness of the genetic text complexity display routine since its dictionary covers most of the numeric sequences occurrence . Yet this compression example is subject of further development .

21.09.2007 VRM 1.4.0 Download File mar73.zip

ASCII TEXT FILE FAST SORT/INDEXING Routine

This is a fast sorting/indexing example that builds a file position sorting tree as a result of n-depth text file line byte sorting . The sorted sequence tree may expand to further depth levels , this routine uses default depth 6. It exibits fast sorting of a text file up to the size 100K lines/rows .
E.g.: C:\msort3 -f "War and Peace NT.txt"

30.10.2007 VRM 1.3.1 Download File msort3.zip

MCALC Simple Calc routine

This is a simple CALC screen routine .
The -d2 or -d4 or -d6 command line switch stands for number of decimal places . Keyboard input exit char is q and reset char is c .

09.10.2009 VRM 1.0.1 Download File mcalc.zip

MDUMP ASCII Text File Sequence Redundance Dump

This is a ASCII text file dump method that finds text data sequences inside a ASCII text file . Usefull for creating text file data sentence definition (s) .

18.09.2009 VRM 2.0.1 Download File mdump3.zip

MDADD STRING DATE ADD

This is a string date add routine that computes add of start date with increment in days, months and (or) years . Comand line switches requires the start date string, increment string input together with a date formating string eg mdadd 20081008 00010000 YYYYMMDD (for adding 1 year) .

16.11.2008 VRM 1.1.1 Download File mdadd.zip

MDDIFF STRING DATE DIFFERENCE

This is a string date difference routine that computes difference between two date strings in days, months and years . Comand line switches require two date (s) string input together with a date formating string eg mddiff 19591117 20081008 YYYYMMDD .

08.10.2008 VRM 1.1.0 Download File mddiff.zip

MDIFF FILE COMPARE

This is a file compare routine based on a bit parity comparisson of 2-byte sequences . Hashing was built on sequenced use of this C/C++ code ((((b8e&<data byte>)>>1)^((b8e&<next data byte>)>>1))<<1)|((b8o&<data byte>)^(b8o&<next data byte>)) where b8e is an 8-bit even bit mask and b8o is an 8-bit odd bit mask , examined via byte sequence group (s) count (file 1 vs file 2) compare . Command line requires file 1 name and file 2 name resulting in fast comparrison result message . The -d (detail) switch displays all difference (lines) . Useful for file compare and change tracking in document and source code files .

26.05.2010 VRM 3.0.1 Download File mdiff_301_1.zip

BIT PARITY BYTE ORDER FILE CHECKSUM

This is a file fingerprint routine that outputs cheksum number (s) file . Hashing was built on sequenced use of this C/C++ code ((((b8e&<data byte>)>>1)^((b8e&<next data byte>)>>1))<<1)|((b8o&<data byte>)^(b8o&<next data byte>)) where b8e is an 8-bit even bit mask and b8o is an 8-bit odd bit mask . Sequenced number treshold count was computed with comarisson of original byte (bit parity) result vs generated result . Number point (s) were computed inside a 1024 byte file buffer and stored (XOR op) inside a 512 number sequence consequently . The output fingerprint file numbers state data order and integrity eg when compared vs same file (copy from restore or data transfer) cheksum (s). Command line requires input filename and cheksum output filename . Usefull for building cheksum list (s) of important data archive (s) .

25.03.2009 VRM 1.3.0 Download File bp_boc3.zip
26.05.2010 VRM 3.0.7 Download msearch , mdiff , boc and byte order compression in bp_tools_307_1.zip

THE RANDOM KEYS DISTRIBUTION ENCRYPTION ROUTINE

This is a strong encryption method based on a 4 number keys random number distribution . The 4 (5 - digit) number keys provide strong encryption protection due to message hashing that is provided on random number (s) generation where the inputed keys are used as random seeds . Each user choosen key is randomized and message hash is produced with a different randomizing method . Execution requires usage of the following command line switches:

eg r71 -a 11111 -b 22222 -c 33333 -d 44444 -e < filename to encrypt>
and to decrypt eg r71 -a 11111 -b 22222 -c 33333 -d 44444 -f < filename to decrypt>

where the numbers following the -a -b -c and -d switches are user chosen encryption 5 digit number keys.

