Table 1

Number of probe sets and redundant probe sets used in two-sample t-tests between liver and central nervous system (CNS) cell lines from the GeneLogic dilution dataset.

t-test

Total # PS a (filtered)

# RPS

% RPS

# unigenesb

# unigenes for RPS


Liver 1.25 vs. CNS 1.25

7257

1998

27.53

5812

901

Liver 2.5 vs. CNS 2.5

7329

2017

27.52

5871

909

Liver 5.0 vs. CNS 5.0

7755

2224

28.68

6164

998

Liver 7.5 vs. CNS 7.5

7905

2287

28.39

6265

1021

Liver 10.0 vs. CNS 10.0

7456

2092

28.06

5952

940

Liver 20.0 vs. CNS 20.0

7386

2042

27.65

5906

918


Notation: PS represents probe sets, RPS redundant probe sets. The numbers following Liver and CNS represent cRNA concentration.

a. The total # of probe sets in HG-U95A GeneChip is 12,627.

b. Only those with unigene labels were counted.

Hu and Willsky BMC Bioinformatics 2006 7:12   doi:10.1186/1471-2105-7-12

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