Results of computing gene formulas

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Gene formulas:

Gene formula 0 : type tumour, 15 samples, 11 genes.
Gene formula 1 : type normal, 18 samples, 13 genes.
Gene formula 2 : type tumour, 11 samples, 12 genes.
Gene formula 3 : type tumour, 10 samples, 6 genes.
Gene formula 4 : type tumour, 8 samples, 1 genes.

Table of gene formula types
Table of gene formula p-values
Distances between gene formulas
Expression values of genes that are conserved in at least one gene formulas
Expression values of genes that are conserved in gene formulas of different types
Genes conserved in gene formulas of different types
Images of gene formulas

Table of Gene formula Types
Gene formula name	0	1	2	3	4
Gene formula type	tumour	normal	tumour	tumour	tumour

Gene formula 0 (type = tumour)

Class normal: 34-normal
Class tumour: 10-tumour, 11-tumour, 13-tumour, 16-tumour, 18-tumour, 21-tumour, 24-tumour, 25-tumour, 26-tumour, 3-tumour, 39-tumour, 4-tumour, 40-tumour, 7-tumour

Detailed information about genes in gene formula

(M76378-1) Human cysteine-rich protein (CRP) gene, exons 5 and 6.

state: [155.812, 582.279] width: 426.467 pval = 1.20350188253383e-08
total #samples in state: 30 #samples to left: 5 #samples to right: 27
pval to left: 0.0127215805079868 pval to right: 1.00002137114306
gene's total range: [9.9578846e+001, 2.6083731e+003] gene's total width: 2508.794254

(T92451) TROPOMYOSIN, FIBROBLAST AND EPITHELIAL MUSCLE-TYPE (HUMAN);.

state: [58.98, 629.794] width: 570.814 pval = 8.59094893535694e-15
total #samples in state: 33 #samples to left: 1 #samples to right: 28
pval to left: 0.260201107915812 pval to right: 1.00000006995656
gene's total range: [3.6388750e+001, 4.6952213e+003] gene's total width: 4658.83255

(R36977) P03001 TRANSCRIPTION FACTOR IIIA ;.

state: [147.778, 423.93] width: 276.152 pval = 2.3813779917528e-11
total #samples in state: 33 #samples to left: 21 #samples to right: 8
pval to left: 6.96525494661908e-10 pval to right: 1.00017086124454
gene's total range: [2.7568750e+001, 1.7326262e+003] gene's total width: 1705.05745

(T60778) MATRIX GLA-PROTEIN PRECURSOR (Rattus norvegicus)

state: [6.3175, 187.465] width: 181.1475 pval = 6.30798960297711e-12
total #samples in state: 26 #samples to left: 0 #samples to right: 36
pval to left: 1 pval to right: 1.00000000027399
gene's total range: [6.3175000e+000, 2.0027738e+003] gene's total width: 1996.4563

(Z49269-1) H.sapiens gene for chemokine HCC-1.

state: [66.225, 159.71] width: 93.485 pval = 2.56511087884493e-10
total #samples in state: 29 #samples to left: 3 #samples to right: 30
pval to left: 0.50629578018093 pval to right: 1.00000838866238
gene's total range: [3.6278333e+001, 7.2791500e+002] gene's total width: 691.636667

(M63391) Human desmin gene, complete cds.

state: [188.366, 966.085] width: 777.719 pval = 2.20071201931669e-14
total #samples in state: 34 #samples to left: 7 #samples to right: 21
pval to left: 3.7931480029082e-05 pval to right: 1.00000083954081
gene's total range: [1.0342625e+002, 5.8323175e+003] gene's total width: 5728.89125

(J02854) MYOSIN REGULATORY LIGHT CHAIN 2, SMOOTH MUSCLE ISOFORM (HUMAN);contains element TAR1 repetitive element ;.

state: [30.1975, 401.69] width: 371.4925 pval = 7.60146251787289e-17
total #samples in state: 40 #samples to left: 2 #samples to right: 20
pval to left: 0.0604638581347584 pval to right: 1.00000643950777
gene's total range: [1.6042500e+001, 2.2217513e+003] gene's total width: 2205.7088

(M76378) Human cysteine-rich protein (CRP) gene, exons 5 and 6.