1.1(min)... minmv=999; for(l=0;l<rsi;++l) { if(n=0\|\|l==0){n=rs[l][1];continue;} if(n==rs[l][1]\|\|n+1==rs[l][1]\|\|n-1==rs[l][1]){n=rs[l][1];}else{ if(minmv>rs[l][2]){minmv=rs[l][2];minl=l;} n=0; } } if(df){printf(" %d",rs[minl][0]%outm);} htable[hti_dmin][0]=rs[minl][0]%outm;++hti_dmin; ...	1.2(max)... maxmv=0; for(l=0;l<rsi;++l) { if(n=0\|\|l==0){n=rs[l][1];continue;} if(n==rs[l][1]\|\|n+1==rs[l][1]\|\|n-1==rs[l][1]){n=rs[l][1];}else{ if(maxmv<rs[l][2]){maxmv=rs[l][2];maxl=l;} n=0; } } if(df){printf(" %d",rs[maxl][0]%outm);} htable[hti_dmax][1]=rs[maxl][0]%outm;++hti_dmax; ...
2.1(min)... minmv=999; for(l=0;l<rsi;++l) { if(n=0\|\|l==0){n=rs[l][1];continue;} if(n==rs[l][1]\|\|n+1==rs[l][1]\|\|n-1==rs[l][1]) { n=rs[l][1]; if(minmv>rs[l][2]){minmv=rs[l][2];minl=l;} }else{n=0;} } if(df){printf(" %d",rs[minl][0]%outm);} htable[hti_rmin][3]=rs[minl][0]%outm;++hti_rmin; ...	2.2(max)... maxmv=0; for(l=0;l<rsi;++l) { if(n=0\|\|l==0){n=rs[l][1];continue;} if(n==rs[l][1]\|\|n+1==rs[l][1]\|\|n-1==rs[l][1]) { n=rs[l][1]; if(maxmv<rs[l][2]){maxmv=rs[l][2];maxl=l;} }else{n=0;} } if(df){printf(" %d",rs[maxl][0]%outm);} htable[hti_rmax][3]=rs[maxl][0]%outm;++hti_rmax; ...

(1) Each of the entered key numbers resultant distribution series (3-133)*(3-7) according to these criteria are written in a 4 column table
(2) Each table is hashed according the bellow listed binary criteria
(3) The 4 resulting tables are then re-hashed using the same binary criteria.

One out of the 4 functions running inside this encryption was used in the Game of life which is listed for download, and it states the diversity of random number distributions produced .

Try looping this encryption in the following way:

Step 1.C:\r7 -a <key1 number> -b <key2 number> -c <key3 number> -d <key4 number> -e "filename.txt"
Step 2.C:\r7 -a <key5 number> -b <key6 number> -c <key7 number> -d <key8 number> -e "previous_output.mar"
...
...
Step n.

and repeat it in the same manner n times until the desired security level is gained .

18.12.2007 VRM 1.3.3 Download File r7.zip

MARIAHASH THE ENCRYPTION ROUTINE

This is a fast encryption routine using proprietary hashing method. Cypher strength depends on a large hashing number and password length . password text must be entered in a password.txt file and should have between 50 and 100 char(s) .This routine was written by the authors wish to try to improve message privacy while sent across the networks .

