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Table 1 List of involution-specific genes clustered with the use of Pearson correlation clustering

From: Involution of the mouse mammary gland is associated with an immune cascade and an acute-phase response, involving LBP, CD14 and STAT3

DMT probe set

Log ratio

Gene description

DMT probe set

Log ratio

Gene description

Cluster 1

  

Cluster 3

  

100034_at

3.42

Maspin

102761_at

1.47

GrpE-like 2, mitochondrial

102712_at

3.27

Serum amyloid A3

162011_f_at

1.15

Ras homologue gene family, member U

98041_at

8.01

Ribonuclease 1, pancreatic

96747_at

1.16

Ras homologue gene family, member U

96056_at

1.42

RhoC

103065_at

1.66

Solute carrier family 20, member 1

160686_at

2.07

Hypothetical transcription factor

93435_at

8.41

Cytochrome P450, 24

101996_at

1.53

Protein tyrosine phosphatase, non-receptor type 2

95348_at

2.27

GRO1 chemokine (C-X-C motif) ligand 1, GRO1/CXCL1

95462_at

2.11

HFB2 homologue

95745_g_at

1.33

ATPase, H+ transporting, lysosomal (vacuolar proton pump), alpha 70 kDa, isoform 1

99633_at

1.65

Neurochondrin-1

94734_at

4.14

α1-acid glycoprotein 2, orosomucoid 2

101892_f_at

0.86

Fused toes

92312_at

1.33

Phosphatidylinositol 3-kinase p170

104340_at

1.4

Methyl-CpG binding protein, MBD1

98910_at

0.84

Homology to ETS-domain protein ELK-1 from rat

99582_at

1.27

Tumour-associated calcium signal transducer 1

   

103059_at

1.44

MAT8, FXYD domain-containing ion-transport regulator 3

161139_f_at

1.8

DDEF1/development and differentiation enhancing 1

101583_at

0.89

B-cell translocation gene 2, anti-proliferative

   
   

Cluster 4

  

100893_at

1.6

Serine palmitoyltransferase, long chain base subunit 2

100136_at

1.15

Lysosomal membrane glycoprotein 2

   

101055_at

1.11

Protective protein for β-galactosidase

96657_at

1.81

Spermidine/spermine N1-acetyl transferase

103812_at

3.31

Chloride channel calcium activated 1

93017_at

2.16

Syntenin

101389_at

1.93

scavenger receptor class B, member 2

104725_at

2

Small ras-like GTPase Tc10

93728_at

2.73

Transforming growth factor β1 induced transcript 4, TSC-22

93220_at

2.33

Procollagen, type IV, α 5

   

101995_at

1.59

Sequestosome 1

101587_at

4.37

Microsomal epoxide hydrolase (Eph1), allele b

160713_at

2.71

Arsenite inducible RNA-associated protein (Airap)

96119_s_at

3.32

Angiopoietin-like 4

   

97420_at

4.04

Leucine-rich α2-glycoprotein

95674_r_at

2.71

Brain-abundant membrane-attached signal protein 1

102114_f_at

3.7

Angiopoietin-like 4/fasting-induced adipose factor FIAF

160894_at

2.48

CCAAT/enhancer binding protein (C/EBP), δ

   
   

Cluster 5

  

95673_s_at

6.11

Brain-abundant membrane-attached signal protein 1

100513_at

2.39

DDEF1/development and differentiation enhancing

104701_at

2.42

Basic helix–loop–helix protein B2/DEC1

93281_at

0.89

Taipoxin-associated calcium-binding protein 49 mRNA, reticulocalbin2

Cluster 2

     

95746_at

1.34

ATPase, H+ transporting, lysosomal (vacuolar proton pump), α 70 kDa, isoform 1

96738_at

1.61

Metalloprotease/disintegrin/cysteine-rich protein precursor (MDC9)

