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Table 3 Comparison of microarray and real time PCR data

From: Transcriptional profiling of the LPS induced NF-κB response in macrophages

 

Microarray

Taqman

Gene

1 hr LPS

4 hr LPS

1 hr LPS

4 hr LPS

Chemokines and receptors

CCL3

5.744

2.200

1622 (± 322)

141 (± 27)

CCL3L1

5.708

2.603

56 (± 3)

4 (± 1)

CCL4

4.769

3.399

7047 (± 836)

2481 (± 714)

CCL8 *

1.859

NC

8 (± 2)

94 (± 38)

CCL22

NC

4.021

NC

135 (± 28)

CXCL1 *

1.272

NC

258 (± 41)

250 (± 21)

CXCL2

3.938

2.787

243 (± 85)

68 (± 13)

CXCL8 *

NC

1.957

1016 (± 57)

491 (± 56)

CXCR4

NC

-1.493

NC

-4 (± 1)

Cytokines and receptors

IL-1β

4.649

4.289

3490 (± 254)

1891 (± 135)

IL-1RN *

NC

1.830

4

6 (± 2)

PBEF

1.008

3.029

5 (± 2)

19 (± 1)

TNF-α

4.808

2.116

392 (± 55)

39 (± 4)

Stress

COX-2

3.673

1.333

166 (± 34)

29 (± 8)

SOD2

4.433

5.620

44 (± 7)

264 (± 37)

TXNIP

-3.757

-1.638

-11 (± 2)

-2 (± 1)

Apoptosis

cIAP2 *

NC

1.151

19 (± 3)

112 (± 11)

GADD45β

1.212

1.323

7 (± 1)

8 (± 1)

PDCD4

NC

-1.048

NC

-7 (± 1)

PMAIP1

2.604

NC

7 (± 1)

NC

TNFAIP3

2.905

2.526

104 (± 17)

44 (± 8)

Transcription

C-MYB

NC

-1.584

NC

-5 (± 1)

TOP2α

NC

-1.561

NC

-3

C-REL *

NC

2.869

4 (± 1)

38 (± 3)

IκB-α

4.024

3.006

40 (± 4)

19 (± 2)

NFκB1

1.150

3.427

4 (± 1)

36 (± 2)

Cell cycle and Differentiation

BTG2 *

2.023

NC

116 (± 21)

32 (± 7)

BUB1β

NC

-1.244

NC

-3

ID2

NC

1.299

NC

4 (± 1)

JARID1B π

2.675

4.061

NC

NC

Growth

IGFBP3 *

NC

4.182

43 (± 9)

1420 (± 167)

Adhesion

    

ICAM1 *

NC

1.188

6

70 (± 44)

Miscellaneous

HLA-DRα π

NC

1.593

NC

NC

SMYD5 π

3.699

2.417

NC

NC

  1. Real time PCR results correspond to mean fold change normalised to GAPDH from 3 biological replicates and SEM is indicated. Genes where significantly different results between microarray and Taqman data was observed are indicated with an π. Genes which were originally scored as no change (NC) based on microarray data (at one time point) but where the increased sensitivity of Taqman revealed a change are indicated with an *. Note, any gene that showed a mean fold change between 2 and -2 was scored as NC in Taqman.