09.06.2007 VRM 1.3.0 Download File 79923.zip

THE 123SQL DATABASE ENGINE

This is an undergoing project aimed to construct a small portable SQL database engine for PDA's, and this is a functional browsing engine that contains data and sample browsing statements . Data may be imported together with table/column creation . Typically the source data may be spreadsheet column TAB delimited export data . Database/table/column creation may be viewed in the included code following the -c switch . Table names and column names and field byte sizes should be specified, but column/field lengths my also vary in size row by row . The engine performs SQL keyword/syntax checking using the syntax/keywords list files included . Object names check and object attributes read is performed in the system database files named 123SQL_db_1.mar and 123SQL_db_2.mar . Database structure allows multiple object browsing . The sorting/searching routines require low machine resources thus meeting most modern PDA specifications and their sources were also published under different names .
This project was founded on the authors' unique relational database engine structure design . The 123SQL engine requires the following command line syntax:

E.g.: C:\910791 -d "Sample"
for attaching and browsing the included database, where Sample is the database name included . When

E.g.: C:\910791 -c "import_data_file.txt"
the engine will create a database table and table columns as specified in the included create.txt syntax and import the data from the file name specified after the -c switch . Number of column definitions and TAB delimited fields must match, if specified column length is greater than data length space justification will occur . Supported SQL like data browsing syntax is :

{select}

{*|column_name|column_name_1,...column_name_n}

{from}

{table_name|table_name_1,...table_name_n}

[where

|[column_name=string_litteral|column_name>string_litteral|column_name<string_litteral]

|[column_name>string_litteral and column_name<string_litteral]

|[column_name[>|<]string_litteral and column_name=string_litteral]

|[column_name=string_litteral or column_name=string_litteral or column_name=string_litteral]

|[column_name>string_litteral and column_name<string_litteral and column_name=string_litteral]

]

123SQL 15.04.2008 VRM 1.5.0 Download file 123SQL.zip

The MariaBasic Interpreter

The Maria Basic Interpreter is a command-line programming tool - interpreter aimed to help PDA users code formula/calculations, string and file procedures that execute on their handhelds. The included source code may easily (re) compile for various OS/CPU architectures , since it was written in ISO/ANSI C and requres moderate machine resources . Interpreter design allows fast execution of basic syntax like procedures with calculations and file/string operations. Its simplified syntax allows basic programming skills and may be used for learning , but may expand to execution of rather complex routines . This interpreter allows basic like (simplified) syntax commands like nesting, statement loops, and conditional execution. The ZIP archive ready for download includes a few txt files which are sample basic syntax supported nesting and file/string function example (s) . Source procedures may execute with a command line stating:

E.g.: C:\mariaBasic -e "mb_303_sorting_1.txt".
The mb_303_arraylikecount_1.txt , mb_303_permutations_1.txt and mb_303_sorting_1.txt example sources show the code structure necessary to supply for program execution .Supported routine code syntax is :

MariaBasic 3.0.0.3 Program Structure:

1. Coding convention (s)

(<string constant> is a single quoted literal)

(<num constant> is a number literal having [0-9,.] )

(<varname> is a string literal having [_,a-z,A-Z,0-9] + type declaration [%|&|#|$])

(type declaration [%|&|#|$] where % EQ integer data type , where & EQ 2x integer data type , where # EQ double data type , and $ EQ <=256 char data type)

(logical operator (s) are and , or , xor)

(relation operator (s) are > , < , = , >= , <= , <> )

2. Program body

1.Declarations:

2. Statements | Simple Block Statements | Nested Block Statements | Declarations | Comments

3. end Statement

- Comments:

rem <string constant>

- Declarations:

variable declaration (s):
{
[varname$=’<string constant>|’]|[varname%=<num constant>|0]|[varname&=<num constant>|0]| [varname#=<num constant>|0]
}

- Statements:

relation expression logical evaluation statement:

{

varname[%|&]=(varname[%|&|#|$][=,<>,>,<,>=,<=]varname[%|&|#|$]

[ or , and , xor ]

[ varname[%|&|#|$][=,<>,>,<,>=,<=]varname[%|&|#|$])