state: [179.119, 597.594] width: 418.475 pval = 4.28937311911941e-12
total #samples in state: 34 #samples to left: 4 #samples to right: 24
pval to left: 0.103099520473415 pval to right: 1.0000199114853
gene's total range: [1.0508462e+002, 2.6798904e+003] gene's total width: 2574.80578

(T60155) ACTIN, AORTIC SMOOTH MUSCLE (HUMAN);.

state: [126.245, 679.808] width: 553.563 pval = 5.52502516502198e-11
total #samples in state: 29 #samples to left: 2 #samples to right: 31
pval to left: 0.195912296621089 pval to right: 1.00000029172622
gene's total range: [6.8938750e+001, 4.4320925e+003] gene's total width: 4363.15375

(X86693) H.sapiens mRNA for hevin like protein.

state: [14.5525, 170.276] width: 155.7235 pval = 5.91954437029642e-23
total #samples in state: 36 #samples to left: 0 #samples to right: 26
pval to left: 1 pval to right: 1.00000000008518
gene's total range: [1.4552500e+001, 1.8511712e+003] gene's total width: 1836.6187

(M36634) Human vasoactive intestinal peptide (VIP) mRNA, complete cds.

state: [12.831, 112.561] width: 99.73 pval = 1.60615138629316e-14
total #samples in state: 36 #samples to left: 2 #samples to right: 24
pval to left: 0.0039862259969796 pval to right: 1.00000127013362
gene's total range: [1.1859524e+001, 6.6130952e+002] gene's total width: 649.449996

Gene formula 1 (type = normal)

Class normal: 1-normal, 10-normal, 11-normal, 2-normal, 28-normal, 32-normal, 33-normal, 35-normal, 39-normal, 4-normal, 40-normal, 5-normal, 6-normal, 7-normal, 8-normal, 9-normal
Class tumour: 28-tumour, 37-tumour

Detailed information about genes in gene formula

(M22382) MITOCHONDRIAL MATRIX PROTEIN P1 PRECURSOR (HUMAN);.

state: [180.935, 599.976] width: 419.041 pval = 2.16962792847847e-11
total #samples in state: 28 #samples to left: 2 #samples to right: 32
pval to left: 0.608347556102818 pval to right: 1.00000053383843
gene's total range: [5.9206250e+001, 3.7653988e+003] gene's total width: 3706.19255

(H40095) MACROPHAGE MIGRATION INHIBITORY FACTOR (HUMAN);.

state: [134.61, 395.364] width: 260.754 pval = 1.74027445026667e-08
total #samples in state: 26 #samples to left: 2 #samples to right: 34
pval to left: 0.80423612013118 pval to right: 1.00000824724889
gene's total range: [3.8790000e+001, 2.0364362e+003] gene's total width: 1997.6462

(X63629) H.sapiens mRNA for p cadherin.

state: [13.6625, 106.566] width: 92.9035 pval = 2.42081376659965e-10
total #samples in state: 33 #samples to left: 1 #samples to right: 28
pval to left: 0.0710712660564229 pval to right: 1.00000781682849
gene's total range: [1.3036250e+001, 5.4001500e+002] gene's total width: 526.97875

(X53586) Human mRNA for integrin alpha 6.

state: [26.8837, 120.47] width: 93.5863 pval = 1.46468349948229e-15
total #samples in state: 31 #samples to left: 3 #samples to right: 28
pval to left: 0.0836952531200371 pval to right: 1.00000001494469
gene's total range: [1.1215000e+001, 9.5759375e+002] gene's total width: 946.37875

(T86473) NUCLEOSIDE DIPHOSPHATE KINASE A (HUMAN);.

state: [72.0702, 245.635] width: 173.5648 pval = 1.27651466030011e-13
total #samples in state: 32 #samples to left: 4 #samples to right: 26
pval to left: 0.119450803876411 pval to right: 1.00000134238151
gene's total range: [3.0001190e+001, 1.4151964e+003] gene's total width: 1385.19521

(T57619) 40S RIBOSOMAL PROTEIN S6 (Nicotiana tabacum)

state: [844.926, 2225.32] width: 1380.394 pval = 2.17320244664974e-08
total #samples in state: 35 #samples to left: 2 #samples to right: 25
pval to left: 0.949663145703335 pval to right: 1.00152576289291
gene's total range: [4.0698500e+002, 6.3155462e+003] gene's total width: 5908.5612

