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Table 1 Descriptive statistics of measurements of individual chips in experiment A and summaries of resulting GEODEX. Five chips (9, 12, 14, 15, and 23) in boldface below consistently have the lowest GEODEX irrespective of the number of blocks.

From: A proposed metric for assessing the measurement quality of individual microarrays

1Chip ID

2Mean

3SD

4CV

5GEODEX[1]

6GEODEX[2]

     

NB = 9

NB = 36

NB = 144

1

298.24

562.15

188.48

0.9948

0.9932

0.9901

0.9863

2

306.96

588.32

191.65

0.9962

0.9950

0.9927

0.9896

3

387.64

799.63

206.27

0.9934

0.9920

0.9890

0.9853

4

309.45

581.16

187.79

0.9951

0.9935

0.9906

0.9868

5

398.48

847.48

212.67

0.9943

0.9929

0.9901

0.9867

6

364.01

822.76

226.02

0.9943

0.9925

0.9892

0.9853

7

403.05

866.67

215.02

0.9925

0.9907

0.9873

0.9831

8

302.11

854.81

282.94

0.9965

0.9957

0.9944

0.9922

9

372.76

818.37

219.54

0.9907

0.9886

0.9847

0.9797

10

482.55

961.08

199.16

0.9932

0.9916

0.9885

0.9847

11

290.04

563.84

194.39

0.9948

0.9934

0.9905

0.9869

12

288.50

687.20

238.19

0.9685

0.9668

0.9624

0.9570

13

343.23

663.09

193.18

0.9941

0.9929

0.9902

0.9868

14

290.12

610.07

210.27

0.9903

0.9887

0.9856

0.9814

15

236.84

482.26

203.61

0.9892

0.9876

0.9843

0.9799

16

261.13

833.62

319.22

0.9976

0.9969

0.9958

0.9940

17

501.95

1014.49

202.10

0.9909

0.9893

0.9863

0.9824

18

309.42

624.82

201.93

0.9938

0.9923

0.9893

0.9856

19

261.58

473.18

180.88

0.9938

0.9926

0.9898

0.9861

20

328.96

668.14

203.10

0.9962

0.9946

0.9917

0.9879

21

281.70

543.55

192.95

0.9952

0.9939

0.9914

0.9881

22

356.03

692.10

194.39

0.9953

0.9939

0.9912

0.9878

23

367.10

840.50

228.95

0.9901

0.9883

0.9849

0.9804

24

395.99

776.34

196.05

0.9959

0.9948

0.9922

0.9891

25

293.60

617.81

210.42

0.9943

0.9930

0.9903

0.9867

  1. 1. Chip ID is the identification number of chip.
  2. 2. MEAN is the average of intensity measurements of gene expression for each chip.
  3. 3. SD is the standard deviation of intensity measurements of gene expression for each chip.
  4. 4. CV is the coefficient of variation of intensity measurements of gene expression for each chip.
  5. 5. GEODEX[1] is a geography index calculated by model (1).
  6. 6. GEODEX[2] is a geography index calculated by model (2) (NB = the number of defining blocks per chip).