}

calculation statement:

{

varname[%|&|#]=[[varname[%|&|#]|[<num constant>]][^,*,/,+,-][[varname[%|&|#]|[<num constant>]]

}

string concatenation statement:

{

varname$=varname$+ varname$

}

string function statement (s):

{

varname[%|&]=len$( varname$)

varname[%|&|#]=val$( varname$)

varname$=trim$( varname$)

varname$=left$( varname$, <num constant>)

varname$=right$( varname$, <num constant>)

varname$=mid$( varname$, <num constant>, <num constant>)

varname$=format$( varname[%|&|#],<string constant>)

varname[%|&|#]=round$(varname#)

}

file operation statement (s):

{

open varname$ for [input]|[output] as #<num constant>

input #<num constant>, varname$

print #<num constant>, [<string constant>| varname[%|&|#|$][,]][;]

close #<num constant>

}

console output statement:

{

print [<string constant>| varname[%|&|#|$][,]][;]

}

- Simple Blocks:

simple if end if block:

{

if (<single relation expression>) then

<statements>

end if

}

Simple while wend Block:

{

while (<single relation expression>)

<statements>

wend

}

Simple for next Block:

{

<statements>

next varname[%|&]

}

Nested Block Statement (s) (up to Level 3.)

Nested type 1. Block:

{

if () then

<statements>

end if

for to

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

next

<statements>

if () then

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

end if

<statements>

while ()

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

wend

<statements>

end if

}

Nested type 2. Block:

{

for to

<statements>

for to

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

next

<statements>

if () then

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

end if

<statements>

while ()

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

wend

<statements>

next

}

Nested type 3. Block:

{

while ()

<statements>

for to

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

next

<statements>

if () then

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

end if

<statements>

while ()

<statements>

if () then

<statements>

end if

<statements>

if () then

<statements>

end if

<statements>

wend

<statements>

wend

}

3. End of Program

{end}

This interpreter although functional is subject of further development and changes will occur. This package does not include all BASIC build (in) functions except the standard ones and more are going to get implemented. MariaBasic, when compiled for some PDA's compilers enables a simple but efficient programming PDA tool.

MariaBASIC 27.07.2010 VRM 3.0.0.3 Download file mariaBasic303.zip

MariaBASIC 09.08.2010 VRM 3.0.0.3 Download file mariaBasic303_samples.zip

Jasenko Dzinleski at Download.com

Jasenko Dzinleski at Brothersoft.com

Jasenko Dzinleski at SourceForge.net

mariaBASIC at Brothersoft.com

123SQL at Softpedia.com

123SQL at TigerDirect.com

Here is a pair of routines written in mariaBasic:

rem
rem
rem
rem mariaBasic Sample code
rem
rem example: simple prime check
rem
rem

var1%=0
var2%=0
var3%=0
var5%=0
var6%=0
var7#=0
var8&=0
var9%=0
var10%=0
var11%=0

var13%=299

print "start"
print " "

for var1%=100 to 299

print " ",var1%;

var6%=var1%/2
var7#=var1%/2
var7#=var7#-var6%
var6%=100*var7#

var10%=0+0

for var2%=2 to 298

if var6%=50 then

var7#=var1%/var2%
var8&=var1%/var2%
var7#=var7#-var8&
var8&=1000000*var7#

end if

if var2%>=var1% then

var2%=var13%+1

end if

if var8&>0 then

var10%=var10%+1

end if

if var8&<0 then

var10%=var10%+1

end if

next var2%

var11%=var1%-2

if var10%=var11% then

print "."