97492_at

1.41

Hypothetical protein with thioredoxin domain

100565_at

1.95

Glucosamine-6-phosphate deaminase

94850_at

1.17

Acyl-coenzyme A thioesterase 3, mitochondrial

103503_at

2.06

Phospholipase Cγ2 (phosphatidylinositol-specific)

95622_at

1

Host cell factor homologue

160127_at

1.01

Cyclin G1

101410_at

2.96

Claudin 4/mCPE receptor

97948_at

3.39

Retinoblastoma 1

160106_at

1.73

Capping protein (actin filament), gelsolin-like

   
   

Cluster 6

  

103305_at

3.52

Integrin β4

162479_f_at

0.89

Ferritin light chain 1

98151_s_at

1.06

Catenin Src

97529_at

3.12

Annexin 8

93347_at

0.88

RAB24, member of Ras oncogene family

   

Cluster 7

  

Cluster 8 (continued)

  

102255_at

3.41

Oncostatin M receptor

99133_at

1.65

Solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2

162206_f_at

3.85

Suppressor of cytokine signalling 3

102049_at

4.25

Pyruvate dehydrogenase kinase, isoenzyme 4

104155_f_at

1.79

ATF3 (LRG-21)

94881_at

3.49

Cyclin-dependent kinase inhibitor 1A (p21)

93294_at

4.31

Fibroblast inducible secreted protein, connective tissue growth factor

161650_at

1.94

Secretory leukoprotease inhibitor

102362_i_at

3.57

JunB

92858_at

4.89

Secretory leukoprotease inhibitor

93536_at

1.61

Bcl2-associated X protein

96614_at

1.67

Hypothetical protein

103448_at

1.31

S100 calcium binding protein A8 (calgranulin A)

101963_at

1.61

Cathepsin L

   

92851_at

2.06

Caeruloplasmin

95680_at

1.22

Protein phosphatase 1, regulatory (inhibitor) subunit 2

93753_at

1.58

LPS-induced TN factor

   

98088_at

2.6

CD14 antigen

96953_at

1.49

Small inducible cytokine subfamily B (Cys-X-Cys), member 14 /BMAC

101287_s_at

4.71

Cytochrome P450, 2d11

99952_at

7.05

Chitinase 3-like 1

94384_at

1.28

Immediate early response 3

95681_f_at

2.09

Protein phosphatase 1, regulatory (inhibitor) subunit 2

99099_at

0.93

Acute-phase response factor APRF/STAT3

   

102751_at

1.9

Transforming growth factor, β3

Cluster 8

  

102313_at

1.15

GTP cyclohydrolase 1

100313_at

1.54

Integrin α8

   
   

Cluster 9

  

101306_f_at

3.34

Serum amyloid A pseudogene

96679_at

1.25

DnaJ (Hsp40) homologue, subfamily B, member 9

100333_at

2.34

Serum amyloid A2 (SAA-2)

   
   

Cluster 10

  

96123_at

1.69

LPS-binding protein

103016_s_at

2.77

CD68 antigen

96766_s_at

2.2

Receptor tyrosine kinase, Tyro3

95706_at

4.15

Galectin 3

96940_at

0.99

TEA-domain family member 2

98543_at

2.69

Cathepsin S

100491_at

0.84

Solute carrier family 16 (monocarbox. acid transporters), member 2

99071_at

1.42

Macrophage-expressed gene 1, Mpeg1/MPS1

   

104023_at

1.2

Immunoglobulin superfamily, member 7

96592_at

2.39

Phosphatidylinositol 3-kinase, reg. subunit, polypeptide 1 (p85α)

93318_at

2.59

Adhesion molecule ninjurin

  1. The genes are listed in their order of appearance in the gene tree after Pearson correlation clustering. The DMT probe set number refers to the number of the probe on the Affymetrix MG-U74Av2 chip. The log ratio describes the average change of signal intensity between lactation day 7 and the day of highest expression during involution, on a log2 scale. The gene description refers to the description of the probe set on the NetAffx website.
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Breast Cancer Research

ISSN: 1465-542X

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