(U21090) Human DNA polymerase delta small subunit mRNA, complete cds.

state: [46.6298, 183.448] width: 136.8182 pval = 2.57085610303635e-15
total #samples in state: 32 #samples to left: 6 #samples to right: 24
pval to left: 0.0105587031575987 pval to right: 1.00000026247209
gene's total range: [9.0940476e+000, 1.2633440e+003] gene's total width: 1254.2499524

(R36977) P03001 TRANSCRIPTION FACTOR IIIA ;.

state: [42.7488, 194.366] width: 151.6172 pval = 7.5503839812512e-17
total #samples in state: 31 #samples to left: 2 #samples to right: 29
pval to left: 0.105715774368358 pval to right: 1.00000000098621
gene's total range: [2.7568750e+001, 1.7326262e+003] gene's total width: 1705.05745

(M16937) Human homeo box c1 protein, mRNA, complete cds.

state: [134.665, 389.349] width: 254.684 pval = 4.55546753289979e-16
total #samples in state: 38 #samples to left: 2 #samples to right: 22
pval to left: 0.370510042105461 pval to right: 1.00000771373836
gene's total range: [1.0082000e+002, 1.7281712e+003] gene's total width: 1627.3512

(R10066) PROHIBITIN (Homo sapiens)

state: [166.504, 489.129] width: 322.625 pval = 9.59582676331429e-14
total #samples in state: 34 #samples to left: 3 #samples to right: 25
pval to left: 0.639573874138719 pval to right: 1.00002549800342
gene's total range: [4.7573750e+001, 2.3089400e+003] gene's total width: 2261.36625

(U30825) Human splicing factor SRp30c mRNA, complete cds.

state: [112.463, 288.874] width: 176.411 pval = 1.7723178481055e-11
total #samples in state: 36 #samples to left: 5 #samples to right: 21
pval to left: 0.146878248912467 pval to right: 1.00021347345484
gene's total range: [7.1243750e+001, 9.8617500e+002] gene's total width: 914.93125

(X54942) H.sapiens ckshs2 mRNA for Cks1 protein homologue.

state: [16.4375, 227.042] width: 210.6045 pval = 1.27460558719365e-18
total #samples in state: 40 #samples to left: 1 #samples to right: 21
pval to left: 0.235620331118168 pval to right: 1.00000122426208
gene's total range: [1.0379167e+001, 1.4113625e+003] gene's total width: 1400.983333

(T70062) Human nuclear factor NF45 mRNA, complete cds.

state: [89.7775, 315.137] width: 225.3595 pval = 6.20865536545615e-13
total #samples in state: 38 #samples to left: 2 #samples to right: 22
pval to left: 0.860451601427472 pval to right: 1.00033082993503
gene's total range: [2.6332500e+001, 1.1840962e+003] gene's total width: 1157.7637

Gene formula 2 (type = tumour)

Class normal: 12-normal, 36-normal
Class tumour: 1-tumour, 12-tumour, 14-tumour, 2-tumour, 22-tumour, 23-tumour, 38-tumour, 5-tumour, 9-tumour

Detailed information about genes in gene formula

(H77597) H.sapiens mRNA for metallothionein (HUMAN);.

state: [58.3137, 233.488] width: 175.1743 pval = 9.44220623206938e-14
total #samples in state: 24 #samples to left: 2 #samples to right: 36
pval to left: 0.234226602557963 pval to right: 1.00000000001453
gene's total range: [1.6346250e+001, 2.8478338e+003] gene's total width: 2831.48755

(M36634) Human vasoactive intestinal peptide (VIP) mRNA, complete cds.

state: [11.8595, 79.1155] width: 67.256 pval = 3.51968491199819e-13
total #samples in state: 29 #samples to left: 0 #samples to right: 33
pval to left: 0 pval to right: 1.00000000255048
gene's total range: [1.1859524e+001, 6.6130952e+002] gene's total width: 649.449996

(Z50753) H.sapiens mRNA for GCAP-II/uroguanylin precursor.

state: [75.3679, 282.279] width: 206.9111 pval = 3.08082167467709e-07
total #samples in state: 34 #samples to left: 1 #samples to right: 27
pval to left: 3.15724872288963e-06 pval to right: 1.00028168783018
gene's total range: [7.5367857e+001, 9.1977262e+002] gene's total width: 844.404763

(M63391) Human desmin gene, complete cds.