end if

next var1%

print " "
print "end"

end

And here is a sample random generator code written in mariaBasic:

rem
rem
rem
rem mariaBasic interreter sample code
rem
rem example: simple random number generator
rem
rem

var1%=1
var2%=1

var3%=11111

var4%=0

var51&=0
var52&=0
var11#=0
var12#=0

var4%=var3%/100

for var1%=3 to 133

for var2%=3 to 7

var11#=1000*var2%/var1%
var12#=var3%/var11#
var51&=var12#*var4%
var52&=var12#*var4%/1000
var52&=var52&*1000
var52&=var52&-var51&
var4%=var4%+1

if var52&>0 then

print " ",var52&;

end if
if var52&<0 then

var52&=-1*var52&
print " ",var52&;

end if

next var2%

var4%=var3%/100

next var1%

end

That is equivalent to the following C/C++ code:

//-----------------------------------------------------
//
// mariaRandom Generator
//
//
// copyright Dzinleski Jasenko 2007 - 2009
//-----------------------------------------------------
#include <stdio.h>
#define seed 11111
#define outr 133
#define inr 7
#define rang 1000

int main()
{

int i,j,k,n;
double v11,v12;
long v51,v52;

printf("\n\n\nThe mariaRandom Generator\n");
printf("\nWritten by Dzinleski Jasenko July,2007\n");
printf("OS Win32 VRM 1.0.1\n\n");

k=seed/100;

for(i=3;i<outr;++i)
{

for(j=3;j<inr;++j)
{

v11=1000*j/i;
v12=seed/v11;
v51=v12*k;
v52=v12*k/rang;
v52=v52*rang;
v52=v52-v51;
++k;

if(v52>0)
{

printf(" %d",v52);

}

if(v52<0)
{

v52*=-1;
printf(" %d",v52);

}

}

k=seed/100;

}

return(0);

}

And here is a game of life using this but yet improoved random number generator

Download a game of life VRM 1.2.1 at 17.07.2007 .
The game of life executes via the following command line switches e.g.:

r31 -s 31193 -g 50
where the number following -s is the random seed number (mostly over 10000) and the number following the -g switch is the number of generations produced (mostly over 5) .
Similar but more sofisticated random key seed number distribution is used in

THE RANDOM KEYS DISTRIBUTION ENCRYPTION ROUTINE providing strong message file encryption.

And here is the same game of life using 100x100 cells that outputs the generations data in a graphics BMP file format .
Download a game of life VRM 1.3.1 at 17.07.2007

THE FAST (ASCII and Unicode) TEXT FILES SEARCH ROUTINE

This is a fast text search routine that allows single (or quoted composite) string search throughout an ASCII or Unicode text (text containing) file(s) . Unicode search will also allow strings containing mixtures of different Unicode table(s).
E.g.:
1. (ASCII search) msearch3 <ASCII_input_filname.txt> <search_string>
2. (Unicode search) msearch3 <Unicode_input_filname.txt>
(search string in Unicode file uarg.txt and search results in Unicode file ures.txt)

03.07.2008 VRM 1.1.1 Download File msearch3.zip

THE FAST ASCII TEXT FILES SEARCH ROUTINE

This is a fast text search routine that allows multi string (up to 10 search strings containing one or more words within) search throughout an ASCII text file . So, each search string (quoted) may have one or more words. The -s switch allows any match, while the -e switch allows only exact match.
E.g.: C:\msearch -s(-e) "package install"+"media"+"component" -f "FreeBSD Handbook.htm"
E.g.: C:\msearch -s(-e) "network devices installation" -f "FreeBSD Handbook.htm"
E.g.:C:\msearch -s(-e) "trodes in his hands" -f "book_sd.txt"
E.g.:C:\msearch -s(-e) "Bezukhov and Natasha"+"Buonaparte Napoleon"+"Pierre" -f "War_and_Peace_NT.txt"
The program output will display all results along with their line number file positions, the unique and composite sentence search phrase matches together with their total occurrence count.

15.04.2008 VRM 1.3.3 Download File msearch.zip

09.04.2010 VRM 1.4.1 Download File msearch_141_1.zip

THE ASCII TEXT FILES SENTENCE CONTEXT SEARCH ROUTINE

This is a text file complex search routine that allows text search build on the context - sentence words concerning a given subject . This search allows automated search criteria build depending on sentence words contents and user choice . Sentence words files and their sentence links are built during the indexing phase for a given text file . After indexing, the routine will display all sentences for a chosen sentence subject (as enlisted in the words file) and allow detailed context search and all sentences display concerning the chosen context .
For the indexing type:E.g.: C:\dp_13_201_1 -f "War_and_Peace_NT.txt"
For the context search type:E.g.: C:\msearch_141_d_1 -s(e) "Bagration" -f "War_and_Peace_NT.txt"
The -s switch enables any match search when d was chosen, and -e switch enables only exact word match. The included files contain the examples book already indexed. Typically the search word is a name, or a subject that is being often described and attributed in the book text . So after viewing/choosing the desired sentence/search combination all text lines containing the chosen words will be displayed . Thus viewing book contents by desired subject details requires smaller amount of time .

15.04.2008 VRM 1.3.0 Download File r113.zip

28.04.2010 VRM 2.0.1 Download File text_file_context_search_201_1.zip

THE FONT IMAGE RECOGNITION ROUTINE

This routine creates a vector shape sequence file (using -i switch) out of an 100x100 pixels 24 bit colour depth black and white image representing a character true type image (font) or character freehand drawing . Then using the -c switch the two index files derived from two different images are compared and graphics match result is displayed .
For the indexing type:
E.g.: C:\cr13 -i "Drawing1.bmp" "Drawing1_Index.txt"
For the comparison of two different index files type:
E.g.: C:\cr13 -c "Drawing1_Index.txt" "Drawing2_Index.txt"
At present the routine builds shape vectors on black/white bitmaps, it does not support different resolution nor colors/color depth.
But how does it work?

(1) indexing, creates vector txt file (that might be the meta character file) out of the bmp image file in the following manner:
- inverts the b/w file matrix (the way human eye sees it),
- searches for quadrants (10x10 pixels sized) with 40/60% b/w ratio, thus finding character image edges (up to 8 pairs in the same row),
- creates vectors out of each quadrant,
- shifts quadrants by (only) few pixels UP since bmp edges do not always REALLY represent character ID curves, repeating vector creation ...
and
(2) comparison of two vector files:
- shifts back all X-axis values subtracting them by absolute minX value,
- computes curve angles out of each quadrant values,
- computes resultant angles out of quadrant pairs building most real character curves,
- compares the two vector files angle pairs,
- computes match statistics .

This development is aimed for PDA users using easier ways for text input.
To Maria Dzinleska

27.04.2007 VRM 1.0.1 Download File cr13.zip

THE ROUTINE THAT GENERATES THE PRIME NUMBERS KEY PAIR OUT OF THEIR PRODUCT

These routines were written during and for the www.rsa.com prime key numbers context that requires finding the exact prime numbers key pair out of a very large (256,512...1024... bits long) product number. The routines were written in java and use the BIGINTEGER java class in order to compute the prime key pair .The starting point routine finds a prime numbers key pair with product_number_bit_length/2 bit length that give sufficient accuracy (near as far as possible) to the product number, the more the preciseness the more the computing time to spend . So the loop that computes the suggested starting prime number pair is limited with the corresponding number of equal product-target significant digits . The remaining procedures consequently perform a very long (all 1's and trailing ZEROS) 111 ... *10^N substraction (s) from the suggested key pair measuring the distance (difference) from the target product number by subsequent multiplication checks . At the point of diverging found and at a certain preciseness (number of equal significant digits) a new key pair may be generated through the first routine . Than the process has to be repeated while gaining more and more equal product-target significant digits .

23.07.2006 Download File Welcome.zip

How do these computations compute a very similar or near prime key pair out of a large product key?