state: [103.426, 779.639] width: 676.213 pval = 3.24254084749896e-19
total #samples in state: 37 #samples to left: 0 #samples to right: 25
pval to left: 0 pval to right: 1.00000002127686
gene's total range: [1.0342625e+002, 5.8323175e+003] gene's total width: 5728.89125

(M76378-2) Human cysteine-rich protein (CRP) gene, exons 5 and 6.

state: [42.1287, 389.765] width: 347.6363 pval = 3.13840357788755e-24
total #samples in state: 40 #samples to left: 1 #samples to right: 21
pval to left: 0.0506020900386147 pval to right: 1.00000000421602
gene's total range: [3.9381250e+001, 3.3211488e+003] gene's total width: 3281.76755

(J02854) MYOSIN REGULATORY LIGHT CHAIN 2, SMOOTH MUSCLE ISOFORM (HUMAN);contains element TAR1 repetitive element ;.

state: [16.0425, 333.625] width: 317.5825 pval = 2.66190685366036e-19
total #samples in state: 40 #samples to left: 0 #samples to right: 22
pval to left: 1 pval to right: 1.00000044005955
gene's total range: [1.6042500e+001, 2.2217513e+003] gene's total width: 2205.7088

(M76378) Human cysteine-rich protein (CRP) gene, exons 5 and 6.

state: [105.085, 503.652] width: 398.567 pval = 4.12063834305417e-11
total #samples in state: 32 #samples to left: 1 #samples to right: 29
pval to left: 9.15016353155343e-06 pval to right: 1.00000124042446
gene's total range: [1.0508462e+002, 2.6798904e+003] gene's total width: 2574.80578

(U25138) Human MaxiK potassium channel beta subunit mRNA, complete cds.

state: [19.395, 101.205] width: 81.81 pval = 2.70506056583904e-13
total #samples in state: 38 #samples to left: 4 #samples to right: 20
pval to left: 0.0851715614035104 pval to right: 1.00008243527639
gene's total range: [7.8250000e+000, 4.3900000e+002] gene's total width: 431.175

(T60778) MATRIX GLA-PROTEIN PRECURSOR (Rattus norvegicus)

state: [12.1962, 463.577] width: 451.3808 pval = 7.32209879122109e-11
total #samples in state: 38 #samples to left: 2 #samples to right: 22
pval to left: 0.0145849983078107 pval to right: 1.00014741585374
gene's total range: [6.3175000e+000, 2.0027738e+003] gene's total width: 1996.4563

(X86693) H.sapiens mRNA for hevin like protein.

state: [23.0325, 126.641] width: 103.6085 pval = 1.60815735663644e-22
total #samples in state: 31 #samples to left: 2 #samples to right: 29
pval to left: 0.0335768240668752 pval to right: 1.00000000000023
gene's total range: [1.4552500e+001, 1.8511712e+003] gene's total width: 1836.6187

(M91463) Human glucose transporter (GLUT4) gene, complete cds.

state: [19.1726, 72.8786] width: 53.706 pval = 8.48368410196727e-12
total #samples in state: 36 #samples to left: 4 #samples to right: 22
pval to left: 0.260891134589254 pval to right: 1.00015377091048
gene's total range: [7.2273810e+000, 2.9266310e+002] gene's total width: 285.435719

(Z49269-1) H.sapiens gene for chemokine HCC-1.

state: [36.2783, 203.825] width: 167.5467 pval = 6.20205494908276e-10
total #samples in state: 38 #samples to left: 0 #samples to right: 24
pval to left: 0 pval to right: 1.00025349497778
gene's total range: [3.6278333e+001, 7.2791500e+002] gene's total width: 691.636667

Gene formula 3 (type = tumour)

Class normal: 3-normal
Class tumour: 15-tumour, 20-tumour, 27-tumour, 29-tumour, 31-tumour, 34-tumour, 35-tumour, 6-tumour, 8-tumour

Detailed information about genes in gene formula

(T92451) TROPOMYOSIN, FIBROBLAST AND EPITHELIAL MUSCLE-TYPE (HUMAN);.

state: [167.861, 735.085] width: 567.224 pval = 7.31925690866942e-10
total #samples in state: 27 #samples to left: 11 #samples to right: 24
pval to left: 1.21510865300587e-06 pval to right: 1.00000079246476
gene's total range: [3.6388750e+001, 4.6952213e+003] gene's total width: 4658.83255

(T60155) ACTIN, AORTIC SMOOTH MUSCLE (HUMAN);.

state: [134.197, 929.467] width: 795.27 pval = 1.1137900642464e-10
total #samples in state: 34 #samples to left: 3 #samples to right: 25
pval to left: 0.066046443272814 pval to right: 1.0000287108525
gene's total range: [6.8938750e+001, 4.4320925e+003] gene's total width: 4363.15375

(M91463) Human glucose transporter (GLUT4) gene, complete cds.

state: [23.1488, 80.0131] width: 56.8643 pval = 8.12929606712274e-12
total #samples in state: 37 #samples to left: 7 #samples to right: 18
pval to left: 0.0566833043178733 pval to right: 1.00040081811445
gene's total range: [7.2273810e+000, 2.9266310e+002] gene's total width: 285.435719

(R87126) MYOSIN HEAVY CHAIN, NONMUSCLE (Gallus gallus)

state: [144.409, 449.804] width: 305.395 pval = 1.65456405217357e-13
total #samples in state: 34 #samples to left: 8 #samples to right: 20
pval to left: 0.0031859073314838 pval to right: 1.00001344093456
gene's total range: [6.0512500e+001, 2.1618975e+003] gene's total width: 2101.385

(J02854) MYOSIN REGULATORY LIGHT CHAIN 2, SMOOTH MUSCLE ISOFORM (HUMAN);contains element TAR1 repetitive element ;.

state: [21.08, 325.045] width: 303.965 pval = 6.02758089854489e-18
total #samples in state: 38 #samples to left: 1 #samples to right: 23
pval to left: 0.132170849672609 pval to right: 1.00000029438219
gene's total range: [1.6042500e+001, 2.2217513e+003] gene's total width: 2205.7088

(X86693) H.sapiens mRNA for hevin like protein.

state: [33.9462, 326.86] width: 292.9138 pval = 1.07777686390124e-17
total #samples in state: 40 #samples to left: 7 #samples to right: 15
pval to left: 4.32981870855182e-06 pval to right: 1.00000447093401
gene's total range: [1.4552500e+001, 1.8511712e+003] gene's total width: 1836.6187

Gene formula 4 (type = tumour)

Class normal: 27-normal, 29-normal
Class tumour: 17-tumour, 19-tumour, 30-tumour, 32-tumour, 33-tumour, 36-tumour

M26383

Detailed information about genes in gene formula

(M26383) Human monocyte-derived neutrophil-activating protein (MONAP) mRNA, complete cds.

state: [36.8675, 311.438] width: 274.5705 pval = 1.63718616207675e-19
total #samples in state: 39 #samples to left: 8 #samples to right: 15
pval to left: 1.00516444831456e-06 pval to right: 1.00000050099865
gene's total range: [1.1376250e+001, 2.0769025e+003] gene's total width: 2065.52625

Distances between Gene formulas

L1 distances between gene formulas
	Gene formula 0 (tumour)	Gene formula 1 (normal)	Gene formula 2 (tumour)	Gene formula 3 (tumour)	Gene formula 4 (tumour)
Gene formula 0 (tumour)	125.92	890.87	184.03	237.99	922.76
Gene formula 1 (normal)	332.97	110.71	263.90	563.11	349.72
Gene formula 2 (tumour)	108.45	613.35	99.56	189.67	574.34
Gene formula 3 (tumour)	170.71	781.67	183.10	153.97	889.34
Gene formula 4 (tumour)	366.42	133.29	297.43	317.18	126.11

Distribution of genes amongst gene formulas

Table of genes that appear in gene formulas
	tumour	normal
M76378
T60155
T70062
J02854
T57619
M26383
U25138
Z49269-1
M76378-1
U30825
M76378-2
M36634
M16937
M63391
T86473
H77597
Z50753
X86693
X63629
M91463
X53586
H40095
M22382
R87126
U21090
X54942
T60778
R10066
T92451
R36977

Genes that are present in gene formulas of different types:

(R36977) P03001 TRANSCRIPTION FACTOR IIIA ;.: Type normal (1) Type tumour (0)

Table of genes that appear in gene formulas of different types
	tumour																																												normal
(R36977) P03001 TRANSCRIPTION FACTOR IIIA ;.