Exmining the bellow listed mariBasic code and its (partial) output shows a few number products appearing at large division loop distances and having a 0000 period between decimal remainder values . Testing those (listed) numbers might prove that most of them are prime numbers . Testing large (200 decimal or more) product keys in this way would take indefinite time . So, the WelcomeQ routine uses a substraction operation on a proposed prime key pair . The routine that generates prime key pairs that have a given decimal target product number match is based on a binary field seed number modification basing only on target match numbers as match search loop starting point . The substractor (having the (decimal) value of e.g. 1111111111000000000000000) shifts the 1111111111 period to the right by approoving that this way truncated prime key pair product matches more and more decimals to the target product number . Actually there are sets of prime kepairs obtaining a certain decimal match .Usually it is necessay to switch between different pairs in order to increase the decimal match of the product . And that is the main iteration of this method sometimes requiring examining and rejecting large number of prime key pairs in order to gain one or more decimal match more . Gaining a 100 decimals precisenes on a common PC computer thus would not be hard to achieve . These computations generate prime keys having computable decimal match gain or complete product number match compared to a given huge product number .

Brief order and explanation of execution steps:

(1) generate 5 or more (depending on computing resources) decimal match places vs known target number prime key pairs (number of generated pairs also depends on computing resources)

(2) start subtracting by a given number of decimal 1 .... 1x10^X and multiplying each of primes in a key pair observing gain or loss in decimal match at product number vs target number . Observe match gain vs number of 1 ... 1 and X in 10^X in the subtraction factor . Thus prime distribution at that number point becomes visible .

(3) choose a prime probe as a base for generating new sets (depending on computing resources) of prime key pairs gaining usually somewhat less decimal match places at product number vs target number .

(4) iterate through the previos steps seeking a point at the prime distribution which indicates the existence of the absolute match key pair .

var1%=0
var2%=1234567
var3%=0
var5%=2
var6%=0
var7#=0
var8&=0
var9%=0
var10%=10000
var191%=0
var111#=0
var19%=10000
var11%=17317
var123%=91127
var13%=13009
var145%=98017
var15%=12251
var162%=98327
var17%=33757

var3%=var2%/2
while(var5%<var3%)

var7#=var10%*var2%/var5%
var8&=var2%/var5%
var8&=var7#-var8&*var10%

if var8&=0 then

print "=";
print var5%;
print "@";
print var7#;
print " ",var191%
var191%=0+0

end if

var191%=var191%+1
var5%=var5%+1
wend

end

=205759@6.000063e+04 1
=205760@6.000034e+04 1
=205761@6.000005e+04 1
=246909@5.000089e+04 41148
=246910@5.000069e+04 1
=246911@5.000049e+04 1
=246912@5.000028e+04 1
=246913@5.000008e+04 1
=308635@4.000087e+04 61722
=308636@4.000075e+04 1
=308637@4.000062e+04 1
=308638@4.000049e+04 1
=308639@4.000036e+04 1
=308640@4.000023e+04 1
=308641@4.000010e+04 1
=411509@3.000097e+04 102868
=411510@3.000090e+04 1
=411511@3.000083e+04 1
=411512@3.000075e+04 1
=411513@3.000068e+04 1
=411514@3.000061e+04 1
=411515@3.000053e+04 1
=411516@3.000046e+04 1
=411517@3.000039e+04 1
=411518@3.000032e+04 1
=411519@3.000024e+04 1
=411520@3.000017e+04 1
=411521@3.000010e+04 1
=411522@3.000002e+04 1

Dzinleski Jasenko - jasenko@unet.com.mk

Mailing Address:
+38922770296
Dositej Obradovik 15/8
1000 Skopje Republic of Macedonia

All published data, executables and sources from this site described above apply to GNU General Public License and can be used, copied, sold, redistributed or used in any other way only by written permission of Jasenko Dzinleski . Copyright (C) from 2001 - 2010 and later by Jasenko Dzinleski
This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version .
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE . See the GNU General Public License for more details .
You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc ., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA .